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- Sat Oct 7 18:45:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0050184 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050184/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0050184
- 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-555 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- cputime unlimited
- filesize unlimited
- datasize unlimited
- stacksize 10240 kbytes
- coredumpsize 0 kbytes
- memoryuse 10485760 kbytes
- vmemoryuse unlimited
- descriptors 65536
- memorylocked 64 kbytes
- maxproc 1024
- total used free shared buffers cached
- Mem: 65993860 65719592 274268 1762728 0 54206804
- -/+ buffers/cache: 11512788 54481072
- 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: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ User: ntraut Machine: tars-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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: 2017/10/07-16:45:48-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-555 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-6.0.0/0050184
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050184/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050184/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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/SDSU/0050184/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-6.0.0/0050184/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 18:45:51 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/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-6.0.0/0050184/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 18:46:02 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/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-555 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 18:46:02 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.26933
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.26933/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.26933/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.26933/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 18:46:06 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.26933/nu0.mnc ./tmp.mri_nu_correct.mni.26933/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.26933/0/ -iterations 1000 -distance 50
- [ntraut@tars-555:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/] [2017-10-07 18:46:06] 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.26933/0/ ./tmp.mri_nu_correct.mni.26933/nu0.mnc ./tmp.mri_nu_correct.mni.26933/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Number of iterations: 76
- CV of field change: 0.000999319
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.26933/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.26933/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.26933/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 18:47:58 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 18:47:58 CEST 2017
- Ended at Sat Oct 7 18:49:00 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 18:49:02 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6680, pval=0.3663 >= 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-6.0.0/0050184/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/talairach_avi.log
- TalAviQA: 0.97416
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 18:49:02 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-6.0.0/0050184/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-555 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 18:49:02 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.28170
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.28170/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.28170/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.28170/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 18:49:06 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.28170/nu0.mnc ./tmp.mri_nu_correct.mni.28170/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.28170/0/
- [ntraut@tars-555:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/] [2017-10-07 18:49:06] 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.28170/0/ ./tmp.mri_nu_correct.mni.28170/nu0.mnc ./tmp.mri_nu_correct.mni.28170/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Number of iterations: 50
- CV of field change: 0.00133684
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 18:50:12 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.28170/nu1.mnc ./tmp.mri_nu_correct.mni.28170/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.28170/1/
- [ntraut@tars-555:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/] [2017-10-07 18:50:12] 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.28170/1/ ./tmp.mri_nu_correct.mni.28170/nu1.mnc ./tmp.mri_nu_correct.mni.28170/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 43
- CV of field change: 0.00099142
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.28170/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-6.0.0/0050184/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.28170/ones.mgz
- sysname Linux
- hostname tars-555
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.28170/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.28170/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.28170/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/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.28170/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/input.mean.dat
- sysname Linux
- hostname tars-555
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.28170/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.28170/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.28170/ones.mgz --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/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.28170/ones.mgz --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/output.mean.dat
- sysname Linux
- hostname tars-555
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.28170/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.28170/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.28170/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.28170/nu2.mnc ./tmp.mri_nu_correct.mni.28170/nu2.mnc mul 1.04055240595368683110
- Saving result to './tmp.mri_nu_correct.mni.28170/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.28170/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.28170/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.28170/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 9 seconds.
- mapping ( 2, 92) to ( 3, 110)
-
-
- Sat Oct 7 18:52:16 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 18:52:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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
- 0.98431 -0.00075 -0.00842 -2.60933;
- 0.00076 0.93391 0.23857 -23.06819;
- -0.01376 -0.23111 1.03528 21.36047;
- 0.00000 0.00000 0.00000 1.00000;
- processing without aseg, no1d=0
- MRInormInit():
- INFO: Modifying talairach volume c_(r,a,s) based on average_305
- MRInormalize():
- MRIsplineNormalize(): npeaks = 15
- Starting OpenSpline(): npoints = 15
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Iterating 2 times
- ---------------------------------
- 3d normalization pass 1 of 2
- white matter peak found at 110
- white matter peak found at 103
- gm peak at 68 (68), valley at 34 (34)
- csf peak at 34, setting threshold to 56
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- ---------------------------------
- 3d normalization pass 2 of 2
- white matter peak found at 110
- white matter peak found at 110
- gm peak at 64 (64), valley at 31 (31)
- csf peak at 33, setting threshold to 53
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 13 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 18:54:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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=9.0
- skull bounding box = (41, 19, 19) --> (213, 182, 238)
- using (98, 73, 129) as brain centroid...
- mean wm in atlas = 108, using box (77,53,102) --> (119, 93,156) to find MRI wm
- before smoothing, mri peak at 99
- robust fit to distribution - 102 +- 9.8
- 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 = -4.498
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.309348 @ (-9.091, 9.091, -27.273)
- max log p = -4.124539 @ (4.545, 4.545, 4.545)
- max log p = -4.089582 @ (2.273, -2.273, 6.818)
- max log p = -4.071950 @ (-1.136, 1.136, -3.409)
- max log p = -4.039015 @ (1.705, 0.568, 0.568)
- max log p = -4.039015 @ (0.000, 0.000, 0.000)
- Found translation: (-1.7, 13.1, -18.8): log p = -4.039
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.917, old_max_log_p =-4.039 (thresh=-4.0)
- 1.00000 0.00000 0.00000 -1.70455;
- 0.00000 1.03837 0.27823 -20.46469;
- 0.00000 -0.27823 1.03837 12.19563;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.887, old_max_log_p =-3.917 (thresh=-3.9)
- 1.00000 0.00000 0.00000 -1.70455;
- 0.00000 1.11625 0.29910 -32.66261;
- 0.00000 -0.25736 0.96049 19.60020;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 2 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.887, old_max_log_p =-3.887 (thresh=-3.9)
- 1.00000 0.00000 0.00000 -1.70455;
- 0.00000 1.11625 0.29910 -32.66261;
- 0.00000 -0.25736 0.96049 19.60020;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.847, old_max_log_p =-3.887 (thresh=-3.9)
- 1.01750 0.03628 0.00764 -9.33657;
- -0.03331 1.10828 0.23341 -19.07110;
- 0.00000 -0.17744 0.95972 11.79417;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.839, old_max_log_p =-3.847 (thresh=-3.8)
- 1.03599 -0.02945 -0.04152 0.71170;
- 0.03267 1.08168 0.25766 -29.08694;
- 0.03374 -0.20833 0.93347 12.74713;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.834, old_max_log_p =-3.839 (thresh=-3.8)
- 1.01761 -0.00219 -0.00179 -5.39724;
- -0.00018 1.07493 0.28827 -27.95473;
- -0.00129 -0.24706 0.94276 20.85762;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.834, old_max_log_p =-3.834 (thresh=-3.8)
- 1.01761 -0.00219 -0.00179 -5.39724;
- -0.00018 1.07493 0.28827 -27.95473;
- -0.00129 -0.24706 0.94276 20.85762;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.801, old_max_log_p =-3.834 (thresh=-3.8)
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 8 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.801, old_max_log_p =-3.801 (thresh=-3.8)
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 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
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.801 (old=-4.498)
- transform before final EM align:
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 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
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 013: -log(p) = 4.3 tol 0.000000
- final transform:
- 1.01757 0.00665 0.00045 -6.30698;
- -0.00847 1.08007 0.27313 -25.58531;
- -0.00129 -0.22998 0.94957 17.86847;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 2025.949008
- mri_em_register stimesec 1.648749
- 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 157574
- mri_em_register ru_majflt 0
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 0
- mri_em_register ru_oublock 32
- mri_em_register ru_msgsnd 0
- mri_em_register ru_msgrcv 0
- mri_em_register ru_nsignals 0
- mri_em_register ru_nvcsw 82
- mri_em_register ru_nivcsw 6444
- registration took 17 minutes and 21 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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=136 y=96 z=120 r=75
- first estimation of the main basin volume: 1821999 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 18 found in the rest of the brain
- global maximum in x=101, y=93, z=87, Imax=255
- CSF=17, WM_intensity=110, WM_VARIANCE=5
- WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110
- preflooding height equal to 10 percent
- done.
- Analyze...
- main basin size=9436720963 voxels, voxel volume =1.000
- = 9436720963 mmm3 = 9436721.152 cm3
- done.
- PostAnalyze...Basin Prior
- 84 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=105, z=118, r=10967 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=50 , nb = 45568
- RIGHT_CER CSF_MIN=0, CSF_intensity=8, CSF_MAX=39 , nb = -1028897749
- LEFT_CER CSF_MIN=0, CSF_intensity=8, CSF_MAX=40 , nb = 1087512728
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=52 , nb = 1077836325
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=49 , nb = 1076550464
- OTHER CSF_MIN=0, CSF_intensity=23, CSF_MAX=39 , nb = 1078382326
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 50, 43, 40, 59
- after analyzing : 33, 43, 43, 47
- RIGHT_CER
- before analyzing : 39, 39, 40, 65
- after analyzing : 31, 39, 40, 45
- LEFT_CER
- before analyzing : 40, 40, 40, 59
- after analyzing : 30, 40, 40, 44
- RIGHT_BRAIN
- before analyzing : 52, 43, 41, 57
- after analyzing : 34, 43, 43, 46
- LEFT_BRAIN
- before analyzing : 49, 43, 40, 60
- after analyzing : 33, 43, 43, 47
- OTHER
- before analyzing : 39, 57, 78, 95
- after analyzing : 39, 71, 78, 77
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...73 iterations
- *********************VALIDATION*********************
- curvature mean = -0.012, std = 0.012
- curvature mean = 73.435, std = 8.634
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 1.99, sigma = 2.98
- after rotation: sse = 1.99, sigma = 2.98
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 1.99, its var is 2.37
- before Erosion-Dilatation 0.00% 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...45 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1937511 voxels, voxel volume = 1.000 mm3
- = 1937511 mmm3 = 1937.511 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 27.060886
- mri_watershed stimesec 0.462929
- mri_watershed ru_maxrss 831880
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 215302
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 0
- mri_watershed ru_oublock 3336
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1689
- mri_watershed ru_nivcsw 112
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 19:12:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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=27.0
- skull bounding box = (56, 36, 38) --> (200, 182, 210)
- using (104, 85, 124) as brain centroid...
- mean wm in atlas = 107, using box (86,67,103) --> (121, 102,145) to find MRI wm
- before smoothing, mri peak at 105
- robust fit to distribution - 103 +- 9.9
- 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 = -4.440
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.130618 @ (-9.091, 9.091, -9.091)
- max log p = -3.922699 @ (4.545, 4.545, -4.545)
- max log p = -3.922281 @ (2.273, -2.273, 2.273)
- max log p = -3.866064 @ (-1.136, 5.682, -3.409)
- max log p = -3.846840 @ (-0.568, -0.568, -0.568)
- max log p = -3.846840 @ (0.000, 0.000, 0.000)
- Found translation: (-4.0, 16.5, -15.3): log p = -3.847
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.695, old_max_log_p =-3.847 (thresh=-3.8)
- 1.00000 0.00000 0.00000 -3.97727;
- 0.00000 1.03837 0.27823 -21.07383;
- 0.00000 -0.23941 0.89348 29.63912;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.659, old_max_log_p =-3.695 (thresh=-3.7)
- 1.00000 0.00000 0.00000 -3.97727;
- 0.00000 1.06074 0.15923 -9.97843;
- 0.00000 -0.10182 0.92215 4.46649;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 2 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.659, old_max_log_p =-3.659 (thresh=-3.7)
- 1.00000 0.00000 0.00000 -3.97727;
- 0.00000 1.06074 0.15923 -9.97843;
- 0.00000 -0.10182 0.92215 4.46649;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.554, old_max_log_p =-3.659 (thresh=-3.7)
- 0.98002 -0.03485 -0.00829 3.25627;
- 0.03090 1.02549 0.24405 -20.74267;
- 0.00000 -0.20530 0.90211 21.37124;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.554, old_max_log_p =-3.554 (thresh=-3.6)
- 0.98002 -0.03485 -0.00829 3.25627;
- 0.03090 1.02549 0.24405 -20.74267;
- 0.00000 -0.20530 0.90211 21.37124;
- 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=-3.518, old_max_log_p =-3.554 (thresh=-3.6)
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01491 1.03118 0.23763 -18.02869;
- 0.00012 -0.19640 0.90196 20.43950;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.513, old_max_log_p =-3.518 (thresh=-3.5)
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.513, old_max_log_p =-3.513 (thresh=-3.5)
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 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
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.513 (old=-4.440)
- transform before final EM align:
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 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
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 012: -log(p) = 4.0 tol 0.000000
- final transform:
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1276.914879
- mri_em_register stimesec 1.379790
- 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 159501
- 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 132
- mri_em_register ru_nivcsw 3684
- registration took 10 minutes and 55 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 19:23:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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=27.0
- skull bounding box = (56, 36, 38) --> (200, 182, 210)
- using (104, 85, 124) as brain centroid...
- mean wm in atlas = 107, using box (86,67,103) --> (121, 102,145) to find MRI wm
- before smoothing, mri peak at 105
- robust fit to distribution - 103 +- 9.9
- 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
- 0.98385 -0.01813 -0.00432 0.53916;
- 0.01497 1.03481 0.23847 -18.51182;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- INFO: transform used
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (130, 41, 34) --> (197, 153, 212)
- Left_Cerebral_White_Matter: limiting intensities to 113.0 --> 132.0
- 1 of 13 (7.7%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 41, 33) --> (132, 149, 213)
- Right_Cerebral_White_Matter: limiting intensities to 109.0 --> 132.0
- 0 of 8 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (132, 129, 64) --> (182, 169, 123)
- Left_Cerebellum_White_Matter: limiting intensities to 108.0 --> 132.0
- 15 of 20 (75.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (86, 129, 62) --> (131, 168, 124)
- Right_Cerebellum_White_Matter: limiting intensities to 102.0 --> 132.0
- 1 of 19 (5.3%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 115, 103) --> (149, 182, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 0 of 22 (0.0%) samples deleted
- using 82 total control points for intensity normalization...
- bias field = 0.845 +- 0.073
- 0 of 65 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (130, 41, 34) --> (197, 153, 212)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 6 of 123 (4.9%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 41, 33) --> (132, 149, 213)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 3 of 105 (2.9%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (132, 129, 64) --> (182, 169, 123)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 48 of 58 (82.8%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (86, 129, 62) --> (131, 168, 124)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 11 of 30 (36.7%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 115, 103) --> (149, 182, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 57 of 71 (80.3%) samples deleted
- using 387 total control points for intensity normalization...
- bias field = 1.042 +- 0.089
- 0 of 262 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (130, 41, 34) --> (197, 153, 212)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 1 of 171 (0.6%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 41, 33) --> (132, 149, 213)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 3 of 181 (1.7%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (132, 129, 64) --> (182, 169, 123)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 64 of 69 (92.8%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (86, 129, 62) --> (131, 168, 124)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 14 of 41 (34.1%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 115, 103) --> (149, 182, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 133 of 159 (83.6%) samples deleted
- using 621 total control points for intensity normalization...
- bias field = 1.008 +- 0.067
- 0 of 404 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 19:25:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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) = 0.97 (predicted orig area = 8.3)
- label assignment complete, 0 changed (0.00%)
- freeing gibbs priors...done.
- average std[0] = 5.0
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.039
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.859, neg=0, invalid=762
- 0001: dt=129.472000, rms=0.787 (8.425%), neg=0, invalid=762
- 0002: dt=298.548038, rms=0.752 (4.454%), neg=0, invalid=762
- 0003: dt=288.025337, rms=0.739 (1.705%), neg=0, invalid=762
- 0004: dt=168.585366, rms=0.732 (0.944%), neg=0, invalid=762
- 0005: dt=443.904000, rms=0.725 (0.958%), neg=0, invalid=762
- 0006: dt=146.285714, rms=0.720 (0.647%), neg=0, invalid=762
- 0007: dt=443.904000, rms=0.717 (0.487%), neg=0, invalid=762
- 0008: dt=129.472000, rms=0.714 (0.388%), neg=0, invalid=762
- 0009: dt=1183.744000, rms=0.709 (0.699%), neg=0, invalid=762
- 0010: dt=110.976000, rms=0.706 (0.447%), neg=0, invalid=762
- 0011: dt=1183.744000, rms=0.703 (0.372%), neg=0, invalid=762
- 0012: dt=129.472000, rms=0.701 (0.302%), neg=0, invalid=762
- 0013: dt=517.888000, rms=0.700 (0.174%), neg=0, invalid=762
- 0014: dt=517.888000, rms=0.700 (-0.006%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.701, neg=0, invalid=762
- 0015: dt=369.920000, rms=0.698 (0.354%), neg=0, invalid=762
- 0016: dt=443.904000, rms=0.697 (0.137%), neg=0, invalid=762
- 0017: dt=443.904000, rms=0.697 (-0.079%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.702, neg=0, invalid=762
- 0018: dt=268.955466, rms=0.685 (2.416%), neg=0, invalid=762
- 0019: dt=85.705040, rms=0.673 (1.686%), neg=0, invalid=762
- 0020: dt=124.416000, rms=0.669 (0.686%), neg=0, invalid=762
- 0021: dt=92.753623, rms=0.665 (0.625%), neg=0, invalid=762
- 0022: dt=103.680000, rms=0.662 (0.377%), neg=0, invalid=762
- 0023: dt=111.937255, rms=0.659 (0.449%), neg=0, invalid=762
- 0024: dt=80.919540, rms=0.657 (0.311%), neg=0, invalid=762
- 0025: dt=145.152000, rms=0.655 (0.348%), neg=0, invalid=762
- 0026: dt=68.321543, rms=0.653 (0.288%), neg=0, invalid=762
- 0027: dt=145.152000, rms=0.651 (0.331%), neg=0, invalid=762
- 0028: dt=93.257143, rms=0.650 (0.187%), neg=0, invalid=762
- 0029: dt=93.257143, rms=0.648 (0.225%), neg=0, invalid=762
- 0030: dt=93.257143, rms=0.646 (0.316%), neg=0, invalid=762
- 0031: dt=93.257143, rms=0.643 (0.413%), neg=0, invalid=762
- 0032: dt=93.257143, rms=0.640 (0.455%), neg=0, invalid=762
- 0033: dt=93.257143, rms=0.637 (0.507%), neg=0, invalid=762
- 0034: dt=93.257143, rms=0.634 (0.464%), neg=0, invalid=762
- 0035: dt=93.257143, rms=0.631 (0.433%), neg=0, invalid=762
- 0036: dt=93.257143, rms=0.629 (0.386%), neg=0, invalid=762
- 0037: dt=93.257143, rms=0.627 (0.313%), neg=0, invalid=762
- 0038: dt=93.257143, rms=0.625 (0.285%), neg=0, invalid=762
- 0039: dt=93.257143, rms=0.624 (0.223%), neg=0, invalid=762
- 0040: dt=93.257143, rms=0.623 (0.205%), neg=0, invalid=762
- 0041: dt=93.257143, rms=0.622 (0.128%), neg=0, invalid=762
- 0042: dt=93.257143, rms=0.621 (0.153%), neg=0, invalid=762
- 0043: dt=93.257143, rms=0.620 (0.103%), neg=0, invalid=762
- 0044: dt=93.257143, rms=0.619 (0.124%), neg=0, invalid=762
- 0045: dt=93.257143, rms=0.619 (0.074%), neg=0, invalid=762
- 0046: dt=36.288000, rms=0.619 (0.030%), neg=0, invalid=762
- 0047: dt=36.288000, rms=0.619 (0.009%), neg=0, invalid=762
- 0048: dt=36.288000, rms=0.619 (0.014%), neg=0, invalid=762
- 0049: dt=36.288000, rms=0.619 (0.016%), neg=0, invalid=762
- 0050: dt=36.288000, rms=0.618 (0.018%), neg=0, invalid=762
- 0051: dt=36.288000, rms=0.618 (0.019%), neg=0, invalid=762
- 0052: dt=36.288000, rms=0.618 (0.019%), neg=0, invalid=762
- 0053: dt=36.288000, rms=0.618 (0.023%), neg=0, invalid=762
- 0054: dt=36.288000, rms=0.618 (0.018%), neg=0, invalid=762
- 0055: dt=36.288000, rms=0.618 (0.014%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.619, neg=0, invalid=762
- 0056: dt=36.288000, rms=0.618 (0.205%), neg=0, invalid=762
- 0057: dt=36.288000, rms=0.617 (0.022%), neg=0, invalid=762
- 0058: dt=36.288000, rms=0.617 (0.002%), neg=0, invalid=762
- 0059: dt=36.288000, rms=0.617 (0.002%), neg=0, invalid=762
- 0060: dt=36.288000, rms=0.617 (-0.022%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.646, neg=0, invalid=762
- 0061: dt=1.200000, rms=0.645 (0.152%), neg=0, invalid=762
- 0062: dt=0.500000, rms=0.645 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.646, neg=0, invalid=762
- 0063: dt=0.000586, rms=0.645 (0.149%), neg=0, invalid=762
- 0064: dt=0.000000, rms=0.645 (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=0.727, neg=0, invalid=762
- 0065: dt=5.854271, rms=0.700 (3.720%), neg=0, invalid=762
- 0066: dt=4.032000, rms=0.698 (0.298%), neg=0, invalid=762
- 0067: dt=1.250000, rms=0.698 (0.012%), neg=0, invalid=762
- 0068: dt=1.250000, rms=0.698 (-0.011%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.699, neg=0, invalid=762
- 0069: dt=0.000000, rms=0.698 (0.122%), neg=0, invalid=762
- 0070: dt=0.000000, rms=0.698 (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=0.763, neg=0, invalid=762
- 0071: dt=1.024000, rms=0.760 (0.405%), neg=0, invalid=762
- 0072: dt=2.336364, rms=0.754 (0.750%), neg=0, invalid=762
- 0073: dt=1.024000, rms=0.754 (0.091%), neg=0, invalid=762
- 0074: dt=1.024000, rms=0.752 (0.251%), neg=0, invalid=762
- 0075: dt=1.024000, rms=0.750 (0.187%), neg=0, invalid=762
- 0076: dt=1.024000, rms=0.750 (-0.066%), neg=0, invalid=762
- 0077: dt=0.000000, rms=0.750 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.751, neg=0, invalid=762
- 0078: dt=1.024000, rms=0.750 (0.181%), neg=0, invalid=762
- 0079: dt=1.792000, rms=0.749 (0.101%), neg=0, invalid=762
- 0080: dt=1.792000, rms=0.749 (-0.091%), 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=0.707, neg=0, invalid=762
- 0081: dt=0.849099, rms=0.687 (2.798%), neg=0, invalid=762
- 0082: dt=0.080000, rms=0.686 (0.136%), neg=0, invalid=762
- 0083: dt=0.080000, rms=0.686 (-0.083%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.687, neg=0, invalid=762
- 0084: dt=0.028000, rms=0.686 (0.154%), neg=0, invalid=762
- 0085: dt=0.016000, rms=0.686 (0.001%), neg=0, invalid=762
- 0086: dt=0.016000, rms=0.686 (-0.003%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.07979 (19)
- Left_Lateral_Ventricle (4): linear fit = 0.90 x + 0.0 (831 voxels, overlap=0.572)
- Left_Lateral_Ventricle (4): linear fit = 0.90 x + 0.0 (831 voxels, peak = 18), gca=18.1
- gca peak = 0.15565 (16)
- mri peak = 0.12767 (15)
- Right_Lateral_Ventricle (43): linear fit = 0.90 x + 0.0 (1100 voxels, overlap=0.746)
- Right_Lateral_Ventricle (43): linear fit = 0.90 x + 0.0 (1100 voxels, peak = 14), gca=14.5
- gca peak = 0.26829 (96)
- mri peak = 0.07110 (87)
- Right_Pallidum (52): linear fit = 0.90 x + 0.0 (951 voxels, overlap=0.504)
- Right_Pallidum (52): linear fit = 0.90 x + 0.0 (951 voxels, peak = 87), gca=86.9
- gca peak = 0.20183 (93)
- mri peak = 0.07805 (80)
- Left_Pallidum (13): linear fit = 0.88 x + 0.0 (961 voxels, overlap=0.084)
- Left_Pallidum (13): linear fit = 0.88 x + 0.0 (961 voxels, peak = 81), gca=81.4
- gca peak = 0.21683 (55)
- mri peak = 0.06624 (58)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (624 voxels, overlap=0.969)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (624 voxels, peak = 52), gca=52.0
- gca peak = 0.30730 (58)
- mri peak = 0.07819 (61)
- Left_Hippocampus (17): linear fit = 1.02 x + 0.0 (789 voxels, overlap=0.998)
- Left_Hippocampus (17): linear fit = 1.02 x + 0.0 (789 voxels, peak = 59), gca=59.4
- gca peak = 0.11430 (101)
- mri peak = 0.05792 (102)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (52084 voxels, overlap=0.937)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (52084 voxels, peak = 104), gca=103.5
- gca peak = 0.12076 (102)
- mri peak = 0.05627 (102)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (60859 voxels, overlap=0.914)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (60859 voxels, peak = 105), gca=104.5
- gca peak = 0.14995 (59)
- mri peak = 0.03803 (61)
- Left_Cerebral_Cortex (3): linear fit = 1.08 x + 0.0 (17674 voxels, overlap=0.905)
- Left_Cerebral_Cortex (3): linear fit = 1.08 x + 0.0 (17674 voxels, peak = 63), gca=63.4
- gca peak = 0.15082 (58)
- mri peak = 0.03772 (63)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (19694 voxels, overlap=0.998)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (19694 voxels, peak = 59), gca=59.4
- gca peak = 0.14161 (67)
- mri peak = 0.05545 (65)
- Right_Caudate (50): linear fit = 0.95 x + 0.0 (626 voxels, overlap=0.900)
- Right_Caudate (50): linear fit = 0.95 x + 0.0 (626 voxels, peak = 64), gca=64.0
- gca peak = 0.15243 (71)
- mri peak = 0.07921 (75)
- Left_Caudate (11): linear fit = 1.03 x + 0.0 (947 voxels, overlap=0.987)
- Left_Caudate (11): linear fit = 1.03 x + 0.0 (947 voxels, peak = 73), gca=73.5
- gca peak = 0.13336 (57)
- mri peak = 0.04331 (52)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (17318 voxels, overlap=0.964)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (17318 voxels, peak = 54), gca=53.9
- gca peak = 0.13252 (56)
- mri peak = 0.04044 (59)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (15046 voxels, overlap=0.923)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (15046 voxels, peak = 59), gca=58.5
- gca peak = 0.18181 (84)
- mri peak = 0.05013 (76)
- Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (7592 voxels, overlap=0.738)
- Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (7592 voxels, peak = 78), gca=77.7
- gca peak = 0.20573 (83)
- mri peak = 0.05774 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (6156 voxels, overlap=0.872)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (6156 voxels, peak = 88), gca=87.6
- gca peak = 0.21969 (57)
- mri peak = 0.07292 (60)
- Left_Amygdala (18): linear fit = 1.02 x + 0.0 (390 voxels, overlap=0.999)
- Left_Amygdala (18): linear fit = 1.02 x + 0.0 (390 voxels, peak = 58), gca=58.4
- gca peak = 0.39313 (56)
- mri peak = 0.11294 (54)
- Right_Amygdala (54): linear fit = 0.94 x + 0.0 (530 voxels, overlap=1.003)
- Right_Amygdala (54): linear fit = 0.94 x + 0.0 (530 voxels, peak = 53), gca=52.9
- gca peak = 0.14181 (85)
- mri peak = 0.05411 (88)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (6707 voxels, overlap=0.984)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (6707 voxels, peak = 86), gca=86.3
- gca peak = 0.11978 (83)
- mri peak = 0.07377 (82)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (5029 voxels, overlap=0.920)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (5029 voxels, peak = 83), gca=82.6
- gca peak = 0.13399 (79)
- mri peak = 0.04791 (82)
- Left_Putamen (12): linear fit = 1.02 x + 0.0 (2027 voxels, overlap=0.997)
- Left_Putamen (12): linear fit = 1.02 x + 0.0 (2027 voxels, peak = 81), gca=81.0
- gca peak = 0.14159 (79)
- mri peak = 0.05414 (72)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (2266 voxels, overlap=0.918)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (2266 voxels, peak = 74), gca=73.9
- gca peak = 0.10025 (80)
- mri peak = 0.11247 (81)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (11988 voxels, overlap=0.401)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (11988 voxels, peak = 85), gca=85.2
- gca peak = 0.13281 (86)
- mri peak = 0.08178 (89)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1406 voxels, overlap=0.724)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1406 voxels, peak = 89), gca=89.0
- gca peak = 0.12801 (89)
- mri peak = 0.06300 (91)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1846 voxels, overlap=0.851)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1846 voxels, peak = 92), gca=92.1
- gca peak = 0.20494 (23)
- mri peak = 1.00000 (34)
- Third_Ventricle (14): linear fit = 1.46 x + 0.0 (89 voxels, overlap=1.996)
- Third_Ventricle (14): linear fit = 1.46 x + 0.0 (89 voxels, peak = 33), gca=33.5
- gca peak = 0.15061 (21)
- mri peak = 0.09446 (17)
- Fourth_Ventricle (15): linear fit = 0.87 x + 0.0 (556 voxels, overlap=0.922)
- Fourth_Ventricle (15): linear fit = 0.87 x + 0.0 (556 voxels, peak = 18), gca=18.2
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18056 (32)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak CSF = 0.20999 (34)
- gca peak Left_Accumbens_area = 0.39030 (62)
- gca peak Left_undetermined = 0.95280 (25)
- gca peak Left_vessel = 0.67734 (53)
- gca peak Left_choroid_plexus = 0.09433 (44)
- gca peak Right_Inf_Lat_Vent = 0.23544 (26)
- gca peak Right_Accumbens_area = 0.30312 (64)
- gca peak Right_vessel = 0.46315 (51)
- gca peak Right_choroid_plexus = 0.14086 (44)
- gca peak Fifth_Ventricle = 0.51669 (36)
- gca peak WM_hypointensities = 0.09722 (76)
- gca peak non_WM_hypointensities = 0.11899 (47)
- gca peak Optic_Chiasm = 0.39033 (72)
- label assignment complete, 0 changed (0.00%)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.01 x + 0.0
- estimating mean wm scale to be 1.02 x + 0.0
- estimating mean csf scale to be 1.03 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=0.688, neg=0, invalid=762
- 0087: dt=135.724138, rms=0.680 (1.123%), neg=0, invalid=762
- 0088: dt=369.920000, rms=0.675 (0.709%), neg=0, invalid=762
- 0089: dt=129.472000, rms=0.673 (0.320%), neg=0, invalid=762
- 0090: dt=369.920000, rms=0.671 (0.314%), neg=0, invalid=762
- 0091: dt=110.976000, rms=0.670 (0.186%), neg=0, invalid=762
- 0092: dt=517.888000, rms=0.669 (0.190%), neg=0, invalid=762
- 0093: dt=110.976000, rms=0.668 (0.134%), neg=0, invalid=762
- 0094: dt=517.888000, rms=0.667 (0.162%), neg=0, invalid=762
- 0095: dt=129.472000, rms=0.666 (0.088%), neg=0, invalid=762
- 0096: dt=295.936000, rms=0.666 (0.054%), neg=0, invalid=762
- 0097: dt=129.472000, rms=0.665 (0.069%), neg=0, invalid=762
- 0098: dt=517.888000, rms=0.665 (0.062%), neg=0, invalid=762
- 0099: dt=129.472000, rms=0.664 (0.087%), neg=0, invalid=762
- 0100: dt=295.936000, rms=0.664 (0.037%), neg=0, invalid=762
- 0101: dt=295.936000, rms=0.664 (0.023%), neg=0, invalid=762
- 0102: dt=295.936000, rms=0.663 (0.117%), neg=0, invalid=762
- 0103: dt=295.936000, rms=0.662 (0.139%), neg=0, invalid=762
- 0104: dt=295.936000, rms=0.661 (0.096%), neg=0, invalid=762
- 0105: dt=295.936000, rms=0.661 (0.064%), neg=0, invalid=762
- 0106: dt=295.936000, rms=0.660 (0.138%), neg=0, invalid=762
- 0107: dt=295.936000, rms=0.660 (0.052%), neg=0, invalid=762
- 0108: dt=295.936000, rms=0.659 (0.041%), neg=0, invalid=762
- 0109: dt=295.936000, rms=0.659 (0.112%), neg=0, invalid=762
- 0110: dt=295.936000, rms=0.659 (0.010%), neg=0, invalid=762
- 0111: dt=295.936000, rms=0.658 (0.036%), neg=0, invalid=762
- 0112: dt=295.936000, rms=0.658 (0.089%), neg=0, invalid=762
- 0113: dt=295.936000, rms=0.658 (0.041%), neg=0, invalid=762
- 0114: dt=295.936000, rms=0.657 (0.034%), neg=0, invalid=762
- 0115: dt=295.936000, rms=0.657 (0.088%), neg=0, invalid=762
- 0116: dt=295.936000, rms=0.656 (0.076%), neg=0, invalid=762
- 0117: dt=295.936000, rms=0.656 (0.073%), neg=0, invalid=762
- 0118: dt=295.936000, rms=0.655 (0.088%), neg=0, invalid=762
- 0119: dt=295.936000, rms=0.655 (0.083%), neg=0, invalid=762
- 0120: dt=295.936000, rms=0.654 (0.107%), neg=0, invalid=762
- 0121: dt=295.936000, rms=0.653 (0.090%), neg=0, invalid=762
- 0122: dt=295.936000, rms=0.653 (0.085%), neg=0, invalid=762
- 0123: dt=295.936000, rms=0.652 (0.106%), neg=0, invalid=762
- 0124: dt=295.936000, rms=0.652 (0.077%), neg=0, invalid=762
- 0125: dt=295.936000, rms=0.651 (0.059%), neg=0, invalid=762
- 0126: dt=295.936000, rms=0.651 (0.088%), neg=0, invalid=762
- 0127: dt=295.936000, rms=0.650 (0.068%), neg=0, invalid=762
- 0128: dt=295.936000, rms=0.650 (0.057%), neg=0, invalid=762
- 0129: dt=295.936000, rms=0.649 (0.069%), neg=0, invalid=762
- 0130: dt=295.936000, rms=0.649 (0.047%), neg=0, invalid=762
- 0131: dt=295.936000, rms=0.649 (0.065%), neg=0, invalid=762
- 0132: dt=295.936000, rms=0.648 (0.051%), neg=0, invalid=762
- 0133: dt=295.936000, rms=0.648 (0.040%), neg=0, invalid=762
- 0134: dt=295.936000, rms=0.648 (0.059%), neg=0, invalid=762
- 0135: dt=295.936000, rms=0.647 (0.054%), neg=0, invalid=762
- 0136: dt=295.936000, rms=0.647 (0.044%), neg=0, invalid=762
- 0137: dt=295.936000, rms=0.647 (0.037%), neg=0, invalid=762
- 0138: dt=295.936000, rms=0.647 (0.030%), neg=0, invalid=762
- 0139: dt=295.936000, rms=0.646 (0.033%), neg=0, invalid=762
- 0140: dt=295.936000, rms=0.646 (0.019%), neg=0, invalid=762
- 0141: dt=295.936000, rms=0.646 (0.032%), neg=0, invalid=762
- 0142: dt=295.936000, rms=0.646 (0.045%), neg=0, invalid=762
- 0143: dt=295.936000, rms=0.646 (0.036%), neg=0, invalid=762
- 0144: dt=295.936000, rms=0.645 (0.040%), neg=0, invalid=762
- 0145: dt=295.936000, rms=0.645 (0.035%), neg=0, invalid=762
- 0146: dt=295.936000, rms=0.645 (0.032%), neg=0, invalid=762
- 0147: dt=295.936000, rms=0.645 (0.034%), neg=0, invalid=762
- 0148: dt=295.936000, rms=0.645 (0.028%), neg=0, invalid=762
- 0149: dt=295.936000, rms=0.644 (0.043%), neg=0, invalid=762
- 0150: dt=295.936000, rms=0.644 (0.038%), neg=0, invalid=762
- 0151: dt=295.936000, rms=0.644 (0.023%), neg=0, invalid=762
- 0152: dt=295.936000, rms=0.644 (0.041%), neg=0, invalid=762
- 0153: dt=295.936000, rms=0.643 (0.044%), neg=0, invalid=762
- 0154: dt=295.936000, rms=0.643 (0.024%), neg=0, invalid=762
- 0155: dt=295.936000, rms=0.643 (0.029%), neg=0, invalid=762
- 0156: dt=295.936000, rms=0.643 (0.035%), neg=0, invalid=762
- 0157: dt=295.936000, rms=0.643 (0.025%), neg=0, invalid=762
- 0158: dt=295.936000, rms=0.642 (0.031%), neg=0, invalid=762
- 0159: dt=295.936000, rms=0.642 (0.029%), neg=0, invalid=762
- 0160: dt=295.936000, rms=0.642 (0.022%), neg=0, invalid=762
- 0161: dt=295.936000, rms=0.642 (0.034%), neg=0, invalid=762
- 0162: dt=295.936000, rms=0.642 (0.026%), neg=0, invalid=762
- 0163: dt=295.936000, rms=0.642 (0.016%), neg=0, invalid=762
- 0164: dt=295.936000, rms=0.641 (0.034%), neg=0, invalid=762
- 0165: dt=295.936000, rms=0.641 (0.019%), neg=0, invalid=762
- 0166: dt=295.936000, rms=0.641 (0.014%), neg=0, invalid=762
- 0167: dt=295.936000, rms=0.641 (0.014%), neg=0, invalid=762
- 0168: dt=18.496000, rms=0.641 (-0.004%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.642, neg=0, invalid=762
- 0169: dt=221.952000, rms=0.640 (0.250%), neg=0, invalid=762
- 0170: dt=129.472000, rms=0.640 (0.058%), neg=0, invalid=762
- 0171: dt=1183.744000, rms=0.639 (0.114%), neg=0, invalid=762
- 0172: dt=129.472000, rms=0.639 (0.065%), neg=0, invalid=762
- 0173: dt=517.888000, rms=0.638 (0.044%), neg=0, invalid=762
- 0174: dt=517.888000, rms=0.638 (-0.052%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.641, neg=0, invalid=762
- 0175: dt=82.944000, rms=0.639 (0.416%), neg=0, invalid=762
- 0176: dt=145.152000, rms=0.635 (0.671%), neg=0, invalid=762
- 0177: dt=62.208000, rms=0.633 (0.273%), neg=0, invalid=762
- 0178: dt=331.776000, rms=0.628 (0.721%), neg=0, invalid=762
- 0179: dt=63.549296, rms=0.625 (0.586%), neg=0, invalid=762
- 0180: dt=145.152000, rms=0.622 (0.429%), neg=0, invalid=762
- 0181: dt=36.288000, rms=0.621 (0.149%), neg=0, invalid=762
- 0182: dt=145.152000, rms=0.619 (0.268%), neg=0, invalid=762
- 0183: dt=145.152000, rms=0.617 (0.289%), neg=0, invalid=762
- 0184: dt=36.288000, rms=0.617 (0.156%), neg=0, invalid=762
- 0185: dt=103.680000, rms=0.615 (0.172%), neg=0, invalid=762
- 0186: dt=9.072000, rms=0.615 (0.010%), neg=0, invalid=762
- 0187: dt=9.072000, rms=0.615 (0.024%), neg=0, invalid=762
- 0188: dt=4.536000, rms=0.615 (0.014%), neg=0, invalid=762
- 0189: dt=1.134000, rms=0.615 (0.005%), neg=0, invalid=762
- 0190: dt=0.025312, rms=0.615 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.616, neg=0, invalid=762
- 0191: dt=105.626016, rms=0.613 (0.555%), neg=0, invalid=762
- 0192: dt=103.680000, rms=0.610 (0.355%), neg=0, invalid=762
- 0193: dt=36.288000, rms=0.610 (0.122%), neg=0, invalid=762
- 0194: dt=331.776000, rms=0.608 (0.316%), neg=0, invalid=762
- 0195: dt=36.288000, rms=0.606 (0.296%), neg=0, invalid=762
- 0196: dt=145.152000, rms=0.605 (0.194%), neg=0, invalid=762
- 0197: dt=36.288000, rms=0.604 (0.065%), neg=0, invalid=762
- 0198: dt=331.776000, rms=0.603 (0.200%), neg=0, invalid=762
- 0199: dt=66.921162, rms=0.602 (0.227%), neg=0, invalid=762
- 0200: dt=36.288000, rms=0.602 (0.036%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.601 (0.034%), neg=0, invalid=762
- 0202: dt=36.288000, rms=0.601 (0.060%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.600 (0.091%), neg=0, invalid=762
- 0204: dt=36.288000, rms=0.600 (0.118%), neg=0, invalid=762
- 0205: dt=36.288000, rms=0.599 (0.133%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.598 (0.141%), neg=0, invalid=762
- 0207: dt=36.288000, rms=0.597 (0.142%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.596 (0.148%), neg=0, invalid=762
- 0209: dt=36.288000, rms=0.595 (0.158%), neg=0, invalid=762
- 0210: dt=36.288000, rms=0.595 (0.157%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.594 (0.160%), neg=0, invalid=762
- 0212: dt=36.288000, rms=0.593 (0.152%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.592 (0.150%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.591 (0.142%), neg=0, invalid=762
- 0215: dt=36.288000, rms=0.591 (0.011%), neg=0, invalid=762
- 0216: dt=36.288000, rms=0.591 (0.032%), neg=0, invalid=762
- 0217: dt=36.288000, rms=0.591 (0.023%), neg=0, invalid=762
- 0218: dt=18.144000, rms=0.591 (0.002%), neg=0, invalid=762
- 0219: dt=2.268000, rms=0.591 (0.001%), neg=0, invalid=762
- 0220: dt=1.134000, rms=0.591 (0.000%), neg=0, invalid=762
- 0221: dt=0.567000, rms=0.591 (0.000%), neg=0, invalid=762
- 0222: dt=0.283500, rms=0.591 (0.000%), neg=0, invalid=762
- 0223: dt=0.141750, rms=0.591 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.598, neg=0, invalid=762
- 0224: dt=38.400000, rms=0.590 (1.322%), neg=0, invalid=762
- 0225: dt=44.800000, rms=0.582 (1.301%), neg=0, invalid=762
- 0226: dt=38.400000, rms=0.578 (0.692%), neg=0, invalid=762
- 0227: dt=2.800000, rms=0.578 (0.076%), neg=0, invalid=762
- 0228: dt=0.175000, rms=0.578 (0.003%), neg=0, invalid=762
- 0229: dt=0.175000, rms=0.578 (0.005%), neg=0, invalid=762
- 0230: dt=0.087500, rms=0.578 (0.002%), neg=0, invalid=762
- 0231: dt=0.021875, rms=0.578 (0.001%), neg=0, invalid=762
- 0232: dt=0.000000, rms=0.578 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.579, neg=0, invalid=762
- 0233: dt=28.438163, rms=0.574 (0.750%), neg=0, invalid=762
- 0234: dt=44.800000, rms=0.570 (0.723%), neg=0, invalid=762
- 0235: dt=8.000000, rms=0.569 (0.194%), neg=0, invalid=762
- 0236: dt=0.700000, rms=0.569 (0.009%), neg=0, invalid=762
- 0237: dt=0.175000, rms=0.569 (-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=0.589, neg=0, invalid=762
- 0238: dt=18.845481, rms=0.581 (1.364%), neg=0, invalid=762
- 0239: dt=11.520000, rms=0.576 (0.882%), neg=0, invalid=762
- 0240: dt=4.032000, rms=0.576 (0.110%), neg=0, invalid=762
- 0241: dt=1.008000, rms=0.575 (0.030%), neg=0, invalid=762
- 0242: dt=0.504000, rms=0.575 (0.011%), neg=0, invalid=762
- 0243: dt=0.252000, rms=0.575 (0.007%), neg=0, invalid=762
- 0244: dt=0.126000, rms=0.575 (0.002%), neg=0, invalid=762
- 0245: dt=0.063000, rms=0.575 (0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.576, neg=0, invalid=762
- 0246: dt=7.706122, rms=0.574 (0.260%), neg=0, invalid=762
- 0247: dt=9.216000, rms=0.574 (0.054%), neg=0, invalid=762
- 0248: dt=13.824000, rms=0.574 (0.065%), neg=0, invalid=762
- 0249: dt=16.128000, rms=0.573 (0.127%), neg=0, invalid=762
- 0250: dt=9.000000, rms=0.573 (0.077%), neg=0, invalid=762
- 0251: dt=4.032000, rms=0.572 (0.043%), neg=0, invalid=762
- 0252: dt=4.032000, rms=0.572 (0.037%), neg=0, invalid=762
- 0253: dt=4.032000, rms=0.572 (0.063%), neg=0, invalid=762
- 0254: dt=0.504000, rms=0.572 (0.006%), neg=0, invalid=762
- 0255: dt=0.252000, rms=0.572 (0.002%), neg=0, invalid=762
- 0256: dt=0.063000, rms=0.572 (0.000%), neg=0, invalid=762
- 0257: dt=0.063000, rms=0.572 (0.001%), neg=0, invalid=762
- 0258: dt=0.015750, rms=0.572 (0.000%), neg=0, invalid=762
- 0259: dt=0.001969, rms=0.572 (-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=0.594, neg=0, invalid=762
- 0260: dt=0.000000, rms=0.593 (0.125%), neg=0, invalid=762
- 0261: dt=0.000000, rms=0.593 (0.000%), neg=0, invalid=762
- 0262: dt=0.100000, rms=0.593 (-0.085%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.594, neg=0, invalid=762
- 0263: dt=0.000000, rms=0.593 (0.125%), neg=0, invalid=762
- 0264: dt=0.000000, rms=0.593 (0.000%), neg=0, invalid=762
- 0265: dt=0.100000, rms=0.593 (-0.064%), 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=0.558, neg=0, invalid=762
- 0266: dt=0.448000, rms=0.542 (2.822%), neg=0, invalid=762
- 0267: dt=0.448000, rms=0.539 (0.628%), neg=0, invalid=762
- 0268: dt=0.448000, rms=0.537 (0.370%), neg=0, invalid=762
- 0269: dt=0.448000, rms=0.536 (0.238%), neg=0, invalid=762
- 0270: dt=0.448000, rms=0.535 (0.178%), neg=0, invalid=762
- 0271: dt=0.448000, rms=0.534 (0.138%), neg=0, invalid=762
- 0272: dt=0.448000, rms=0.533 (0.112%), neg=0, invalid=762
- 0273: dt=0.448000, rms=0.533 (0.090%), neg=0, invalid=762
- 0274: dt=0.448000, rms=0.532 (0.077%), neg=0, invalid=762
- 0275: dt=0.448000, rms=0.532 (0.069%), neg=0, invalid=762
- 0276: dt=0.448000, rms=0.532 (0.056%), neg=0, invalid=762
- 0277: dt=0.448000, rms=0.531 (0.050%), neg=0, invalid=762
- 0278: dt=0.448000, rms=0.531 (0.046%), neg=0, invalid=762
- 0279: dt=0.448000, rms=0.531 (0.039%), neg=0, invalid=762
- 0280: dt=0.448000, rms=0.531 (0.071%), neg=0, invalid=762
- 0281: dt=0.448000, rms=0.530 (0.092%), neg=0, invalid=762
- 0282: dt=0.448000, rms=0.530 (0.093%), neg=0, invalid=762
- 0283: dt=0.448000, rms=0.529 (0.089%), neg=0, invalid=762
- 0284: dt=0.448000, rms=0.529 (0.081%), neg=0, invalid=762
- 0285: dt=0.448000, rms=0.528 (0.065%), neg=0, invalid=762
- 0286: dt=0.448000, rms=0.528 (0.040%), neg=0, invalid=762
- 0287: dt=0.448000, rms=0.528 (0.025%), neg=0, invalid=762
- 0288: dt=0.448000, rms=0.528 (0.015%), neg=0, invalid=762
- 0289: dt=0.112000, rms=0.528 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.529, neg=0, invalid=762
- 0290: dt=0.448000, rms=0.521 (1.487%), neg=0, invalid=762
- 0291: dt=0.448000, rms=0.520 (0.154%), neg=0, invalid=762
- 0292: dt=0.320000, rms=0.520 (0.032%), neg=0, invalid=762
- 0293: dt=0.320000, rms=0.520 (0.007%), neg=0, invalid=762
- 0294: dt=0.320000, rms=0.520 (0.006%), neg=0, invalid=762
- 0295: dt=0.320000, rms=0.520 (-0.017%), 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=0.518, neg=0, invalid=762
- 0296: dt=0.000000, rms=0.517 (0.159%), neg=0, invalid=762
- 0297: dt=0.000000, rms=0.517 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.518, neg=0, invalid=762
- 0298: dt=129.472000, rms=0.517 (0.208%), neg=0, invalid=762
- 0299: dt=92.480000, rms=0.517 (0.011%), neg=0, invalid=762
- 0300: dt=92.480000, rms=0.516 (0.017%), neg=0, invalid=762
- 0301: dt=92.480000, rms=0.516 (0.018%), neg=0, invalid=762
- 0302: dt=92.480000, rms=0.516 (0.026%), neg=0, invalid=762
- 0303: dt=92.480000, rms=0.516 (0.021%), neg=0, invalid=762
- 0304: dt=92.480000, rms=0.516 (0.018%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.517, neg=0, invalid=762
- 0305: dt=20.736000, rms=0.516 (0.204%), neg=0, invalid=762
- 0306: dt=9.072000, rms=0.516 (0.006%), neg=0, invalid=762
- 0307: dt=9.072000, rms=0.516 (0.003%), neg=0, invalid=762
- 0308: dt=9.072000, rms=0.516 (-0.007%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.517, neg=0, invalid=762
- 0309: dt=82.944000, rms=0.514 (0.410%), neg=0, invalid=762
- 0310: dt=36.288000, rms=0.514 (0.152%), neg=0, invalid=762
- 0311: dt=36.288000, rms=0.513 (0.066%), neg=0, invalid=762
- 0312: dt=36.288000, rms=0.513 (0.098%), neg=0, invalid=762
- 0313: dt=36.288000, rms=0.512 (0.133%), neg=0, invalid=762
- 0314: dt=36.288000, rms=0.511 (0.120%), neg=0, invalid=762
- 0315: dt=36.288000, rms=0.511 (0.120%), neg=0, invalid=762
- 0316: dt=145.152000, rms=0.511 (0.049%), neg=0, invalid=762
- 0317: dt=145.152000, rms=0.511 (-0.380%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.512, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0318: dt=24.195122, rms=0.509 (0.606%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0319: dt=38.400000, rms=0.507 (0.345%), neg=0, invalid=762
- 0320: dt=21.948718, rms=0.506 (0.174%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 7 iterations, nbhd size=1, neg = 0
- 0321: dt=21.948718, rms=0.505 (0.178%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 0 iterations, nbhd size=0, neg = 0
- 0322: dt=21.948718, rms=0.504 (0.190%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 9 iterations, nbhd size=1, neg = 0
- 0323: dt=21.948718, rms=0.503 (0.129%), neg=0, invalid=762
- iter 0, gcam->neg = 12
- after 10 iterations, nbhd size=1, neg = 0
- 0324: dt=21.948718, rms=0.503 (0.137%), neg=0, invalid=762
- iter 0, gcam->neg = 25
- after 11 iterations, nbhd size=1, neg = 0
- 0325: dt=21.948718, rms=0.502 (0.115%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 11 iterations, nbhd size=1, neg = 0
- 0326: dt=21.948718, rms=0.502 (0.124%), neg=0, invalid=762
- iter 0, gcam->neg = 23
- after 12 iterations, nbhd size=1, neg = 0
- 0327: dt=21.948718, rms=0.501 (0.145%), neg=0, invalid=762
- iter 0, gcam->neg = 36
- after 12 iterations, nbhd size=1, neg = 0
- 0328: dt=21.948718, rms=0.500 (0.151%), neg=0, invalid=762
- iter 0, gcam->neg = 18
- after 9 iterations, nbhd size=1, neg = 0
- 0329: dt=21.948718, rms=0.499 (0.209%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 10 iterations, nbhd size=1, neg = 0
- 0330: dt=21.948718, rms=0.498 (0.165%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0331: dt=21.948718, rms=0.498 (0.151%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 4 iterations, nbhd size=0, neg = 0
- 0332: dt=21.948718, rms=0.497 (0.147%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 7 iterations, nbhd size=1, neg = 0
- 0333: dt=21.948718, rms=0.496 (0.140%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 6 iterations, nbhd size=0, neg = 0
- 0334: dt=21.948718, rms=0.496 (0.115%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 11 iterations, nbhd size=1, neg = 0
- 0335: dt=21.948718, rms=0.495 (0.104%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 1 iterations, nbhd size=0, neg = 0
- 0336: dt=102.400000, rms=0.494 (0.187%), neg=0, invalid=762
- 0337: dt=19.200000, rms=0.494 (0.038%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 2 iterations, nbhd size=0, neg = 0
- 0338: dt=19.200000, rms=0.494 (0.024%), neg=0, invalid=762
- 0339: dt=19.200000, rms=0.494 (0.019%), neg=0, invalid=762
- 0340: dt=19.200000, rms=0.494 (0.018%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.494, neg=0, invalid=762
- 0341: dt=44.800000, rms=0.490 (0.885%), neg=0, invalid=762
- 0342: dt=32.000000, rms=0.488 (0.353%), neg=0, invalid=762
- 0343: dt=25.600000, rms=0.488 (0.155%), neg=0, invalid=762
- 0344: dt=25.600000, rms=0.487 (0.129%), neg=0, invalid=762
- 0345: dt=25.600000, rms=0.486 (0.218%), neg=0, invalid=762
- 0346: dt=25.600000, rms=0.485 (0.212%), neg=0, invalid=762
- 0347: dt=25.600000, rms=0.484 (0.134%), neg=0, invalid=762
- 0348: dt=25.600000, rms=0.484 (0.089%), neg=0, invalid=762
- 0349: dt=25.600000, rms=0.483 (0.075%), neg=0, invalid=762
- 0350: dt=38.400000, rms=0.483 (0.073%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0351: dt=38.400000, rms=0.483 (-0.070%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.491, neg=0, invalid=762
- 0352: dt=1.200000, rms=0.490 (0.149%), neg=0, invalid=762
- 0353: dt=0.576000, rms=0.490 (0.013%), neg=0, invalid=762
- 0354: dt=0.576000, rms=0.490 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.491, neg=0, invalid=762
- 0355: dt=4.032000, rms=0.490 (0.216%), neg=0, invalid=762
- 0356: dt=2.880000, rms=0.490 (0.021%), neg=0, invalid=762
- 0357: dt=2.880000, rms=0.490 (0.007%), neg=0, invalid=762
- 0358: dt=2.880000, rms=0.490 (-0.029%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.501, neg=0, invalid=762
- 0359: dt=0.112000, rms=0.500 (0.168%), neg=0, invalid=762
- 0360: dt=0.024000, rms=0.500 (0.001%), neg=0, invalid=762
- 0361: dt=0.024000, rms=0.500 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.501, neg=0, invalid=762
- 0362: dt=1.536000, rms=0.499 (0.418%), neg=0, invalid=762
- 0363: dt=1.024000, rms=0.499 (0.047%), neg=0, invalid=762
- 0364: dt=1.024000, rms=0.499 (0.008%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0365: dt=1.024000, rms=0.499 (-0.093%), 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=0.490, neg=0, invalid=762
- iter 0, gcam->neg = 601
- after 12 iterations, nbhd size=1, neg = 0
- 0366: dt=2.362108, rms=0.455 (7.163%), neg=0, invalid=762
- 0367: dt=0.112000, rms=0.454 (0.157%), neg=0, invalid=762
- 0368: dt=0.112000, rms=0.454 (-0.060%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.455, neg=0, invalid=762
- 0369: dt=0.112000, rms=0.454 (0.343%), neg=0, invalid=762
- 0370: dt=0.024000, rms=0.454 (0.003%), neg=0, invalid=762
- 0371: dt=0.024000, rms=0.454 (-0.003%), neg=0, invalid=762
- label assignment complete, 0 changed (0.00%)
- label assignment complete, 0 changed (0.00%)
- ***************** morphing with label term set to 0 *******************************
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.008
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0372: dt=0.000000, rms=0.438 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0373: dt=32.368000, rms=0.438 (0.008%), neg=0, invalid=762
- 0374: dt=55.488000, rms=0.438 (0.004%), neg=0, invalid=762
- 0375: dt=55.488000, rms=0.438 (0.002%), neg=0, invalid=762
- 0376: dt=55.488000, rms=0.438 (0.002%), neg=0, invalid=762
- 0377: dt=55.488000, rms=0.438 (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=0.438, neg=0, invalid=762
- 0378: dt=0.000000, rms=0.438 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0379: dt=124.416000, rms=0.438 (0.092%), neg=0, invalid=762
- 0380: dt=145.152000, rms=0.437 (0.066%), neg=0, invalid=762
- 0381: dt=145.152000, rms=0.437 (-0.097%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0382: dt=9.600000, rms=0.438 (0.084%), neg=0, invalid=762
- 0383: dt=2.800000, rms=0.438 (0.004%), neg=0, invalid=762
- 0384: dt=2.800000, rms=0.438 (0.000%), neg=0, invalid=762
- 0385: dt=2.800000, rms=0.438 (-0.014%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0386: dt=44.800000, rms=0.436 (0.520%), neg=0, invalid=762
- 0387: dt=32.000000, rms=0.434 (0.255%), neg=0, invalid=762
- 0388: dt=25.600000, rms=0.434 (0.139%), neg=0, invalid=762
- 0389: dt=25.600000, rms=0.433 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0390: dt=25.600000, rms=0.433 (0.154%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0391: dt=25.600000, rms=0.432 (0.184%), neg=0, invalid=762
- 0392: dt=25.600000, rms=0.431 (0.161%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 9 iterations, nbhd size=1, neg = 0
- 0393: dt=25.600000, rms=0.430 (0.170%), neg=0, invalid=762
- 0394: dt=25.600000, rms=0.430 (0.148%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 8 iterations, nbhd size=1, neg = 0
- 0395: dt=25.600000, rms=0.429 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0396: dt=25.600000, rms=0.429 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0397: dt=25.600000, rms=0.428 (0.104%), neg=0, invalid=762
- 0398: dt=44.800000, rms=0.428 (0.035%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0399: dt=44.800000, rms=0.428 (-0.013%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.433, neg=0, invalid=762
- 0400: dt=0.000000, rms=0.433 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.433, neg=0, invalid=762
- 0401: dt=6.000000, rms=0.432 (0.105%), neg=0, invalid=762
- 0402: dt=6.000000, rms=0.432 (0.030%), neg=0, invalid=762
- 0403: dt=6.000000, rms=0.432 (0.016%), neg=0, invalid=762
- 0404: dt=6.000000, rms=0.432 (-0.023%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.439, neg=0, invalid=762
- 0405: dt=0.000000, rms=0.439 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.439, neg=0, invalid=762
- 0406: dt=0.000000, rms=0.439 (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=0.427, neg=0, invalid=762
- iter 0, gcam->neg = 468
- after 13 iterations, nbhd size=1, neg = 0
- 0407: dt=1.536000, rms=0.415 (2.872%), neg=0, invalid=762
- 0408: dt=0.000013, rms=0.415 (0.000%), neg=0, invalid=762
- 0409: dt=0.000013, rms=0.415 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.415, neg=0, invalid=762
- 0410: dt=0.112000, rms=0.414 (0.111%), neg=0, invalid=762
- 0411: dt=0.064000, rms=0.414 (0.018%), neg=0, invalid=762
- 0412: dt=0.064000, rms=0.414 (-0.000%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 3 hours, 13 minutes and 40 seconds.
- mri_ca_register utimesec 12780.643046
- mri_ca_register stimesec 8.438717
- mri_ca_register ru_maxrss 1335560
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4406551
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 63368
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 4499
- mri_ca_register ru_nivcsw 23257
- FSRUNTIME@ mri_ca_register 3.2279 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 22:38:43 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-555
- 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-6.0.0/0050184/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 8.28
- 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 = 0.11163 (19)
- Left_Lateral_Ventricle (4): linear fit = 0.85 x + 0.0 (209 voxels, overlap=0.727)
- Left_Lateral_Ventricle (4): linear fit = 0.85 x + 0.0 (209 voxels, peak = 17), gca=16.9
- gca peak = 0.17677 (13)
- mri peak = 0.10218 (14)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, overlap=0.836)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, peak = 13), gca=13.5
- gca peak = 0.28129 (95)
- mri peak = 0.08444 (90)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (609 voxels, overlap=0.768)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (609 voxels, peak = 88), gca=87.9
- gca peak = 0.16930 (96)
- mri peak = 0.09454 (92)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (671 voxels, overlap=0.844)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (671 voxels, peak = 91), gca=90.7
- gca peak = 0.24553 (55)
- mri peak = 0.09643 (57)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (436 voxels, overlap=0.823)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (436 voxels, peak = 51), gca=51.4
- gca peak = 0.30264 (59)
- mri peak = 0.06878 (60)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (774 voxels, overlap=1.016)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (774 voxels, peak = 62), gca=61.7
- gca peak = 0.07580 (103)
- mri peak = 0.06062 (102)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (31385 voxels, overlap=0.859)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (31385 voxels, peak = 106), gca=105.6
- gca peak = 0.07714 (104)
- mri peak = 0.05384 (102)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (39107 voxels, overlap=0.835)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (39107 voxels, peak = 107), gca=106.6
- gca peak = 0.09712 (58)
- mri peak = 0.04067 (61)
- Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (27072 voxels, overlap=0.967)
- Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (27072 voxels, peak = 61), gca=60.6
- gca peak = 0.11620 (58)
- mri peak = 0.03800 (59)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, overlap=0.986)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, peak = 59), gca=59.4
- gca peak = 0.30970 (66)
- mri peak = 0.08714 (67)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, overlap=1.008)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, peak = 66), gca=66.0
- gca peak = 0.15280 (69)
- mri peak = 0.07383 (71)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (744 voxels, overlap=1.005)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (744 voxels, peak = 68), gca=68.0
- gca peak = 0.13902 (56)
- mri peak = 0.04998 (52)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (15718 voxels, overlap=0.987)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (15718 voxels, peak = 53), gca=52.9
- gca peak = 0.14777 (55)
- mri peak = 0.04981 (58)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (12768 voxels, overlap=0.987)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (12768 voxels, peak = 57), gca=57.5
- gca peak = 0.16765 (84)
- mri peak = 0.06480 (78)
- Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (6038 voxels, overlap=1.000)
- Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (6038 voxels, peak = 80), gca=80.2
- gca peak = 0.18739 (84)
- mri peak = 0.06633 (87)
- Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (4777 voxels, overlap=0.802)
- Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (4777 voxels, peak = 89), gca=89.5
- gca peak = 0.29869 (57)
- mri peak = 0.07568 (62)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (437 voxels, overlap=1.036)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (437 voxels, peak = 60), gca=59.6
- gca peak = 0.33601 (57)
- mri peak = 0.10857 (54)
- Right_Amygdala (54): linear fit = 0.93 x + 0.0 (399 voxels, overlap=1.021)
- Right_Amygdala (54): linear fit = 0.93 x + 0.0 (399 voxels, peak = 53), gca=52.7
- gca peak = 0.11131 (90)
- mri peak = 0.06882 (88)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (5454 voxels, overlap=0.995)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (5454 voxels, peak = 88), gca=87.8
- gca peak = 0.11793 (83)
- mri peak = 0.07480 (82)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4516 voxels, overlap=0.978)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4516 voxels, peak = 83), gca=82.6
- gca peak = 0.08324 (81)
- mri peak = 0.06930 (75)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (1683 voxels, overlap=0.984)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (1683 voxels, peak = 79), gca=79.0
- gca peak = 0.10360 (77)
- mri peak = 0.06390 (70)
- Right_Putamen (51): linear fit = 0.93 x + 0.0 (1333 voxels, overlap=0.916)
- Right_Putamen (51): linear fit = 0.93 x + 0.0 (1333 voxels, peak = 71), gca=71.2
- gca peak = 0.08424 (78)
- mri peak = 0.10802 (81)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (12175 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (12175 voxels, peak = 82), gca=82.3
- gca peak = 0.12631 (89)
- mri peak = 0.07831 (89)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1753 voxels, overlap=0.824)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1753 voxels, peak = 91), gca=91.2
- gca peak = 0.14500 (87)
- mri peak = 0.06351 (91)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1784 voxels, overlap=0.893)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1784 voxels, peak = 90), gca=90.0
- gca peak = 0.14975 (24)
- mri peak = 0.15011 (19)
- gca peak = 0.19357 (14)
- mri peak = 0.10187 (16)
- Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (697 voxels, overlap=0.851)
- Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (697 voxels, peak = 14), gca=14.5
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.00 x + 0.0
- estimating mean wm scale to be 1.02 x + 0.0
- estimating mean csf scale to be 0.97 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.21216 (17)
- mri peak = 0.11163 (19)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (209 voxels, overlap=0.795)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (209 voxels, peak = 18), gca=17.6
- gca peak = 0.19438 (13)
- mri peak = 0.10218 (14)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, overlap=0.767)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, peak = 13), gca=13.5
- gca peak = 0.24419 (89)
- mri peak = 0.08444 (90)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (609 voxels, overlap=1.011)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (609 voxels, peak = 89), gca=88.6
- gca peak = 0.16840 (91)
- mri peak = 0.09454 (92)
- Left_Pallidum (13): linear fit = 1.01 x + 0.0 (671 voxels, overlap=1.008)
- Left_Pallidum (13): linear fit = 1.01 x + 0.0 (671 voxels, peak = 92), gca=92.4
- gca peak = 0.28639 (52)
- mri peak = 0.09643 (57)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (436 voxels, overlap=1.006)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (436 voxels, peak = 52), gca=52.0
- gca peak = 0.32511 (59)
- mri peak = 0.06878 (60)
- Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (774 voxels, overlap=1.016)
- Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (774 voxels, peak = 58), gca=57.5
- gca peak = 0.07614 (105)
- mri peak = 0.06062 (102)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (31385 voxels, overlap=0.919)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (31385 voxels, peak = 104), gca=104.5
- gca peak = 0.07686 (107)
- mri peak = 0.05384 (102)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (39107 voxels, overlap=0.913)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (39107 voxels, peak = 107), gca=107.0
- gca peak = 0.09234 (61)
- mri peak = 0.04067 (61)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (27072 voxels, overlap=0.989)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (27072 voxels, peak = 63), gca=62.5
- gca peak = 0.11325 (59)
- mri peak = 0.03800 (59)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, overlap=0.993)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, peak = 60), gca=60.5
- gca peak = 0.30222 (66)
- mri peak = 0.08714 (67)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, overlap=1.010)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, peak = 66), gca=66.0
- gca peak = 0.16874 (68)
- mri peak = 0.07383 (71)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (744 voxels, overlap=1.001)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (744 voxels, peak = 68), gca=68.0
- gca peak = 0.15123 (53)
- mri peak = 0.04998 (52)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (15718 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (15718 voxels, peak = 53), gca=53.0
- gca peak = 0.14231 (57)
- mri peak = 0.04981 (58)
- Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (12768 voxels, overlap=0.996)
- Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (12768 voxels, peak = 58), gca=58.4
- gca peak = 0.16015 (80)
- mri peak = 0.06480 (78)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6038 voxels, overlap=0.990)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6038 voxels, peak = 80), gca=79.6
- gca peak = 0.15054 (90)
- mri peak = 0.06633 (87)
- Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (4777 voxels, overlap=0.979)
- Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (4777 voxels, peak = 89), gca=88.7
- gca peak = 0.31733 (61)
- mri peak = 0.07568 (62)
- Left_Amygdala (18): linear fit = 0.99 x + 0.0 (437 voxels, overlap=1.024)
- Left_Amygdala (18): linear fit = 0.99 x + 0.0 (437 voxels, peak = 60), gca=60.1
- gca peak = 0.43092 (53)
- mri peak = 0.10857 (54)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (399 voxels, overlap=1.014)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (399 voxels, peak = 53), gca=53.0
- gca peak = 0.11206 (86)
- mri peak = 0.06882 (88)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5454 voxels, overlap=0.996)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5454 voxels, peak = 86), gca=85.6
- gca peak = 0.10106 (80)
- mri peak = 0.07480 (82)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4516 voxels, overlap=0.972)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4516 voxels, peak = 81), gca=81.2
- gca peak = 0.08313 (79)
- mri peak = 0.06930 (75)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1683 voxels, overlap=0.983)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1683 voxels, peak = 79), gca=79.0
- gca peak = 0.09183 (69)
- mri peak = 0.06390 (70)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1333 voxels, overlap=0.999)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1333 voxels, peak = 69), gca=69.0
- gca peak = 0.07349 (83)
- mri peak = 0.10802 (81)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (12175 voxels, overlap=0.673)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (12175 voxels, peak = 83), gca=82.6
- gca peak = 0.11568 (91)
- mri peak = 0.07831 (89)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1753 voxels, overlap=0.862)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1753 voxels, peak = 91), gca=90.5
- gca peak = 0.14313 (90)
- mri peak = 0.06351 (91)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1784 voxels, overlap=0.932)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1784 voxels, peak = 90), gca=89.6
- gca peak = 0.16788 (25)
- mri peak = 0.15011 (19)
- gca peak = 0.18343 (17)
- mri peak = 0.10187 (16)
- Fourth_Ventricle (15): linear fit = 1.00 x + 0.0 (697 voxels, overlap=0.863)
- Fourth_Ventricle (15): linear fit = 1.00 x + 0.0 (697 voxels, peak = 17), gca=17.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16516 (28)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak Third_Ventricle = 0.16788 (25)
- gca peak CSF = 0.23379 (35)
- gca peak Left_Accumbens_area = 0.61943 (61)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75962 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24684 (22)
- gca peak Right_Accumbens_area = 0.43037 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (31)
- gca peak WM_hypointensities = 0.07194 (77)
- gca peak non_WM_hypointensities = 0.07502 (56)
- gca peak Optic_Chiasm = 0.70933 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.00 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 1.02 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
- 130685 voxels changed in iteration 0 of unlikely voxel relabeling
- 269 voxels changed in iteration 1 of unlikely voxel relabeling
- 8 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 65978 gm and wm labels changed (%26 to gray, %74 to white out of all changed labels)
- 624 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 114094 changed. image ll: -2.203, PF=0.500
- pass 2: 32965 changed. image ll: -2.203, PF=0.500
- pass 3: 9672 changed.
- pass 4: 3501 changed.
- 80428 voxels changed in iteration 0 of unlikely voxel relabeling
- 280 voxels changed in iteration 1 of unlikely voxel relabeling
- 16 voxels changed in iteration 2 of unlikely voxel relabeling
- 3 voxels changed in iteration 3 of unlikely voxel relabeling
- 2 voxels changed in iteration 4 of unlikely voxel relabeling
- 9137 voxels changed in iteration 0 of unlikely voxel relabeling
- 91 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 7934 voxels changed in iteration 0 of unlikely voxel relabeling
- 79 voxels changed in iteration 1 of unlikely voxel relabeling
- 37 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 6403 voxels changed in iteration 0 of unlikely voxel relabeling
- 45 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- MRItoUCHAR: min=0, max=85
- MRItoUCHAR: converting to UCHAR
- writing labeled volume to aseg.auto_noCCseg.mgz
- mri_ca_label utimesec 4639.638667
- mri_ca_label stimesec 1.417784
- mri_ca_label ru_maxrss 2138008
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 637619
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 63360
- mri_ca_label ru_oublock 584
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 246
- mri_ca_label ru_nivcsw 5770
- auto-labeling took 76 minutes and 32 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/cc_up.lta 0050184
- 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-6.0.0/0050184/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/norm.mgz
- 28282 voxels in left wm, 59580 in right wm, xrange [123, 132]
- searching rotation angles z=[-8 6], y=[-7 7]
-
searching scale 1 Z rot -8.2
searching scale 1 Z rot -8.0
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 global minimum found at slice 128.4, rotations (-0.16, -1.22)
- final transformation (x=128.4, yr=-0.155, zr=-1.219):
- 0.99977 0.02128 -0.00271 -1.95836;
- -0.02128 0.99977 0.00006 43.74620;
- 0.00271 0.00000 1.00000 14.65190;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [126, 130] in xformed coordinates
- best xformed slice 128
- cc center is found at 128 87 113
- eigenvectors:
- 0.00071 0.00050 1.00000;
- -0.12910 -0.99163 0.00058;
- 0.99163 -0.12910 -0.00064;
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.auto.mgz...
- corpus callosum segmentation took 0.8 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 23:56:05 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 23:56:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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...
- 1995 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 104
- gm peak at 65 (65), valley at 26 (26)
- csf peak at 33, setting threshold to 54
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- ---------------------------------
- 3d normalization pass 2 of 2
- white matter peak found at 110
- white matter peak found at 109
- gm peak at 62 (62), valley at 26 (26)
- csf peak at 32, setting threshold to 52
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 13 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 23:59:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1915427 voxels in mask (pct= 11.42)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 23:59:21 CEST 2017
- mri_segment -mprage brain.mgz wm.seg.mgz
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- computing class statistics for intensity windows...
- WM (105.0): 105.9 +- 5.1 [79.0 --> 125.0]
- GM (68.0) : 66.8 +- 9.2 [30.0 --> 95.0]
- setting bottom of white matter range to 75.9
- setting top of gray matter range to 85.1
- 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...
- 22107 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 6300 filled
- 233 bright non-wm voxels segmented.
- 8561 diagonally connected voxels added...
- white matter segmentation took 1.7 minutes
- writing output to wm.seg.mgz...
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz
- preserving editing changes in input volume...
- auto filling took 0.51 minutes
- reading wm segmentation from wm.seg.mgz...
- 441 voxels added to wm to prevent paths from MTL structures to cortex
- 3889 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 47084 voxels turned on, 34927 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 90 new 90
- 115,126,128 old 90 new 90
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 54 found - 54 modified | TOTAL: 54
- pass 2 (xy+): 0 found - 54 modified | TOTAL: 54
- pass 1 (xy-): 49 found - 49 modified | TOTAL: 103
- pass 2 (xy-): 0 found - 49 modified | TOTAL: 103
- pass 1 (yz+): 49 found - 49 modified | TOTAL: 152
- pass 2 (yz+): 0 found - 49 modified | TOTAL: 152
- pass 1 (yz-): 55 found - 55 modified | TOTAL: 207
- pass 2 (yz-): 0 found - 55 modified | TOTAL: 207
- pass 1 (xz+): 53 found - 53 modified | TOTAL: 260
- pass 2 (xz+): 0 found - 53 modified | TOTAL: 260
- pass 1 (xz-): 48 found - 48 modified | TOTAL: 308
- pass 2 (xz-): 0 found - 48 modified | TOTAL: 308
- Iteration Number : 1
- pass 1 (+++): 62 found - 62 modified | TOTAL: 62
- pass 2 (+++): 0 found - 62 modified | TOTAL: 62
- pass 1 (+++): 65 found - 65 modified | TOTAL: 127
- pass 2 (+++): 0 found - 65 modified | TOTAL: 127
- pass 1 (+++): 108 found - 108 modified | TOTAL: 235
- pass 2 (+++): 0 found - 108 modified | TOTAL: 235
- pass 1 (+++): 44 found - 44 modified | TOTAL: 279
- pass 2 (+++): 0 found - 44 modified | TOTAL: 279
- Iteration Number : 1
- pass 1 (++): 396 found - 396 modified | TOTAL: 396
- pass 2 (++): 0 found - 396 modified | TOTAL: 396
- pass 1 (+-): 363 found - 363 modified | TOTAL: 759
- pass 2 (+-): 0 found - 363 modified | TOTAL: 759
- pass 1 (--): 315 found - 315 modified | TOTAL: 1074
- pass 2 (--): 0 found - 315 modified | TOTAL: 1074
- pass 1 (-+): 340 found - 340 modified | TOTAL: 1414
- pass 2 (-+): 0 found - 340 modified | TOTAL: 1414
- Iteration Number : 2
- pass 1 (xy+): 20 found - 20 modified | TOTAL: 20
- pass 2 (xy+): 0 found - 20 modified | TOTAL: 20
- pass 1 (xy-): 25 found - 25 modified | TOTAL: 45
- pass 2 (xy-): 0 found - 25 modified | TOTAL: 45
- pass 1 (yz+): 23 found - 23 modified | TOTAL: 68
- pass 2 (yz+): 0 found - 23 modified | TOTAL: 68
- pass 1 (yz-): 23 found - 23 modified | TOTAL: 91
- pass 2 (yz-): 0 found - 23 modified | TOTAL: 91
- pass 1 (xz+): 14 found - 14 modified | TOTAL: 105
- pass 2 (xz+): 0 found - 14 modified | TOTAL: 105
- pass 1 (xz-): 26 found - 26 modified | TOTAL: 131
- pass 2 (xz-): 0 found - 26 modified | TOTAL: 131
- Iteration Number : 2
- pass 1 (+++): 7 found - 7 modified | TOTAL: 7
- pass 2 (+++): 0 found - 7 modified | TOTAL: 7
- pass 1 (+++): 4 found - 4 modified | TOTAL: 11
- pass 2 (+++): 0 found - 4 modified | TOTAL: 11
- pass 1 (+++): 10 found - 10 modified | TOTAL: 21
- pass 2 (+++): 0 found - 10 modified | TOTAL: 21
- pass 1 (+++): 4 found - 4 modified | TOTAL: 25
- pass 2 (+++): 0 found - 4 modified | TOTAL: 25
- Iteration Number : 2
- pass 1 (++): 18 found - 18 modified | TOTAL: 18
- pass 2 (++): 0 found - 18 modified | TOTAL: 18
- pass 1 (+-): 6 found - 6 modified | TOTAL: 24
- pass 2 (+-): 0 found - 6 modified | TOTAL: 24
- pass 1 (--): 7 found - 7 modified | TOTAL: 31
- pass 2 (--): 0 found - 7 modified | TOTAL: 31
- pass 1 (-+): 17 found - 17 modified | TOTAL: 48
- pass 2 (-+): 0 found - 17 modified | TOTAL: 48
- Iteration Number : 3
- pass 1 (xy+): 5 found - 5 modified | TOTAL: 5
- pass 2 (xy+): 0 found - 5 modified | TOTAL: 5
- pass 1 (xy-): 2 found - 2 modified | TOTAL: 7
- pass 2 (xy-): 0 found - 2 modified | TOTAL: 7
- pass 1 (yz+): 5 found - 5 modified | TOTAL: 12
- pass 2 (yz+): 0 found - 5 modified | TOTAL: 12
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 12
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 13
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 13
- pass 1 (xz-): 3 found - 3 modified | TOTAL: 16
- pass 2 (xz-): 0 found - 3 modified | TOTAL: 16
- Iteration Number : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- pass 1 (+++): 2 found - 2 modified | TOTAL: 4
- pass 2 (+++): 0 found - 2 modified | TOTAL: 4
- Iteration Number : 3
- pass 1 (++): 2 found - 2 modified | TOTAL: 2
- pass 2 (++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+-): 1 found - 1 modified | TOTAL: 3
- pass 2 (+-): 0 found - 1 modified | TOTAL: 3
- pass 1 (--): 0 found - 0 modified | TOTAL: 3
- pass 1 (-+): 1 found - 1 modified | TOTAL: 4
- pass 2 (-+): 0 found - 1 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+): 2 found - 2 modified | TOTAL: 2
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 2
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 3
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 3
- Iteration Number : 4
- pass 1 (+++): 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 : 4
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 2 found - 2 modified | TOTAL: 2
- pass 2 (--): 0 found - 2 modified | TOTAL: 2
- pass 1 (-+): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 5
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 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
- Iteration Number : 6
- 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 : 6
- 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 : 6
- 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 = 2236 (out of 613272: 0.364602)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sun Oct 8 00:01:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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
- 0.98385 -0.01813 -0.00432 0.53917;
- 0.01497 1.03481 0.23847 -18.51181;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 0.98385 -0.01813 -0.00432 0.53917;
- 0.01497 1.03481 0.23847 -18.51181;
- 0.00012 -0.19663 0.90302 20.33989;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 753 (min = 350, max = 1400), aspect = 0.53 (min = 0.10, max = 0.75)
- no need to search
- using seed (124, 120, 147), TAL = (4.0, 19.0, 8.0)
- talairach voxel to voxel transform
- 1.01615 0.01784 0.00015 -0.22069;
- -0.01396 0.91994 -0.24301 21.98006;
- -0.00318 0.20032 1.05448 -17.73807;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (124, 120, 147) --> (4.0, 19.0, 8.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (4.00, 19.00, 8.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(22.00, 19.00, 8.00) SRC: (109.65, 95.17, 160.97)
- search lh wm seed point around talairach space (-14.00, 19.00, 8.00), SRC: (146.23, 94.67, 160.86)
- compute mri_fill using aseg
- Erasing Brain Stem and Cerebellum ...
- Define left and right masks using aseg:
- Building Voronoi diagram ...
- Using the Voronoi diagram to separate WM into two hemispheres ...
- Find the largest connected component for each hemisphere ...
- #--------------------------------------------
- #@# Tessellate lh Sun Oct 8 00:02:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy-): 0 found - 2 modified | TOTAL: 2
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 3
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 3
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 4
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 4
- pass 1 (xz+): 2 found - 2 modified | TOTAL: 6
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 6
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 6
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 3 found - 3 modified | TOTAL: 4
- pass 2 (--): 0 found - 3 modified | TOTAL: 4
- pass 1 (-+): 0 found - 0 modified | TOTAL: 4
- 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 = 10 (out of 301981: 0.003311)
- 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: 844 vertices, 968 faces
- slice 50: 6881 vertices, 7193 faces
- slice 60: 17099 vertices, 17566 faces
- slice 70: 30968 vertices, 31513 faces
- slice 80: 44710 vertices, 45200 faces
- slice 90: 60571 vertices, 61104 faces
- slice 100: 75132 vertices, 75711 faces
- slice 110: 90541 vertices, 91210 faces
- slice 120: 105304 vertices, 105945 faces
- slice 130: 119547 vertices, 120224 faces
- slice 140: 133578 vertices, 134226 faces
- slice 150: 147330 vertices, 148023 faces
- slice 160: 159091 vertices, 159776 faces
- slice 170: 169104 vertices, 169716 faces
- slice 180: 178046 vertices, 178625 faces
- slice 190: 185600 vertices, 186120 faces
- slice 200: 190945 vertices, 191421 faces
- slice 210: 193886 vertices, 194198 faces
- slice 220: 193886 vertices, 194198 faces
- slice 230: 193886 vertices, 194198 faces
- slice 240: 193886 vertices, 194198 faces
- slice 250: 193886 vertices, 194198 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...
- 193886 voxel in cpt #1: X=-312 [v=193886,e=582594,f=388396] located at (-30.268389, -12.472794, 29.853104)
- For the whole surface: X=-312 [v=193886,e=582594,f=388396]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sun Oct 8 00:02:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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+): 4 found - 4 modified | TOTAL: 6
- pass 2 (yz+): 0 found - 4 modified | TOTAL: 6
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 7
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 7
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 7
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 7
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 7 (out of 288649: 0.002425)
- 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: 477 vertices, 556 faces
- slice 50: 4720 vertices, 4922 faces
- slice 60: 13161 vertices, 13536 faces
- slice 70: 25543 vertices, 26090 faces
- slice 80: 39804 vertices, 40270 faces
- slice 90: 55730 vertices, 56332 faces
- slice 100: 71181 vertices, 71777 faces
- slice 110: 87120 vertices, 87763 faces
- slice 120: 101518 vertices, 102221 faces
- slice 130: 115621 vertices, 116293 faces
- slice 140: 130101 vertices, 130869 faces
- slice 150: 144143 vertices, 144937 faces
- slice 160: 155457 vertices, 156285 faces
- slice 170: 166061 vertices, 166872 faces
- slice 180: 174559 vertices, 175331 faces
- slice 190: 181646 vertices, 182396 faces
- slice 200: 187388 vertices, 188091 faces
- slice 210: 190771 vertices, 191353 faces
- slice 220: 190920 vertices, 191460 faces
- slice 230: 190920 vertices, 191460 faces
- slice 240: 190920 vertices, 191460 faces
- slice 250: 190920 vertices, 191460 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...
- 190920 voxel in cpt #1: X=-540 [v=190920,e=574380,f=382920] located at (29.403620, -10.666451, 31.321522)
- For the whole surface: X=-540 [v=190920,e=574380,f=382920]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sun Oct 8 00:02:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sun Oct 8 00:02:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 16941 of (16941 16944) to complete...
- Waiting for PID 16944 of (16941 16944) 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 (16941 16944) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sun Oct 8 00:02:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sun Oct 8 00:02:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 16996 of (16996 16999) to complete...
- Waiting for PID 16999 of (16996 16999) 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 = 50.4 mm, total surface area = 97673 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 2.0 minutes
-
step 000: RMS=0.174 (target=0.015)
step 005: RMS=0.133 (target=0.015)
step 010: RMS=0.105 (target=0.015)
step 015: RMS=0.094 (target=0.015)
step 020: RMS=0.086 (target=0.015)
step 025: RMS=0.078 (target=0.015)
step 030: RMS=0.073 (target=0.015)
step 035: RMS=0.069 (target=0.015)
step 040: RMS=0.066 (target=0.015)
step 045: RMS=0.064 (target=0.015)
step 050: RMS=0.062 (target=0.015)
step 055: RMS=0.061 (target=0.015)
step 060: RMS=0.060 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 119.907771
- mris_inflate stimesec 0.190970
- mris_inflate ru_maxrss 283508
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 40664
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 13656
- mris_inflate ru_oublock 13672
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 6898
- mris_inflate ru_nivcsw 10041
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 49.4 mm, total surface area = 95014 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 2.1 minutes
-
step 000: RMS=0.184 (target=0.015)
step 005: RMS=0.143 (target=0.015)
step 010: RMS=0.116 (target=0.015)
step 015: RMS=0.105 (target=0.015)
step 020: RMS=0.096 (target=0.015)
step 025: RMS=0.090 (target=0.015)
step 030: RMS=0.086 (target=0.015)
step 035: RMS=0.083 (target=0.015)
step 040: RMS=0.080 (target=0.015)
step 045: RMS=0.077 (target=0.015)
step 050: RMS=0.076 (target=0.015)
step 055: RMS=0.076 (target=0.015)
step 060: RMS=0.075 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 125.449928
- mris_inflate stimesec 0.166974
- mris_inflate ru_maxrss 280716
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 40476
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 13456
- mris_inflate ru_oublock 13472
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 3367
- mris_inflate ru_nivcsw 12137
- PIDs (16996 16999) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sun Oct 8 00:04:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sun Oct 8 00:04:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 17226 of (17226 17230) to complete...
- Waiting for PID 17230 of (17226 17230) 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 0.83 +- 0.55 (0.00-->7.04) (max @ vno 90220 --> 91727)
- face area 0.02 +- 0.03 (-0.46-->0.47)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.275...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=176.735, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.476, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.920, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.189, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.357, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.466, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.542, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.601, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.656, avgs=0
- 045/300: dt: 0.9000, rms radial error=169.709, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.762, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.818, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.877, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.941, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.010, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.085, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.164, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.249, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.338, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.433, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.532, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.637, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.746, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.860, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.980, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.104, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.233, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.366, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.504, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.647, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.794, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.946, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.103, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.264, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.430, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.601, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.775, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.955, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.139, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.327, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.520, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.717, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.919, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.125, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.336, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.551, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.771, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.994, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.223, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.455, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.692, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.933, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.178, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.428, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.681, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.939, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.201, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.467, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.737, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.010, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.288, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 23736.27
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00010
- epoch 2 (K=40.0), pass 1, starting sse = 4426.30
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00001
- epoch 3 (K=160.0), pass 1, starting sse = 584.59
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.03/10 = 0.00338
- epoch 4 (K=640.0), pass 1, starting sse = 62.87
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.08/11 = 0.00719
- final distance error %30.41
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.19 hours
- mris_sphere utimesec 687.373503
- mris_sphere stimesec 0.241963
- mris_sphere ru_maxrss 283704
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 40200
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 13696
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8270
- mris_sphere ru_nivcsw 46165
- FSRUNTIME@ mris_sphere 0.1912 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 0.84 +- 0.57 (0.00-->8.79) (max @ vno 125513 --> 125531)
- face area 0.02 +- 0.03 (-0.19-->0.56)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.276...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.118, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.857, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.298, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.564, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.729, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.835, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.910, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.968, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.018, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.066, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.116, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.169, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.226, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.287, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.352, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.422, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.498, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.579, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.664, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.755, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.850, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.951, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.057, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.167, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.283, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.403, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.528, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.658, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.793, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.932, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.077, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.226, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.379, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.537, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.700, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.867, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.039, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.215, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.396, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.582, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.772, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.967, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.168, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.374, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.584, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.798, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.017, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.240, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.468, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.700, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.936, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.177, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.422, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.671, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.924, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.181, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.443, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.709, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.979, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.254, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.532, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 23441.30
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
- epoch 2 (K=40.0), pass 1, starting sse = 4410.85
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00001
- epoch 3 (K=160.0), pass 1, starting sse = 603.60
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.01/10 = 0.00131
- epoch 4 (K=640.0), pass 1, starting sse = 76.62
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.08/11 = 0.00753
- final distance error %30.24
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.20 hours
- mris_sphere utimesec 713.856477
- mris_sphere stimesec 0.274958
- mris_sphere ru_maxrss 280888
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 40006
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 13496
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8399
- mris_sphere ru_nivcsw 45456
- FSRUNTIME@ mris_sphere 0.1959 hours 1 threads
- PIDs (17226 17230) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sun Oct 8 00:16:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sun Oct 8 00:16:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sun Oct 8 00:16:35 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 lh
- #@# Fix Topology rh Sun Oct 8 00:16:35 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 rh
- Waiting for PID 17666 of (17666 17669) to complete...
- Waiting for PID 17669 of (17666 17669) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 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=-312 (nv=193886, nf=388396, ne=582594, g=157)
- 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 6 iterations
- marking ambiguous vertices...
- 22902 ambiguous faces found in tessellation
- segmenting defects...
- 170 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 9 into 8
- -merging segment 13 into 12
- -merging segment 29 into 26
- -merging segment 22 into 28
- -merging segment 79 into 73
- -merging segment 85 into 81
- -merging segment 105 into 98
- -merging segment 117 into 111
- -merging segment 126 into 113
- -merging segment 128 into 115
- -merging segment 129 into 115
- -merging segment 119 into 118
- -merging segment 125 into 124
- -merging segment 142 into 144
- -merging segment 154 into 150
- 155 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.9423 (-4.9712)
- -vertex loglikelihood: -6.6183 (-3.3091)
- -normal dot loglikelihood: -3.5749 (-3.5749)
- -quad curv loglikelihood: -6.5302 (-3.2651)
- Total Loglikelihood : -26.6657
- CORRECTING DEFECT 0 (vertices=28, convex hull=59, v0=136)
- After retessellation of defect 0 (v0=136), euler #=-162 (180037,534768,354569) : difference with theory (-152) = 10
- CORRECTING DEFECT 1 (vertices=68, convex hull=102, v0=261)
- After retessellation of defect 1 (v0=261), euler #=-162 (180063,534899,354674) : difference with theory (-151) = 11
- CORRECTING DEFECT 2 (vertices=24, convex hull=43, v0=543)
- After retessellation of defect 2 (v0=543), euler #=-161 (180071,534936,354704) : difference with theory (-150) = 11
- CORRECTING DEFECT 3 (vertices=14, convex hull=25, v0=795)
- After retessellation of defect 3 (v0=795), euler #=-160 (180074,534953,354719) : difference with theory (-149) = 11
- CORRECTING DEFECT 4 (vertices=41, convex hull=34, v0=844)
- After retessellation of defect 4 (v0=844), euler #=-159 (180076,534969,354734) : difference with theory (-148) = 11
- CORRECTING DEFECT 5 (vertices=20, convex hull=58, v0=1386)
- After retessellation of defect 5 (v0=1386), euler #=-158 (180085,535020,354777) : difference with theory (-147) = 11
- CORRECTING DEFECT 6 (vertices=35, convex hull=67, v0=1565)
- After retessellation of defect 6 (v0=1565), euler #=-157 (180096,535080,354827) : difference with theory (-146) = 11
- CORRECTING DEFECT 7 (vertices=25, convex hull=17, v0=2090)
- After retessellation of defect 7 (v0=2090), euler #=-156 (180096,535082,354830) : difference with theory (-145) = 11
- CORRECTING DEFECT 8 (vertices=71, convex hull=114, v0=3073)
- After retessellation of defect 8 (v0=3073), euler #=-154 (180121,535205,354930) : difference with theory (-144) = 10
- CORRECTING DEFECT 9 (vertices=233, convex hull=129, v0=6441)
- After retessellation of defect 9 (v0=6441), euler #=-153 (180174,535418,355091) : difference with theory (-143) = 10
- CORRECTING DEFECT 10 (vertices=277, convex hull=125, v0=7570)
- After retessellation of defect 10 (v0=7570), euler #=-152 (180217,535609,355240) : difference with theory (-142) = 10
- CORRECTING DEFECT 11 (vertices=56, convex hull=85, v0=9892)
- After retessellation of defect 11 (v0=9892), euler #=-150 (180242,535726,355334) : difference with theory (-141) = 9
- CORRECTING DEFECT 12 (vertices=71, convex hull=67, v0=12831)
- After retessellation of defect 12 (v0=12831), euler #=-149 (180258,535802,355395) : difference with theory (-140) = 9
- CORRECTING DEFECT 13 (vertices=30, convex hull=43, v0=13964)
- After retessellation of defect 13 (v0=13964), euler #=-148 (180264,535835,355423) : difference with theory (-139) = 9
- CORRECTING DEFECT 14 (vertices=6, convex hull=36, v0=14058)
- After retessellation of defect 14 (v0=14058), euler #=-147 (180266,535850,355437) : difference with theory (-138) = 9
- CORRECTING DEFECT 15 (vertices=40, convex hull=76, v0=14317)
- After retessellation of defect 15 (v0=14317), euler #=-146 (180282,535929,355501) : difference with theory (-137) = 9
- CORRECTING DEFECT 16 (vertices=38, convex hull=61, v0=14453)
- After retessellation of defect 16 (v0=14453), euler #=-145 (180286,535967,355536) : difference with theory (-136) = 9
- CORRECTING DEFECT 17 (vertices=113, convex hull=96, v0=15867)
- After retessellation of defect 17 (v0=15867), euler #=-144 (180314,536090,355632) : difference with theory (-135) = 9
- CORRECTING DEFECT 18 (vertices=21, convex hull=60, v0=16696)
- After retessellation of defect 18 (v0=16696), euler #=-143 (180322,536135,355670) : difference with theory (-134) = 9
- CORRECTING DEFECT 19 (vertices=36, convex hull=83, v0=17010)
- After retessellation of defect 19 (v0=17010), euler #=-142 (180337,536213,355734) : difference with theory (-133) = 9
- CORRECTING DEFECT 20 (vertices=233, convex hull=126, v0=17954)
- After retessellation of defect 20 (v0=17954), euler #=-141 (180366,536360,355853) : difference with theory (-132) = 9
- CORRECTING DEFECT 21 (vertices=37, convex hull=36, v0=18905)
- After retessellation of defect 21 (v0=18905), euler #=-140 (180375,536399,355884) : difference with theory (-131) = 9
- CORRECTING DEFECT 22 (vertices=707, convex hull=240, v0=19223)
- After retessellation of defect 22 (v0=19223), euler #=-139 (180562,537088,356387) : difference with theory (-130) = 9
- CORRECTING DEFECT 23 (vertices=87, convex hull=105, v0=20229)
- After retessellation of defect 23 (v0=20229), euler #=-137 (180576,537172,356459) : difference with theory (-129) = 8
- CORRECTING DEFECT 24 (vertices=9, convex hull=41, v0=20356)
- After retessellation of defect 24 (v0=20356), euler #=-136 (180578,537188,356474) : difference with theory (-128) = 8
- CORRECTING DEFECT 25 (vertices=216, convex hull=103, v0=24526)
- After retessellation of defect 25 (v0=24526), euler #=-134 (180614,537342,356594) : difference with theory (-127) = 7
- CORRECTING DEFECT 26 (vertices=44, convex hull=31, v0=28028)
- After retessellation of defect 26 (v0=28028), euler #=-133 (180618,537363,356612) : difference with theory (-126) = 7
- CORRECTING DEFECT 27 (vertices=62, convex hull=76, v0=29104)
- After retessellation of defect 27 (v0=29104), euler #=-132 (180631,537434,356671) : difference with theory (-125) = 7
- CORRECTING DEFECT 28 (vertices=25, convex hull=62, v0=33356)
- After retessellation of defect 28 (v0=33356), euler #=-131 (180637,537474,356706) : difference with theory (-124) = 7
- CORRECTING DEFECT 29 (vertices=31, convex hull=57, v0=33565)
- After retessellation of defect 29 (v0=33565), euler #=-130 (180648,537530,356752) : difference with theory (-123) = 7
- CORRECTING DEFECT 30 (vertices=78, convex hull=77, v0=34658)
- After retessellation of defect 30 (v0=34658), euler #=-129 (180664,537613,356820) : difference with theory (-122) = 7
- CORRECTING DEFECT 31 (vertices=317, convex hull=156, v0=34804)
- After retessellation of defect 31 (v0=34804), euler #=-128 (180735,537894,357031) : difference with theory (-121) = 7
- CORRECTING DEFECT 32 (vertices=22, convex hull=30, v0=34865)
- After retessellation of defect 32 (v0=34865), euler #=-127 (180737,537909,357045) : difference with theory (-120) = 7
- CORRECTING DEFECT 33 (vertices=29, convex hull=47, v0=35849)
- After retessellation of defect 33 (v0=35849), euler #=-126 (180747,537957,357084) : difference with theory (-119) = 7
- CORRECTING DEFECT 34 (vertices=52, convex hull=69, v0=36452)
- After retessellation of defect 34 (v0=36452), euler #=-125 (180767,538043,357151) : difference with theory (-118) = 7
- CORRECTING DEFECT 35 (vertices=50, convex hull=78, v0=39746)
- After retessellation of defect 35 (v0=39746), euler #=-124 (180782,538123,357217) : difference with theory (-117) = 7
- CORRECTING DEFECT 36 (vertices=73, convex hull=106, v0=41862)
- After retessellation of defect 36 (v0=41862), euler #=-123 (180807,538241,357311) : difference with theory (-116) = 7
- CORRECTING DEFECT 37 (vertices=170, convex hull=96, v0=42084)
- After retessellation of defect 37 (v0=42084), euler #=-122 (180851,538414,357441) : difference with theory (-115) = 7
- CORRECTING DEFECT 38 (vertices=54, convex hull=55, v0=43191)
- After retessellation of defect 38 (v0=43191), euler #=-121 (180864,538475,357490) : difference with theory (-114) = 7
- CORRECTING DEFECT 39 (vertices=30, convex hull=78, v0=44638)
- After retessellation of defect 39 (v0=44638), euler #=-120 (180873,538530,357537) : difference with theory (-113) = 7
- CORRECTING DEFECT 40 (vertices=98, convex hull=84, v0=45573)
- After retessellation of defect 40 (v0=45573), euler #=-119 (180906,538666,357641) : difference with theory (-112) = 7
- CORRECTING DEFECT 41 (vertices=364, convex hull=62, v0=47530)
- After retessellation of defect 41 (v0=47530), euler #=-118 (180918,538724,357688) : difference with theory (-111) = 7
- CORRECTING DEFECT 42 (vertices=64, convex hull=28, v0=47762)
- After retessellation of defect 42 (v0=47762), euler #=-117 (180924,538749,357708) : difference with theory (-110) = 7
- CORRECTING DEFECT 43 (vertices=42, convex hull=43, v0=48711)
- After retessellation of defect 43 (v0=48711), euler #=-116 (180929,538779,357734) : difference with theory (-109) = 7
- CORRECTING DEFECT 44 (vertices=92, convex hull=30, v0=49944)
- After retessellation of defect 44 (v0=49944), euler #=-115 (180938,538814,357761) : difference with theory (-108) = 7
- CORRECTING DEFECT 45 (vertices=22, convex hull=69, v0=50581)
- After retessellation of defect 45 (v0=50581), euler #=-114 (180947,538866,357805) : difference with theory (-107) = 7
- CORRECTING DEFECT 46 (vertices=8, convex hull=23, v0=50810)
- After retessellation of defect 46 (v0=50810), euler #=-113 (180948,538878,357817) : difference with theory (-106) = 7
- CORRECTING DEFECT 47 (vertices=165, convex hull=45, v0=51234)
- After retessellation of defect 47 (v0=51234), euler #=-112 (180956,538915,357847) : difference with theory (-105) = 7
- CORRECTING DEFECT 48 (vertices=33, convex hull=78, v0=52268)
- After retessellation of defect 48 (v0=52268), euler #=-111 (180973,539000,357916) : difference with theory (-104) = 7
- CORRECTING DEFECT 49 (vertices=21, convex hull=49, v0=55652)
- After retessellation of defect 49 (v0=55652), euler #=-110 (180980,539037,357947) : difference with theory (-103) = 7
- CORRECTING DEFECT 50 (vertices=46, convex hull=94, v0=59572)
- After retessellation of defect 50 (v0=59572), euler #=-109 (181012,539177,358056) : difference with theory (-102) = 7
- CORRECTING DEFECT 51 (vertices=65, convex hull=74, v0=61175)
- After retessellation of defect 51 (v0=61175), euler #=-108 (181047,539316,358161) : difference with theory (-101) = 7
- CORRECTING DEFECT 52 (vertices=129, convex hull=122, v0=61611)
- After retessellation of defect 52 (v0=61611), euler #=-107 (181094,539512,358311) : difference with theory (-100) = 7
- CORRECTING DEFECT 53 (vertices=37, convex hull=72, v0=62524)
- After retessellation of defect 53 (v0=62524), euler #=-106 (181104,539569,358359) : difference with theory (-99) = 7
- CORRECTING DEFECT 54 (vertices=61, convex hull=81, v0=63684)
- After retessellation of defect 54 (v0=63684), euler #=-105 (181127,539674,358442) : difference with theory (-98) = 7
- CORRECTING DEFECT 55 (vertices=68, convex hull=91, v0=66557)
- After retessellation of defect 55 (v0=66557), euler #=-104 (181154,539790,358532) : difference with theory (-97) = 7
- CORRECTING DEFECT 56 (vertices=48, convex hull=87, v0=67069)
- After retessellation of defect 56 (v0=67069), euler #=-103 (181185,539920,358632) : difference with theory (-96) = 7
- CORRECTING DEFECT 57 (vertices=24, convex hull=34, v0=68447)
- After retessellation of defect 57 (v0=68447), euler #=-102 (181187,539935,358646) : difference with theory (-95) = 7
- CORRECTING DEFECT 58 (vertices=25, convex hull=74, v0=69420)
- After retessellation of defect 58 (v0=69420), euler #=-101 (181198,539995,358696) : difference with theory (-94) = 7
- CORRECTING DEFECT 59 (vertices=34, convex hull=65, v0=69541)
- After retessellation of defect 59 (v0=69541), euler #=-100 (181219,540084,358765) : difference with theory (-93) = 7
- CORRECTING DEFECT 60 (vertices=43, convex hull=55, v0=71808)
- After retessellation of defect 60 (v0=71808), euler #=-99 (181233,540144,358812) : difference with theory (-92) = 7
- CORRECTING DEFECT 61 (vertices=19, convex hull=27, v0=72259)
- After retessellation of defect 61 (v0=72259), euler #=-98 (181236,540161,358827) : difference with theory (-91) = 7
- CORRECTING DEFECT 62 (vertices=40, convex hull=87, v0=73735)
- After retessellation of defect 62 (v0=73735), euler #=-97 (181254,540251,358900) : difference with theory (-90) = 7
- CORRECTING DEFECT 63 (vertices=38, convex hull=57, v0=75133)
- After retessellation of defect 63 (v0=75133), euler #=-96 (181272,540327,358959) : difference with theory (-89) = 7
- CORRECTING DEFECT 64 (vertices=100, convex hull=131, v0=76606)
- After retessellation of defect 64 (v0=76606), euler #=-95 (181308,540495,359092) : difference with theory (-88) = 7
- CORRECTING DEFECT 65 (vertices=19, convex hull=24, v0=76650)
- After retessellation of defect 65 (v0=76650), euler #=-94 (181309,540507,359104) : difference with theory (-87) = 7
- CORRECTING DEFECT 66 (vertices=134, convex hull=213, v0=77686)
- After retessellation of defect 66 (v0=77686), euler #=-93 (181325,540653,359235) : difference with theory (-86) = 7
- CORRECTING DEFECT 67 (vertices=141, convex hull=125, v0=77919)
- After retessellation of defect 67 (v0=77919), euler #=-92 (181387,540890,359411) : difference with theory (-85) = 7
- CORRECTING DEFECT 68 (vertices=210, convex hull=189, v0=80079)
- After retessellation of defect 68 (v0=80079), euler #=-91 (181461,541207,359655) : difference with theory (-84) = 7
- CORRECTING DEFECT 69 (vertices=529, convex hull=531, v0=81442)
- L defect detected...
- After retessellation of defect 69 (v0=81442), euler #=-90 (181657,542074,360327) : difference with theory (-83) = 7
- CORRECTING DEFECT 70 (vertices=78, convex hull=123, v0=81986)
- After retessellation of defect 70 (v0=81986), euler #=-89 (181697,542247,360461) : difference with theory (-82) = 7
- CORRECTING DEFECT 71 (vertices=136, convex hull=39, v0=82580)
- After retessellation of defect 71 (v0=82580), euler #=-88 (181711,542301,360502) : difference with theory (-81) = 7
- CORRECTING DEFECT 72 (vertices=50, convex hull=94, v0=82868)
- After retessellation of defect 72 (v0=82868), euler #=-87 (181738,542422,360597) : difference with theory (-80) = 7
- CORRECTING DEFECT 73 (vertices=36, convex hull=65, v0=83251)
- After retessellation of defect 73 (v0=83251), euler #=-86 (181762,542522,360674) : difference with theory (-79) = 7
- CORRECTING DEFECT 74 (vertices=135, convex hull=40, v0=86105)
- After retessellation of defect 74 (v0=86105), euler #=-85 (181772,542568,360711) : difference with theory (-78) = 7
- CORRECTING DEFECT 75 (vertices=16, convex hull=26, v0=92717)
- After retessellation of defect 75 (v0=92717), euler #=-84 (181774,542586,360728) : difference with theory (-77) = 7
- CORRECTING DEFECT 76 (vertices=78, convex hull=46, v0=93696)
- After retessellation of defect 76 (v0=93696), euler #=-82 (181781,542624,360761) : difference with theory (-76) = 6
- CORRECTING DEFECT 77 (vertices=54, convex hull=93, v0=94241)
- After retessellation of defect 77 (v0=94241), euler #=-81 (181818,542773,360874) : difference with theory (-75) = 6
- CORRECTING DEFECT 78 (vertices=10, convex hull=27, v0=96105)
- After retessellation of defect 78 (v0=96105), euler #=-80 (181820,542788,360888) : difference with theory (-74) = 6
- CORRECTING DEFECT 79 (vertices=71, convex hull=105, v0=96678)
- After retessellation of defect 79 (v0=96678), euler #=-79 (181857,542939,361003) : difference with theory (-73) = 6
- CORRECTING DEFECT 80 (vertices=65, convex hull=59, v0=103411)
- After retessellation of defect 80 (v0=103411), euler #=-78 (181883,543044,361083) : difference with theory (-72) = 6
- CORRECTING DEFECT 81 (vertices=52, convex hull=31, v0=103527)
- After retessellation of defect 81 (v0=103527), euler #=-77 (181891,543077,361109) : difference with theory (-71) = 6
- CORRECTING DEFECT 82 (vertices=467, convex hull=255, v0=104980)
- After retessellation of defect 82 (v0=104980), euler #=-76 (181945,543371,361350) : difference with theory (-70) = 6
- CORRECTING DEFECT 83 (vertices=14, convex hull=25, v0=105856)
- After retessellation of defect 83 (v0=105856), euler #=-75 (181946,543383,361362) : difference with theory (-69) = 6
- CORRECTING DEFECT 84 (vertices=34, convex hull=45, v0=107013)
- After retessellation of defect 84 (v0=107013), euler #=-74 (181953,543424,361397) : difference with theory (-68) = 6
- CORRECTING DEFECT 85 (vertices=14, convex hull=19, v0=113852)
- After retessellation of defect 85 (v0=113852), euler #=-73 (181955,543435,361407) : difference with theory (-67) = 6
- CORRECTING DEFECT 86 (vertices=101, convex hull=50, v0=114453)
- After retessellation of defect 86 (v0=114453), euler #=-72 (181969,543495,361454) : difference with theory (-66) = 6
- CORRECTING DEFECT 87 (vertices=13, convex hull=21, v0=115076)
- After retessellation of defect 87 (v0=115076), euler #=-71 (181972,543509,361466) : difference with theory (-65) = 6
- CORRECTING DEFECT 88 (vertices=30, convex hull=74, v0=116041)
- After retessellation of defect 88 (v0=116041), euler #=-70 (181990,543592,361532) : difference with theory (-64) = 6
- CORRECTING DEFECT 89 (vertices=181, convex hull=131, v0=116257)
- After retessellation of defect 89 (v0=116257), euler #=-70 (182053,543849,361726) : difference with theory (-63) = 7
- CORRECTING DEFECT 90 (vertices=54, convex hull=47, v0=117265)
- After retessellation of defect 90 (v0=117265), euler #=-69 (182063,543899,361767) : difference with theory (-62) = 7
- CORRECTING DEFECT 91 (vertices=11, convex hull=22, v0=119222)
- After retessellation of defect 91 (v0=119222), euler #=-68 (182065,543912,361779) : difference with theory (-61) = 7
- CORRECTING DEFECT 92 (vertices=138, convex hull=179, v0=119311)
- After retessellation of defect 92 (v0=119311), euler #=-66 (182117,544161,361978) : difference with theory (-60) = 6
- CORRECTING DEFECT 93 (vertices=146, convex hull=47, v0=119547)
- After retessellation of defect 93 (v0=119547), euler #=-65 (182132,544226,362029) : difference with theory (-59) = 6
- CORRECTING DEFECT 94 (vertices=33, convex hull=78, v0=121549)
- After retessellation of defect 94 (v0=121549), euler #=-64 (182148,544300,362088) : difference with theory (-58) = 6
- CORRECTING DEFECT 95 (vertices=37, convex hull=50, v0=121570)
- After retessellation of defect 95 (v0=121570), euler #=-63 (182167,544376,362146) : difference with theory (-57) = 6
- CORRECTING DEFECT 96 (vertices=129, convex hull=94, v0=121795)
- After retessellation of defect 96 (v0=121795), euler #=-62 (182201,544523,362260) : difference with theory (-56) = 6
- CORRECTING DEFECT 97 (vertices=106, convex hull=131, v0=122387)
- After retessellation of defect 97 (v0=122387), euler #=-61 (182248,544723,362414) : difference with theory (-55) = 6
- CORRECTING DEFECT 98 (vertices=22, convex hull=31, v0=122569)
- After retessellation of defect 98 (v0=122569), euler #=-60 (182250,544739,362429) : difference with theory (-54) = 6
- CORRECTING DEFECT 99 (vertices=77, convex hull=110, v0=123852)
- After retessellation of defect 99 (v0=123852), euler #=-60 (182284,544908,362564) : difference with theory (-53) = 7
- CORRECTING DEFECT 100 (vertices=36, convex hull=70, v0=126153)
- After retessellation of defect 100 (v0=126153), euler #=-59 (182308,545005,362638) : difference with theory (-52) = 7
- CORRECTING DEFECT 101 (vertices=67, convex hull=96, v0=130623)
- After retessellation of defect 101 (v0=130623), euler #=-58 (182319,545081,362704) : difference with theory (-51) = 7
- CORRECTING DEFECT 102 (vertices=351, convex hull=152, v0=130699)
- After retessellation of defect 102 (v0=130699), euler #=-57 (182370,545305,362878) : difference with theory (-50) = 7
- CORRECTING DEFECT 103 (vertices=24, convex hull=30, v0=130764)
- After retessellation of defect 103 (v0=130764), euler #=-56 (182373,545323,362894) : difference with theory (-49) = 7
- CORRECTING DEFECT 104 (vertices=140, convex hull=113, v0=130903)
- After retessellation of defect 104 (v0=130903), euler #=-54 (182405,545474,363015) : difference with theory (-48) = 6
- CORRECTING DEFECT 105 (vertices=6, convex hull=15, v0=131293)
- After retessellation of defect 105 (v0=131293), euler #=-53 (182405,545478,363020) : difference with theory (-47) = 6
- CORRECTING DEFECT 106 (vertices=968, convex hull=412, v0=131843)
- L defect detected...
- After retessellation of defect 106 (v0=131843), euler #=-52 (182645,546427,363730) : difference with theory (-46) = 6
- CORRECTING DEFECT 107 (vertices=14, convex hull=30, v0=133165)
- After retessellation of defect 107 (v0=133165), euler #=-51 (182650,546453,363752) : difference with theory (-45) = 6
- CORRECTING DEFECT 108 (vertices=381, convex hull=265, v0=134397)
- After retessellation of defect 108 (v0=134397), euler #=-48 (182703,546743,363992) : difference with theory (-44) = 4
- CORRECTING DEFECT 109 (vertices=23, convex hull=76, v0=134538)
- After retessellation of defect 109 (v0=134538), euler #=-47 (182716,546811,364048) : difference with theory (-43) = 4
- CORRECTING DEFECT 110 (vertices=149, convex hull=159, v0=134734)
- After retessellation of defect 110 (v0=134734), euler #=-45 (182778,547071,364248) : difference with theory (-42) = 3
- CORRECTING DEFECT 111 (vertices=24, convex hull=51, v0=135554)
- After retessellation of defect 111 (v0=135554), euler #=-44 (182787,547117,364286) : difference with theory (-41) = 3
- CORRECTING DEFECT 112 (vertices=15, convex hull=29, v0=135730)
- After retessellation of defect 112 (v0=135730), euler #=-43 (182793,547142,364306) : difference with theory (-40) = 3
- CORRECTING DEFECT 113 (vertices=58, convex hull=40, v0=136113)
- After retessellation of defect 113 (v0=136113), euler #=-42 (182800,547180,364338) : difference with theory (-39) = 3
- CORRECTING DEFECT 114 (vertices=31, convex hull=59, v0=137878)
- After retessellation of defect 114 (v0=137878), euler #=-41 (182810,547232,364381) : difference with theory (-38) = 3
- CORRECTING DEFECT 115 (vertices=105, convex hull=123, v0=138399)
- After retessellation of defect 115 (v0=138399), euler #=-39 (182819,547309,364451) : difference with theory (-37) = 2
- CORRECTING DEFECT 116 (vertices=225, convex hull=76, v0=141402)
- After retessellation of defect 116 (v0=141402), euler #=-38 (182833,547384,364513) : difference with theory (-36) = 2
- CORRECTING DEFECT 117 (vertices=107, convex hull=70, v0=148634)
- After retessellation of defect 117 (v0=148634), euler #=-37 (182856,547487,364594) : difference with theory (-35) = 2
- CORRECTING DEFECT 118 (vertices=17, convex hull=29, v0=149354)
- After retessellation of defect 118 (v0=149354), euler #=-36 (182859,547506,364611) : difference with theory (-34) = 2
- CORRECTING DEFECT 119 (vertices=6, convex hull=32, v0=149645)
- After retessellation of defect 119 (v0=149645), euler #=-35 (182861,547519,364623) : difference with theory (-33) = 2
- CORRECTING DEFECT 120 (vertices=6, convex hull=24, v0=149711)
- After retessellation of defect 120 (v0=149711), euler #=-34 (182863,547533,364636) : difference with theory (-32) = 2
- CORRECTING DEFECT 121 (vertices=50, convex hull=81, v0=149881)
- After retessellation of defect 121 (v0=149881), euler #=-33 (182881,547619,364705) : difference with theory (-31) = 2
- CORRECTING DEFECT 122 (vertices=94, convex hull=117, v0=151740)
- After retessellation of defect 122 (v0=151740), euler #=-32 (182924,547796,364840) : difference with theory (-30) = 2
- CORRECTING DEFECT 123 (vertices=229, convex hull=184, v0=151881)
- After retessellation of defect 123 (v0=151881), euler #=-31 (182978,548039,365030) : difference with theory (-29) = 2
- CORRECTING DEFECT 124 (vertices=28, convex hull=26, v0=151903)
- After retessellation of defect 124 (v0=151903), euler #=-30 (182981,548054,365043) : difference with theory (-28) = 2
- CORRECTING DEFECT 125 (vertices=16, convex hull=56, v0=152776)
- After retessellation of defect 125 (v0=152776), euler #=-29 (182990,548104,365085) : difference with theory (-27) = 2
- CORRECTING DEFECT 126 (vertices=21, convex hull=26, v0=154830)
- After retessellation of defect 126 (v0=154830), euler #=-28 (182993,548122,365101) : difference with theory (-26) = 2
- CORRECTING DEFECT 127 (vertices=26, convex hull=54, v0=156488)
- After retessellation of defect 127 (v0=156488), euler #=-27 (183002,548167,365138) : difference with theory (-25) = 2
- CORRECTING DEFECT 128 (vertices=27, convex hull=32, v0=157724)
- After retessellation of defect 128 (v0=157724), euler #=-26 (183006,548189,365157) : difference with theory (-24) = 2
- CORRECTING DEFECT 129 (vertices=33, convex hull=58, v0=157997)
- After retessellation of defect 129 (v0=157997), euler #=-25 (183020,548255,365210) : difference with theory (-23) = 2
- CORRECTING DEFECT 130 (vertices=72, convex hull=105, v0=158958)
- After retessellation of defect 130 (v0=158958), euler #=-23 (183048,548384,365313) : difference with theory (-22) = 1
- CORRECTING DEFECT 131 (vertices=31, convex hull=61, v0=159011)
- After retessellation of defect 131 (v0=159011), euler #=-22 (183061,548449,365366) : difference with theory (-21) = 1
- CORRECTING DEFECT 132 (vertices=35, convex hull=72, v0=159899)
- After retessellation of defect 132 (v0=159899), euler #=-21 (183070,548505,365414) : difference with theory (-20) = 1
- CORRECTING DEFECT 133 (vertices=499, convex hull=182, v0=161855)
- After retessellation of defect 133 (v0=161855), euler #=-20 (183156,548850,365674) : difference with theory (-19) = 1
- CORRECTING DEFECT 134 (vertices=235, convex hull=125, v0=162069)
- After retessellation of defect 134 (v0=162069), euler #=-19 (183204,549051,365828) : difference with theory (-18) = 1
- CORRECTING DEFECT 135 (vertices=71, convex hull=46, v0=162125)
- After retessellation of defect 135 (v0=162125), euler #=-18 (183214,549098,365866) : difference with theory (-17) = 1
- CORRECTING DEFECT 136 (vertices=38, convex hull=42, v0=162842)
- After retessellation of defect 136 (v0=162842), euler #=-16 (183214,549117,365887) : difference with theory (-16) = 0
- CORRECTING DEFECT 137 (vertices=36, convex hull=62, v0=163372)
- After retessellation of defect 137 (v0=163372), euler #=-15 (183220,549161,365926) : difference with theory (-15) = 0
- CORRECTING DEFECT 138 (vertices=34, convex hull=51, v0=163547)
- After retessellation of defect 138 (v0=163547), euler #=-14 (183235,549228,365979) : difference with theory (-14) = 0
- CORRECTING DEFECT 139 (vertices=45, convex hull=74, v0=163995)
- After retessellation of defect 139 (v0=163995), euler #=-13 (183263,549342,366066) : difference with theory (-13) = 0
- CORRECTING DEFECT 140 (vertices=29, convex hull=72, v0=167366)
- After retessellation of defect 140 (v0=167366), euler #=-12 (183283,549428,366133) : difference with theory (-12) = 0
- CORRECTING DEFECT 141 (vertices=25, convex hull=77, v0=167498)
- After retessellation of defect 141 (v0=167498), euler #=-11 (183297,549498,366190) : difference with theory (-11) = 0
- CORRECTING DEFECT 142 (vertices=41, convex hull=51, v0=168092)
- After retessellation of defect 142 (v0=168092), euler #=-10 (183311,549558,366237) : difference with theory (-10) = 0
- CORRECTING DEFECT 143 (vertices=60, convex hull=86, v0=170942)
- After retessellation of defect 143 (v0=170942), euler #=-9 (183325,549636,366302) : difference with theory (-9) = 0
- CORRECTING DEFECT 144 (vertices=47, convex hull=99, v0=172212)
- After retessellation of defect 144 (v0=172212), euler #=-8 (183351,549763,366404) : difference with theory (-8) = 0
- CORRECTING DEFECT 145 (vertices=28, convex hull=56, v0=175518)
- After retessellation of defect 145 (v0=175518), euler #=-7 (183359,549813,366447) : difference with theory (-7) = 0
- CORRECTING DEFECT 146 (vertices=39, convex hull=31, v0=180486)
- After retessellation of defect 146 (v0=180486), euler #=-6 (183362,549830,366462) : difference with theory (-6) = 0
- CORRECTING DEFECT 147 (vertices=43, convex hull=76, v0=180752)
- After retessellation of defect 147 (v0=180752), euler #=-5 (183379,549913,366529) : difference with theory (-5) = 0
- CORRECTING DEFECT 148 (vertices=36, convex hull=58, v0=187985)
- After retessellation of defect 148 (v0=187985), euler #=-4 (183390,549972,366578) : difference with theory (-4) = 0
- CORRECTING DEFECT 149 (vertices=37, convex hull=50, v0=188420)
- After retessellation of defect 149 (v0=188420), euler #=-3 (183408,550042,366631) : difference with theory (-3) = 0
- CORRECTING DEFECT 150 (vertices=111, convex hull=72, v0=188682)
- After retessellation of defect 150 (v0=188682), euler #=-2 (183418,550104,366684) : difference with theory (-2) = 0
- CORRECTING DEFECT 151 (vertices=49, convex hull=67, v0=188868)
- After retessellation of defect 151 (v0=188868), euler #=-1 (183430,550168,366737) : difference with theory (-1) = 0
- CORRECTING DEFECT 152 (vertices=154, convex hull=104, v0=188892)
- After retessellation of defect 152 (v0=188892), euler #=0 (183471,550346,366875) : difference with theory (0) = 0
- CORRECTING DEFECT 153 (vertices=48, convex hull=68, v0=189695)
- After retessellation of defect 153 (v0=189695), euler #=1 (183490,550431,366942) : difference with theory (1) = 0
- CORRECTING DEFECT 154 (vertices=45, convex hull=80, v0=190764)
- After retessellation of defect 154 (v0=190764), euler #=2 (183509,550521,367014) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.27 (0.03-->10.73) (max @ vno 25792 --> 182251)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.27 (0.03-->10.73) (max @ vno 25792 --> 182251)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 517 mutations (34.4%), 988 crossovers (65.6%), 720 vertices were eliminated
- building final representation...
- 10377 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=183509, nf=367014, ne=550521, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 235.5 minutes
- 0 defective edges
- removing intersecting faces
- 000: 1038 intersecting
- 001: 88 intersecting
- 002: 25 intersecting
- 003: 13 intersecting
- mris_fix_topology utimesec 14134.089291
- mris_fix_topology stimesec 0.916860
- mris_fix_topology ru_maxrss 603524
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 72256
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 36696
- mris_fix_topology ru_oublock 18720
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 848
- mris_fix_topology ru_nivcsw 50578
- FSRUNTIME@ mris_fix_topology lh 3.9255 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 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=-540 (nv=190920, nf=382920, ne=574380, g=271)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 8 iterations
- marking ambiguous vertices...
- 32522 ambiguous faces found in tessellation
- segmenting defects...
- 197 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 33 into 26
- -merging segment 69 into 68
- -merging segment 90 into 84
- -merging segment 94 into 93
- -merging segment 102 into 93
- -merging segment 113 into 109
- -merging segment 116 into 114
- -merging segment 131 into 121
- -merging segment 151 into 140
- -merging segment 138 into 142
- -merging segment 171 into 165
- 186 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.8652 (-4.9326)
- -vertex loglikelihood: -6.6959 (-3.3480)
- -normal dot loglikelihood: -3.5870 (-3.5870)
- -quad curv loglikelihood: -6.3688 (-3.1844)
- Total Loglikelihood : -26.5170
- CORRECTING DEFECT 0 (vertices=25, convex hull=55, v0=392)
- After retessellation of defect 0 (v0=392), euler #=-182 (171744,508417,336491) : difference with theory (-183) = -1
- CORRECTING DEFECT 1 (vertices=50, convex hull=90, v0=469)
- After retessellation of defect 1 (v0=469), euler #=-181 (171752,508475,336542) : difference with theory (-182) = -1
- CORRECTING DEFECT 2 (vertices=69, convex hull=116, v0=580)
- After retessellation of defect 2 (v0=580), euler #=-180 (171788,508635,336667) : difference with theory (-181) = -1
- CORRECTING DEFECT 3 (vertices=43, convex hull=40, v0=1063)
- After retessellation of defect 3 (v0=1063), euler #=-179 (171792,508662,336691) : difference with theory (-180) = -1
- CORRECTING DEFECT 4 (vertices=32, convex hull=63, v0=1371)
- After retessellation of defect 4 (v0=1371), euler #=-178 (171801,508715,336736) : difference with theory (-179) = -1
- CORRECTING DEFECT 5 (vertices=72, convex hull=38, v0=7201)
- After retessellation of defect 5 (v0=7201), euler #=-177 (171805,508739,336757) : difference with theory (-178) = -1
- CORRECTING DEFECT 6 (vertices=25, convex hull=38, v0=8184)
- After retessellation of defect 6 (v0=8184), euler #=-176 (171810,508769,336783) : difference with theory (-177) = -1
- CORRECTING DEFECT 7 (vertices=19, convex hull=50, v0=8948)
- After retessellation of defect 7 (v0=8948), euler #=-175 (171819,508815,336821) : difference with theory (-176) = -1
- CORRECTING DEFECT 8 (vertices=48, convex hull=54, v0=12599)
- After retessellation of defect 8 (v0=12599), euler #=-174 (171825,508851,336852) : difference with theory (-175) = -1
- CORRECTING DEFECT 9 (vertices=967, convex hull=501, v0=13907)
- After retessellation of defect 9 (v0=13907), euler #=-173 (172022,509707,337512) : difference with theory (-174) = -1
- CORRECTING DEFECT 10 (vertices=19, convex hull=32, v0=17254)
- After retessellation of defect 10 (v0=17254), euler #=-172 (172025,509722,337525) : difference with theory (-173) = -1
- CORRECTING DEFECT 11 (vertices=15, convex hull=29, v0=18930)
- After retessellation of defect 11 (v0=18930), euler #=-171 (172027,509736,337538) : difference with theory (-172) = -1
- CORRECTING DEFECT 12 (vertices=32, convex hull=62, v0=19625)
- After retessellation of defect 12 (v0=19625), euler #=-170 (172036,509790,337584) : difference with theory (-171) = -1
- CORRECTING DEFECT 13 (vertices=71, convex hull=54, v0=20146)
- After retessellation of defect 13 (v0=20146), euler #=-169 (172043,509834,337622) : difference with theory (-170) = -1
- CORRECTING DEFECT 14 (vertices=67, convex hull=67, v0=22290)
- After retessellation of defect 14 (v0=22290), euler #=-168 (172058,509904,337678) : difference with theory (-169) = -1
- CORRECTING DEFECT 15 (vertices=11, convex hull=32, v0=23487)
- After retessellation of defect 15 (v0=23487), euler #=-167 (172061,509923,337695) : difference with theory (-168) = -1
- CORRECTING DEFECT 16 (vertices=138, convex hull=84, v0=23529)
- After retessellation of defect 16 (v0=23529), euler #=-166 (172086,510029,337777) : difference with theory (-167) = -1
- CORRECTING DEFECT 17 (vertices=61, convex hull=88, v0=24523)
- After retessellation of defect 17 (v0=24523), euler #=-165 (172125,510182,337892) : difference with theory (-166) = -1
- CORRECTING DEFECT 18 (vertices=19, convex hull=18, v0=25151)
- After retessellation of defect 18 (v0=25151), euler #=-164 (172127,510192,337901) : difference with theory (-165) = -1
- CORRECTING DEFECT 19 (vertices=23, convex hull=48, v0=36457)
- After retessellation of defect 19 (v0=36457), euler #=-163 (172137,510243,337943) : difference with theory (-164) = -1
- CORRECTING DEFECT 20 (vertices=58, convex hull=72, v0=37921)
- After retessellation of defect 20 (v0=37921), euler #=-162 (172150,510310,337998) : difference with theory (-163) = -1
- CORRECTING DEFECT 21 (vertices=280, convex hull=144, v0=38199)
- After retessellation of defect 21 (v0=38199), euler #=-161 (172193,510513,338159) : difference with theory (-162) = -1
- CORRECTING DEFECT 22 (vertices=5, convex hull=26, v0=39495)
- After retessellation of defect 22 (v0=39495), euler #=-160 (172195,510526,338171) : difference with theory (-161) = -1
- CORRECTING DEFECT 23 (vertices=98, convex hull=65, v0=39995)
- After retessellation of defect 23 (v0=39995), euler #=-159 (172217,510616,338240) : difference with theory (-160) = -1
- CORRECTING DEFECT 24 (vertices=28, convex hull=53, v0=41357)
- After retessellation of defect 24 (v0=41357), euler #=-158 (172232,510682,338292) : difference with theory (-159) = -1
- CORRECTING DEFECT 25 (vertices=23, convex hull=40, v0=42186)
- After retessellation of defect 25 (v0=42186), euler #=-157 (172237,510710,338316) : difference with theory (-158) = -1
- CORRECTING DEFECT 26 (vertices=292, convex hull=181, v0=43684)
- After retessellation of defect 26 (v0=43684), euler #=-155 (172308,511017,338554) : difference with theory (-157) = -2
- CORRECTING DEFECT 27 (vertices=24, convex hull=59, v0=43956)
- After retessellation of defect 27 (v0=43956), euler #=-154 (172317,511067,338596) : difference with theory (-156) = -2
- CORRECTING DEFECT 28 (vertices=20, convex hull=50, v0=44193)
- After retessellation of defect 28 (v0=44193), euler #=-153 (172326,511110,338631) : difference with theory (-155) = -2
- CORRECTING DEFECT 29 (vertices=11, convex hull=21, v0=45839)
- After retessellation of defect 29 (v0=45839), euler #=-152 (172328,511120,338640) : difference with theory (-154) = -2
- CORRECTING DEFECT 30 (vertices=41, convex hull=77, v0=45900)
- After retessellation of defect 30 (v0=45900), euler #=-151 (172356,511231,338724) : difference with theory (-153) = -2
- CORRECTING DEFECT 31 (vertices=31, convex hull=60, v0=46117)
- After retessellation of defect 31 (v0=46117), euler #=-150 (172374,511309,338785) : difference with theory (-152) = -2
- CORRECTING DEFECT 32 (vertices=24, convex hull=40, v0=47855)
- After retessellation of defect 32 (v0=47855), euler #=-149 (172377,511334,338808) : difference with theory (-151) = -2
- CORRECTING DEFECT 33 (vertices=30, convex hull=64, v0=48922)
- After retessellation of defect 33 (v0=48922), euler #=-148 (172392,511405,338865) : difference with theory (-150) = -2
- CORRECTING DEFECT 34 (vertices=28, convex hull=59, v0=49089)
- After retessellation of defect 34 (v0=49089), euler #=-147 (172401,511454,338906) : difference with theory (-149) = -2
- CORRECTING DEFECT 35 (vertices=39, convex hull=82, v0=50150)
- After retessellation of defect 35 (v0=50150), euler #=-146 (172410,511513,338957) : difference with theory (-148) = -2
- CORRECTING DEFECT 36 (vertices=132, convex hull=82, v0=50178)
- After retessellation of defect 36 (v0=50178), euler #=-145 (172430,511606,339031) : difference with theory (-147) = -2
- CORRECTING DEFECT 37 (vertices=89, convex hull=69, v0=51079)
- After retessellation of defect 37 (v0=51079), euler #=-144 (172443,511669,339082) : difference with theory (-146) = -2
- CORRECTING DEFECT 38 (vertices=31, convex hull=51, v0=51569)
- After retessellation of defect 38 (v0=51569), euler #=-143 (172453,511717,339121) : difference with theory (-145) = -2
- CORRECTING DEFECT 39 (vertices=181, convex hull=157, v0=52321)
- After retessellation of defect 39 (v0=52321), euler #=-142 (172496,511917,339279) : difference with theory (-144) = -2
- CORRECTING DEFECT 40 (vertices=68, convex hull=82, v0=53372)
- After retessellation of defect 40 (v0=53372), euler #=-141 (172535,512070,339394) : difference with theory (-143) = -2
- CORRECTING DEFECT 41 (vertices=6, convex hull=20, v0=55817)
- After retessellation of defect 41 (v0=55817), euler #=-140 (172536,512078,339402) : difference with theory (-142) = -2
- CORRECTING DEFECT 42 (vertices=29, convex hull=83, v0=57435)
- After retessellation of defect 42 (v0=57435), euler #=-139 (172545,512140,339456) : difference with theory (-141) = -2
- CORRECTING DEFECT 43 (vertices=75, convex hull=111, v0=58437)
- After retessellation of defect 43 (v0=58437), euler #=-138 (172587,512317,339592) : difference with theory (-140) = -2
- CORRECTING DEFECT 44 (vertices=7, convex hull=32, v0=60990)
- After retessellation of defect 44 (v0=60990), euler #=-137 (172588,512330,339605) : difference with theory (-139) = -2
- CORRECTING DEFECT 45 (vertices=16, convex hull=52, v0=63764)
- After retessellation of defect 45 (v0=63764), euler #=-136 (172595,512369,339638) : difference with theory (-138) = -2
- CORRECTING DEFECT 46 (vertices=18, convex hull=53, v0=65389)
- After retessellation of defect 46 (v0=65389), euler #=-135 (172604,512415,339676) : difference with theory (-137) = -2
- CORRECTING DEFECT 47 (vertices=75, convex hull=66, v0=65395)
- After retessellation of defect 47 (v0=65395), euler #=-134 (172614,512467,339719) : difference with theory (-136) = -2
- CORRECTING DEFECT 48 (vertices=40, convex hull=60, v0=66768)
- After retessellation of defect 48 (v0=66768), euler #=-133 (172633,512548,339782) : difference with theory (-135) = -2
- CORRECTING DEFECT 49 (vertices=46, convex hull=56, v0=69746)
- After retessellation of defect 49 (v0=69746), euler #=-132 (172651,512629,339846) : difference with theory (-134) = -2
- CORRECTING DEFECT 50 (vertices=83, convex hull=79, v0=69854)
- After retessellation of defect 50 (v0=69854), euler #=-131 (172694,512797,339972) : difference with theory (-133) = -2
- CORRECTING DEFECT 51 (vertices=40, convex hull=60, v0=69987)
- After retessellation of defect 51 (v0=69987), euler #=-130 (172717,512889,340042) : difference with theory (-132) = -2
- CORRECTING DEFECT 52 (vertices=16, convex hull=33, v0=71252)
- After retessellation of defect 52 (v0=71252), euler #=-129 (172718,512903,340056) : difference with theory (-131) = -2
- CORRECTING DEFECT 53 (vertices=28, convex hull=23, v0=71270)
- After retessellation of defect 53 (v0=71270), euler #=-128 (172720,512916,340068) : difference with theory (-130) = -2
- CORRECTING DEFECT 54 (vertices=113, convex hull=92, v0=72713)
- After retessellation of defect 54 (v0=72713), euler #=-127 (172750,513046,340169) : difference with theory (-129) = -2
- CORRECTING DEFECT 55 (vertices=30, convex hull=48, v0=72867)
- After retessellation of defect 55 (v0=72867), euler #=-126 (172766,513114,340222) : difference with theory (-128) = -2
- CORRECTING DEFECT 56 (vertices=26, convex hull=23, v0=73143)
- After retessellation of defect 56 (v0=73143), euler #=-125 (172770,513132,340237) : difference with theory (-127) = -2
- CORRECTING DEFECT 57 (vertices=77, convex hull=61, v0=73316)
- After retessellation of defect 57 (v0=73316), euler #=-124 (172798,513242,340320) : difference with theory (-126) = -2
- CORRECTING DEFECT 58 (vertices=29, convex hull=51, v0=73380)
- After retessellation of defect 58 (v0=73380), euler #=-123 (172810,513296,340363) : difference with theory (-125) = -2
- CORRECTING DEFECT 59 (vertices=12, convex hull=21, v0=75688)
- After retessellation of defect 59 (v0=75688), euler #=-122 (172813,513311,340376) : difference with theory (-124) = -2
- CORRECTING DEFECT 60 (vertices=232, convex hull=215, v0=77238)
- After retessellation of defect 60 (v0=77238), euler #=-121 (172903,513683,340659) : difference with theory (-123) = -2
- CORRECTING DEFECT 61 (vertices=76, convex hull=68, v0=77694)
- After retessellation of defect 61 (v0=77694), euler #=-120 (172928,513787,340739) : difference with theory (-122) = -2
- CORRECTING DEFECT 62 (vertices=46, convex hull=102, v0=78492)
- After retessellation of defect 62 (v0=78492), euler #=-119 (172955,513915,340841) : difference with theory (-121) = -2
- CORRECTING DEFECT 63 (vertices=167, convex hull=72, v0=79168)
- After retessellation of defect 63 (v0=79168), euler #=-118 (172978,514015,340919) : difference with theory (-120) = -2
- CORRECTING DEFECT 64 (vertices=137, convex hull=113, v0=80976)
- After retessellation of defect 64 (v0=80976), euler #=-117 (173026,514209,341066) : difference with theory (-119) = -2
- CORRECTING DEFECT 65 (vertices=12, convex hull=26, v0=82237)
- After retessellation of defect 65 (v0=82237), euler #=-116 (173028,514225,341081) : difference with theory (-118) = -2
- CORRECTING DEFECT 66 (vertices=7, convex hull=29, v0=83691)
- After retessellation of defect 66 (v0=83691), euler #=-115 (173029,514237,341093) : difference with theory (-117) = -2
- CORRECTING DEFECT 67 (vertices=78, convex hull=117, v0=84672)
- After retessellation of defect 67 (v0=84672), euler #=-113 (173062,514397,341222) : difference with theory (-116) = -3
- CORRECTING DEFECT 68 (vertices=26, convex hull=52, v0=88693)
- After retessellation of defect 68 (v0=88693), euler #=-112 (173070,514442,341260) : difference with theory (-115) = -3
- CORRECTING DEFECT 69 (vertices=25, convex hull=30, v0=89014)
- After retessellation of defect 69 (v0=89014), euler #=-111 (173074,514462,341277) : difference with theory (-114) = -3
- CORRECTING DEFECT 70 (vertices=191, convex hull=219, v0=89720)
- After retessellation of defect 70 (v0=89720), euler #=-110 (173163,514832,341559) : difference with theory (-113) = -3
- CORRECTING DEFECT 71 (vertices=56, convex hull=95, v0=92694)
- After retessellation of defect 71 (v0=92694), euler #=-109 (173190,514950,341651) : difference with theory (-112) = -3
- CORRECTING DEFECT 72 (vertices=25, convex hull=48, v0=93672)
- After retessellation of defect 72 (v0=93672), euler #=-108 (173199,514996,341689) : difference with theory (-111) = -3
- CORRECTING DEFECT 73 (vertices=45, convex hull=79, v0=95204)
- After retessellation of defect 73 (v0=95204), euler #=-107 (173220,515088,341761) : difference with theory (-110) = -3
- CORRECTING DEFECT 74 (vertices=119, convex hull=57, v0=96130)
- After retessellation of defect 74 (v0=96130), euler #=-106 (173243,515191,341842) : difference with theory (-109) = -3
- CORRECTING DEFECT 75 (vertices=21, convex hull=47, v0=96620)
- After retessellation of defect 75 (v0=96620), euler #=-105 (173252,515235,341878) : difference with theory (-108) = -3
- CORRECTING DEFECT 76 (vertices=43, convex hull=63, v0=97512)
- After retessellation of defect 76 (v0=97512), euler #=-104 (173274,515331,341953) : difference with theory (-107) = -3
- CORRECTING DEFECT 77 (vertices=45, convex hull=37, v0=97683)
- After retessellation of defect 77 (v0=97683), euler #=-103 (173279,515357,341975) : difference with theory (-106) = -3
- CORRECTING DEFECT 78 (vertices=44, convex hull=77, v0=97891)
- After retessellation of defect 78 (v0=97891), euler #=-102 (173293,515430,342035) : difference with theory (-105) = -3
- CORRECTING DEFECT 79 (vertices=29, convex hull=55, v0=99208)
- After retessellation of defect 79 (v0=99208), euler #=-101 (173303,515481,342077) : difference with theory (-104) = -3
- CORRECTING DEFECT 80 (vertices=29, convex hull=49, v0=100280)
- After retessellation of defect 80 (v0=100280), euler #=-100 (173312,515523,342111) : difference with theory (-103) = -3
- CORRECTING DEFECT 81 (vertices=36, convex hull=71, v0=103430)
- After retessellation of defect 81 (v0=103430), euler #=-99 (173321,515580,342160) : difference with theory (-102) = -3
- CORRECTING DEFECT 82 (vertices=231, convex hull=155, v0=104418)
- After retessellation of defect 82 (v0=104418), euler #=-97 (173339,515706,342270) : difference with theory (-101) = -4
- CORRECTING DEFECT 83 (vertices=47, convex hull=87, v0=107468)
- After retessellation of defect 83 (v0=107468), euler #=-96 (173370,515833,342367) : difference with theory (-100) = -4
- CORRECTING DEFECT 84 (vertices=70, convex hull=98, v0=107847)
- After retessellation of defect 84 (v0=107847), euler #=-95 (173405,515980,342480) : difference with theory (-99) = -4
- CORRECTING DEFECT 85 (vertices=95, convex hull=111, v0=108751)
- After retessellation of defect 85 (v0=108751), euler #=-94 (173448,516154,342612) : difference with theory (-98) = -4
- CORRECTING DEFECT 86 (vertices=39, convex hull=71, v0=109526)
- After retessellation of defect 86 (v0=109526), euler #=-93 (173469,516245,342683) : difference with theory (-97) = -4
- CORRECTING DEFECT 87 (vertices=432, convex hull=228, v0=109948)
- After retessellation of defect 87 (v0=109948), euler #=-92 (173605,516771,343074) : difference with theory (-96) = -4
- CORRECTING DEFECT 88 (vertices=15, convex hull=38, v0=110055)
- After retessellation of defect 88 (v0=110055), euler #=-91 (173607,516793,343095) : difference with theory (-95) = -4
- CORRECTING DEFECT 89 (vertices=25, convex hull=23, v0=110800)
- After retessellation of defect 89 (v0=110800), euler #=-90 (173610,516807,343107) : difference with theory (-94) = -4
- CORRECTING DEFECT 90 (vertices=133, convex hull=235, v0=112278)
- After retessellation of defect 90 (v0=112278), euler #=-87 (173698,517176,343391) : difference with theory (-93) = -6
- CORRECTING DEFECT 91 (vertices=30, convex hull=43, v0=113115)
- After retessellation of defect 91 (v0=113115), euler #=-86 (173715,517242,343441) : difference with theory (-92) = -6
- CORRECTING DEFECT 92 (vertices=15, convex hull=29, v0=113902)
- After retessellation of defect 92 (v0=113902), euler #=-85 (173718,517257,343454) : difference with theory (-91) = -6
- CORRECTING DEFECT 93 (vertices=101, convex hull=171, v0=113972)
- After retessellation of defect 93 (v0=113972), euler #=-84 (173788,517549,343677) : difference with theory (-90) = -6
- CORRECTING DEFECT 94 (vertices=28, convex hull=61, v0=114196)
- After retessellation of defect 94 (v0=114196), euler #=-83 (173802,517619,343734) : difference with theory (-89) = -6
- CORRECTING DEFECT 95 (vertices=1325, convex hull=277, v0=115201)
- L defect detected...
- After retessellation of defect 95 (v0=115201), euler #=-82 (173944,518193,344167) : difference with theory (-88) = -6
- CORRECTING DEFECT 96 (vertices=8, convex hull=23, v0=116417)
- After retessellation of defect 96 (v0=116417), euler #=-81 (173946,518206,344179) : difference with theory (-87) = -6
- CORRECTING DEFECT 97 (vertices=84, convex hull=116, v0=116461)
- After retessellation of defect 97 (v0=116461), euler #=-80 (173955,518281,344246) : difference with theory (-86) = -6
- CORRECTING DEFECT 98 (vertices=94, convex hull=136, v0=116940)
- After retessellation of defect 98 (v0=116940), euler #=-79 (173996,518463,344388) : difference with theory (-85) = -6
- CORRECTING DEFECT 99 (vertices=30, convex hull=34, v0=118063)
- After retessellation of defect 99 (v0=118063), euler #=-78 (174002,518491,344411) : difference with theory (-84) = -6
- CORRECTING DEFECT 100 (vertices=43, convex hull=34, v0=118187)
- After retessellation of defect 100 (v0=118187), euler #=-77 (174010,518525,344438) : difference with theory (-83) = -6
- CORRECTING DEFECT 101 (vertices=6, convex hull=36, v0=119162)
- After retessellation of defect 101 (v0=119162), euler #=-76 (174013,518546,344457) : difference with theory (-82) = -6
- CORRECTING DEFECT 102 (vertices=28, convex hull=52, v0=119287)
- After retessellation of defect 102 (v0=119287), euler #=-75 (174024,518598,344499) : difference with theory (-81) = -6
- CORRECTING DEFECT 103 (vertices=24, convex hull=37, v0=119347)
- After retessellation of defect 103 (v0=119347), euler #=-74 (174028,518624,344522) : difference with theory (-80) = -6
- CORRECTING DEFECT 104 (vertices=153, convex hull=147, v0=119477)
- After retessellation of defect 104 (v0=119477), euler #=-72 (174079,518847,344696) : difference with theory (-79) = -7
- CORRECTING DEFECT 105 (vertices=61, convex hull=67, v0=119592)
- After retessellation of defect 105 (v0=119592), euler #=-71 (174095,518924,344758) : difference with theory (-78) = -7
- CORRECTING DEFECT 106 (vertices=42, convex hull=58, v0=120022)
- After retessellation of defect 106 (v0=120022), euler #=-70 (174123,519035,344842) : difference with theory (-77) = -7
- CORRECTING DEFECT 107 (vertices=37, convex hull=60, v0=120342)
- After retessellation of defect 107 (v0=120342), euler #=-69 (174146,519128,344913) : difference with theory (-76) = -7
- CORRECTING DEFECT 108 (vertices=5565, convex hull=1314, v0=121031)
- XL defect detected...
- After retessellation of defect 108 (v0=121031), euler #=-76 (175064,522694,347554) : difference with theory (-75) = 1
- CORRECTING DEFECT 109 (vertices=5, convex hull=14, v0=121046)
- After retessellation of defect 109 (v0=121046), euler #=-75 (175066,522703,347562) : difference with theory (-74) = 1
- CORRECTING DEFECT 110 (vertices=72, convex hull=104, v0=126844)
- After retessellation of defect 110 (v0=126844), euler #=-74 (175076,522779,347629) : difference with theory (-73) = 1
- CORRECTING DEFECT 111 (vertices=47, convex hull=70, v0=127132)
- After retessellation of defect 111 (v0=127132), euler #=-73 (175094,522861,347694) : difference with theory (-72) = 1
- CORRECTING DEFECT 112 (vertices=39, convex hull=75, v0=127580)
- After retessellation of defect 112 (v0=127580), euler #=-72 (175106,522926,347748) : difference with theory (-71) = 1
- CORRECTING DEFECT 113 (vertices=8, convex hull=19, v0=128413)
- After retessellation of defect 113 (v0=128413), euler #=-71 (175107,522934,347756) : difference with theory (-70) = 1
- CORRECTING DEFECT 114 (vertices=137, convex hull=123, v0=128560)
- After retessellation of defect 114 (v0=128560), euler #=-69 (175141,523094,347884) : difference with theory (-69) = 0
- CORRECTING DEFECT 115 (vertices=88, convex hull=136, v0=128732)
- After retessellation of defect 115 (v0=128732), euler #=-68 (175156,523202,347978) : difference with theory (-68) = 0
- CORRECTING DEFECT 116 (vertices=144, convex hull=199, v0=129119)
- After retessellation of defect 116 (v0=129119), euler #=-67 (175242,523569,348260) : difference with theory (-67) = 0
- CORRECTING DEFECT 117 (vertices=47, convex hull=72, v0=129332)
- After retessellation of defect 117 (v0=129332), euler #=-66 (175259,523649,348324) : difference with theory (-66) = 0
- CORRECTING DEFECT 118 (vertices=19, convex hull=43, v0=129359)
- After retessellation of defect 118 (v0=129359), euler #=-65 (175271,523702,348366) : difference with theory (-65) = 0
- CORRECTING DEFECT 119 (vertices=32, convex hull=55, v0=129428)
- After retessellation of defect 119 (v0=129428), euler #=-64 (175280,523754,348410) : difference with theory (-64) = 0
- CORRECTING DEFECT 120 (vertices=77, convex hull=90, v0=129819)
- After retessellation of defect 120 (v0=129819), euler #=-63 (175315,523905,348527) : difference with theory (-63) = 0
- CORRECTING DEFECT 121 (vertices=65, convex hull=63, v0=130101)
- After retessellation of defect 121 (v0=130101), euler #=-62 (175334,523987,348591) : difference with theory (-62) = 0
- CORRECTING DEFECT 122 (vertices=34, convex hull=67, v0=130195)
- After retessellation of defect 122 (v0=130195), euler #=-61 (175356,524079,348662) : difference with theory (-61) = 0
- CORRECTING DEFECT 123 (vertices=56, convex hull=72, v0=130371)
- After retessellation of defect 123 (v0=130371), euler #=-60 (175384,524194,348750) : difference with theory (-60) = 0
- CORRECTING DEFECT 124 (vertices=34, convex hull=46, v0=132976)
- After retessellation of defect 124 (v0=132976), euler #=-59 (175404,524272,348809) : difference with theory (-59) = 0
- CORRECTING DEFECT 125 (vertices=13, convex hull=30, v0=134122)
- After retessellation of defect 125 (v0=134122), euler #=-58 (175406,524286,348822) : difference with theory (-58) = 0
- CORRECTING DEFECT 126 (vertices=35, convex hull=83, v0=134529)
- After retessellation of defect 126 (v0=134529), euler #=-57 (175417,524351,348877) : difference with theory (-57) = 0
- CORRECTING DEFECT 127 (vertices=44, convex hull=55, v0=134582)
- After retessellation of defect 127 (v0=134582), euler #=-56 (175427,524403,348920) : difference with theory (-56) = 0
- CORRECTING DEFECT 128 (vertices=22, convex hull=27, v0=135203)
- After retessellation of defect 128 (v0=135203), euler #=-55 (175431,524423,348937) : difference with theory (-55) = 0
- CORRECTING DEFECT 129 (vertices=327, convex hull=78, v0=136988)
- After retessellation of defect 129 (v0=136988), euler #=-54 (175453,524523,349016) : difference with theory (-54) = 0
- CORRECTING DEFECT 130 (vertices=11, convex hull=30, v0=141703)
- After retessellation of defect 130 (v0=141703), euler #=-53 (175455,524541,349033) : difference with theory (-53) = 0
- CORRECTING DEFECT 131 (vertices=601, convex hull=322, v0=142420)
- After retessellation of defect 131 (v0=142420), euler #=-51 (175564,525041,349426) : difference with theory (-52) = -1
- CORRECTING DEFECT 132 (vertices=42, convex hull=67, v0=142962)
- After retessellation of defect 132 (v0=142962), euler #=-50 (175587,525137,349500) : difference with theory (-51) = -1
- CORRECTING DEFECT 133 (vertices=97, convex hull=134, v0=143328)
- After retessellation of defect 133 (v0=143328), euler #=-49 (175631,525341,349661) : difference with theory (-50) = -1
- CORRECTING DEFECT 134 (vertices=86, convex hull=101, v0=144152)
- After retessellation of defect 134 (v0=144152), euler #=-48 (175675,525519,349796) : difference with theory (-49) = -1
- CORRECTING DEFECT 135 (vertices=42, convex hull=102, v0=148378)
- After retessellation of defect 135 (v0=148378), euler #=-47 (175701,525636,349888) : difference with theory (-48) = -1
- CORRECTING DEFECT 136 (vertices=7, convex hull=38, v0=149717)
- After retessellation of defect 136 (v0=149717), euler #=-46 (175702,525652,349904) : difference with theory (-47) = -1
- CORRECTING DEFECT 137 (vertices=197, convex hull=169, v0=149899)
- After retessellation of defect 137 (v0=149899), euler #=-45 (175726,525804,350033) : difference with theory (-46) = -1
- CORRECTING DEFECT 138 (vertices=57, convex hull=61, v0=150908)
- After retessellation of defect 138 (v0=150908), euler #=-44 (175750,525897,350103) : difference with theory (-45) = -1
- CORRECTING DEFECT 139 (vertices=43, convex hull=81, v0=151820)
- After retessellation of defect 139 (v0=151820), euler #=-43 (175773,526001,350185) : difference with theory (-44) = -1
- CORRECTING DEFECT 140 (vertices=32, convex hull=44, v0=154468)
- After retessellation of defect 140 (v0=154468), euler #=-42 (175780,526041,350219) : difference with theory (-43) = -1
- CORRECTING DEFECT 141 (vertices=38, convex hull=25, v0=154535)
- After retessellation of defect 141 (v0=154535), euler #=-41 (175787,526070,350242) : difference with theory (-42) = -1
- CORRECTING DEFECT 142 (vertices=46, convex hull=60, v0=155001)
- After retessellation of defect 142 (v0=155001), euler #=-40 (175805,526152,350307) : difference with theory (-41) = -1
- CORRECTING DEFECT 143 (vertices=16, convex hull=24, v0=156825)
- After retessellation of defect 143 (v0=156825), euler #=-39 (175805,526161,350317) : difference with theory (-40) = -1
- CORRECTING DEFECT 144 (vertices=30, convex hull=85, v0=156829)
- After retessellation of defect 144 (v0=156829), euler #=-38 (175813,526220,350369) : difference with theory (-39) = -1
- CORRECTING DEFECT 145 (vertices=23, convex hull=29, v0=157476)
- After retessellation of defect 145 (v0=157476), euler #=-37 (175815,526237,350385) : difference with theory (-38) = -1
- CORRECTING DEFECT 146 (vertices=21, convex hull=43, v0=158332)
- After retessellation of defect 146 (v0=158332), euler #=-36 (175827,526288,350425) : difference with theory (-37) = -1
- CORRECTING DEFECT 147 (vertices=10, convex hull=12, v0=159254)
- After retessellation of defect 147 (v0=159254), euler #=-35 (175828,526295,350432) : difference with theory (-36) = -1
- CORRECTING DEFECT 148 (vertices=43, convex hull=52, v0=159285)
- After retessellation of defect 148 (v0=159285), euler #=-34 (175841,526355,350480) : difference with theory (-35) = -1
- CORRECTING DEFECT 149 (vertices=20, convex hull=30, v0=159623)
- After retessellation of defect 149 (v0=159623), euler #=-33 (175845,526374,350496) : difference with theory (-34) = -1
- CORRECTING DEFECT 150 (vertices=17, convex hull=26, v0=159921)
- After retessellation of defect 150 (v0=159921), euler #=-32 (175847,526386,350507) : difference with theory (-33) = -1
- CORRECTING DEFECT 151 (vertices=380, convex hull=178, v0=160896)
- After retessellation of defect 151 (v0=160896), euler #=-32 (175941,526762,350789) : difference with theory (-32) = 0
- CORRECTING DEFECT 152 (vertices=53, convex hull=91, v0=161713)
- After retessellation of defect 152 (v0=161713), euler #=-31 (175964,526877,350882) : difference with theory (-31) = 0
- CORRECTING DEFECT 153 (vertices=38, convex hull=82, v0=162211)
- After retessellation of defect 153 (v0=162211), euler #=-30 (175976,526947,350941) : difference with theory (-30) = 0
- CORRECTING DEFECT 154 (vertices=31, convex hull=80, v0=163239)
- After retessellation of defect 154 (v0=163239), euler #=-29 (175996,527039,351014) : difference with theory (-29) = 0
- CORRECTING DEFECT 155 (vertices=105, convex hull=142, v0=163681)
- After retessellation of defect 155 (v0=163681), euler #=-27 (176033,527226,351166) : difference with theory (-28) = -1
- CORRECTING DEFECT 156 (vertices=73, convex hull=125, v0=165371)
- After retessellation of defect 156 (v0=165371), euler #=-26 (176076,527410,351308) : difference with theory (-27) = -1
- CORRECTING DEFECT 157 (vertices=24, convex hull=63, v0=165700)
- After retessellation of defect 157 (v0=165700), euler #=-25 (176085,527459,351349) : difference with theory (-26) = -1
- CORRECTING DEFECT 158 (vertices=37, convex hull=59, v0=167982)
- After retessellation of defect 158 (v0=167982), euler #=-24 (176103,527536,351409) : difference with theory (-25) = -1
- CORRECTING DEFECT 159 (vertices=42, convex hull=76, v0=168776)
- After retessellation of defect 159 (v0=168776), euler #=-23 (176115,527600,351462) : difference with theory (-24) = -1
- CORRECTING DEFECT 160 (vertices=33, convex hull=91, v0=168989)
- After retessellation of defect 160 (v0=168989), euler #=-22 (176131,527681,351528) : difference with theory (-23) = -1
- CORRECTING DEFECT 161 (vertices=38, convex hull=76, v0=170685)
- After retessellation of defect 161 (v0=170685), euler #=-21 (176142,527747,351584) : difference with theory (-22) = -1
- CORRECTING DEFECT 162 (vertices=101, convex hull=100, v0=171555)
- After retessellation of defect 162 (v0=171555), euler #=-20 (176170,527873,351683) : difference with theory (-21) = -1
- CORRECTING DEFECT 163 (vertices=28, convex hull=34, v0=174099)
- After retessellation of defect 163 (v0=174099), euler #=-19 (176172,527889,351698) : difference with theory (-20) = -1
- CORRECTING DEFECT 164 (vertices=64, convex hull=117, v0=175011)
- After retessellation of defect 164 (v0=175011), euler #=-18 (176205,528043,351820) : difference with theory (-19) = -1
- CORRECTING DEFECT 165 (vertices=100, convex hull=129, v0=175636)
- After retessellation of defect 165 (v0=175636), euler #=-18 (176261,528281,352002) : difference with theory (-18) = 0
- CORRECTING DEFECT 166 (vertices=32, convex hull=39, v0=176297)
- After retessellation of defect 166 (v0=176297), euler #=-17 (176266,528309,352026) : difference with theory (-17) = 0
- CORRECTING DEFECT 167 (vertices=46, convex hull=68, v0=177354)
- After retessellation of defect 167 (v0=177354), euler #=-16 (176286,528396,352094) : difference with theory (-16) = 0
- CORRECTING DEFECT 168 (vertices=30, convex hull=65, v0=178297)
- After retessellation of defect 168 (v0=178297), euler #=-15 (176304,528473,352154) : difference with theory (-15) = 0
- CORRECTING DEFECT 169 (vertices=28, convex hull=55, v0=178927)
- After retessellation of defect 169 (v0=178927), euler #=-14 (176318,528540,352208) : difference with theory (-14) = 0
- CORRECTING DEFECT 170 (vertices=83, convex hull=100, v0=179333)
- After retessellation of defect 170 (v0=179333), euler #=-13 (176362,528714,352339) : difference with theory (-13) = 0
- CORRECTING DEFECT 171 (vertices=105, convex hull=111, v0=179591)
- After retessellation of defect 171 (v0=179591), euler #=-12 (176379,528812,352421) : difference with theory (-12) = 0
- CORRECTING DEFECT 172 (vertices=49, convex hull=96, v0=179839)
- After retessellation of defect 172 (v0=179839), euler #=-11 (176402,528920,352507) : difference with theory (-11) = 0
- CORRECTING DEFECT 173 (vertices=96, convex hull=88, v0=181860)
- After retessellation of defect 173 (v0=181860), euler #=-10 (176432,529051,352609) : difference with theory (-10) = 0
- CORRECTING DEFECT 174 (vertices=25, convex hull=67, v0=182548)
- After retessellation of defect 174 (v0=182548), euler #=-9 (176440,529107,352658) : difference with theory (-9) = 0
- CORRECTING DEFECT 175 (vertices=58, convex hull=71, v0=182599)
- After retessellation of defect 175 (v0=182599), euler #=-8 (176468,529220,352744) : difference with theory (-8) = 0
- CORRECTING DEFECT 176 (vertices=38, convex hull=30, v0=185294)
- After retessellation of defect 176 (v0=185294), euler #=-7 (176470,529237,352760) : difference with theory (-7) = 0
- CORRECTING DEFECT 177 (vertices=29, convex hull=49, v0=185999)
- After retessellation of defect 177 (v0=185999), euler #=-6 (176486,529308,352816) : difference with theory (-6) = 0
- CORRECTING DEFECT 178 (vertices=11, convex hull=25, v0=186356)
- After retessellation of defect 178 (v0=186356), euler #=-5 (176487,529319,352827) : difference with theory (-5) = 0
- CORRECTING DEFECT 179 (vertices=43, convex hull=73, v0=186978)
- After retessellation of defect 179 (v0=186978), euler #=-4 (176509,529414,352901) : difference with theory (-4) = 0
- CORRECTING DEFECT 180 (vertices=39, convex hull=49, v0=187355)
- After retessellation of defect 180 (v0=187355), euler #=-3 (176520,529464,352941) : difference with theory (-3) = 0
- CORRECTING DEFECT 181 (vertices=29, convex hull=61, v0=187543)
- After retessellation of defect 181 (v0=187543), euler #=-2 (176529,529514,352983) : difference with theory (-2) = 0
- CORRECTING DEFECT 182 (vertices=6, convex hull=29, v0=188957)
- After retessellation of defect 182 (v0=188957), euler #=-1 (176530,529525,352994) : difference with theory (-1) = 0
- CORRECTING DEFECT 183 (vertices=49, convex hull=75, v0=189015)
- After retessellation of defect 183 (v0=189015), euler #=0 (176552,529622,353070) : difference with theory (0) = 0
- CORRECTING DEFECT 184 (vertices=31, convex hull=49, v0=189033)
- After retessellation of defect 184 (v0=189033), euler #=1 (176561,529666,353106) : difference with theory (1) = 0
- CORRECTING DEFECT 185 (vertices=11, convex hull=29, v0=190116)
- After retessellation of defect 185 (v0=190116), euler #=2 (176561,529677,353118) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.31 (0.04-->34.56) (max @ vno 116784 --> 143449)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.31 (0.04-->34.56) (max @ vno 116784 --> 143449)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 585 mutations (33.8%), 1147 crossovers (66.2%), 1369 vertices were eliminated
- building final representation...
- 14359 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=176561, nf=353118, ne=529677, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 310.6 minutes
- 0 defective edges
- removing intersecting faces
- 000: 1589 intersecting
- 001: 159 intersecting
- 002: 43 intersecting
- 003: 10 intersecting
- 004: 7 intersecting
- mris_fix_topology utimesec 18647.105209
- mris_fix_topology stimesec 0.568913
- mris_fix_topology ru_maxrss 666376
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 77567
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 23040
- mris_fix_topology ru_oublock 18376
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 831
- mris_fix_topology ru_nivcsw 37305
- FSRUNTIME@ mris_fix_topology rh 5.1765 hours 1 threads
- PIDs (17666 17669) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 183509 - 550521 + 367014 = 2 --> 0 holes
- F =2V-4: 367014 = 367018-4 (0)
- 2E=3F: 1101042 = 1101042 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 176561 - 529677 + 353118 = 2 --> 0 holes
- F =2V-4: 353118 = 353122-4 (0)
- 2E=3F: 1059354 = 1059354 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 176 intersecting
- 001: 25 intersecting
- 002: 17 intersecting
- 003: 13 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 459 intersecting
- 001: 73 intersecting
- 002: 33 intersecting
- 003: 10 intersecting
- 004: 4 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sun Oct 8 05:27:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 lh
- #--------------------------------------------
- #@# Make White Surf rh Sun Oct 8 05:27:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 rh
- Waiting for PID 30491 of (30491 30494) to complete...
- Waiting for PID 30494 of (30491 30494) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 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-6.0.0/0050184/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- 36246 bright wm thresholded.
- 330 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig...
- computing class statistics...
- border white: 349830 voxels (2.09%)
- border gray 408403 voxels (2.43%)
- WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0]
- GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 52.1 (was 70)
- setting MAX_BORDER_WHITE to 109.5 (was 105)
- setting MIN_BORDER_WHITE to 63.0 (was 85)
- setting MAX_CSF to 41.2 (was 40)
- setting MAX_GRAY to 90.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 52.1 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 30.3 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.24 (0.02-->7.91) (max @ vno 25792 --> 180570)
- face area 0.27 +- 0.14 (0.00-->8.61)
- mean absolute distance = 0.67 +- 0.82
- 5306 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=100+-8.7, GM=63+-7.8
- mean inside = 90.3, mean outside = 69.6
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=75.3, 162 (162) missing vertices, mean dist 0.3 [0.6 (%36.6)->0.7 (%63.4))]
- %72 local maxima, %24 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.27 (0.10-->7.62) (max @ vno 25792 --> 180570)
- face area 0.27 +- 0.14 (0.00-->8.89)
- mean absolute distance = 0.35 +- 0.55
- 4780 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4883690.0, rms=10.737
- 001: dt: 0.5000, sse=2740268.8, rms=7.563 (29.556%)
- 002: dt: 0.5000, sse=1928599.0, rms=5.868 (22.412%)
- 003: dt: 0.5000, sse=1577935.9, rms=4.961 (15.459%)
- 004: dt: 0.5000, sse=1417887.4, rms=4.479 (9.728%)
- 005: dt: 0.5000, sse=1350464.9, rms=4.265 (4.761%)
- 006: dt: 0.5000, sse=1315471.1, rms=4.142 (2.889%)
- rms = 4.10, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=1302143.4, rms=4.097 (1.080%)
- 008: dt: 0.2500, sse=1056540.2, rms=2.948 (28.048%)
- 009: dt: 0.2500, sse=964883.5, rms=2.584 (12.352%)
- 010: dt: 0.2500, sse=950335.1, rms=2.494 (3.494%)
- 011: dt: 0.2500, sse=937060.3, rms=2.425 (2.755%)
- rms = 2.39, time step reduction 2 of 3 to 0.125...
- 012: dt: 0.2500, sse=932069.6, rms=2.394 (1.263%)
- 013: dt: 0.1250, sse=914060.8, rms=2.286 (4.507%)
- rms = 2.27, time step reduction 3 of 3 to 0.062...
- 014: dt: 0.1250, sse=911775.4, rms=2.272 (0.642%)
- positioning took 2.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=79.2, 160 (31) missing vertices, mean dist -0.2 [0.4 (%75.2)->0.3 (%24.8))]
- %83 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.89 +- 0.26 (0.06-->7.49) (max @ vno 25792 --> 180570)
- face area 0.34 +- 0.18 (0.00-->11.52)
- mean absolute distance = 0.24 +- 0.37
- 4223 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1887080.6, rms=5.252
- 015: dt: 0.5000, sse=1381064.6, rms=3.614 (31.177%)
- rms = 3.91, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=1180979.5, rms=2.734 (24.351%)
- 017: dt: 0.2500, sse=1108079.0, rms=2.262 (17.287%)
- 018: dt: 0.2500, sse=1073784.4, rms=2.053 (9.227%)
- 019: dt: 0.2500, sse=1065298.0, rms=1.993 (2.897%)
- rms = 1.95, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=1051639.0, rms=1.950 (2.163%)
- 021: dt: 0.1250, sse=1049312.4, rms=1.855 (4.881%)
- rms = 1.85, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=1040475.1, rms=1.849 (0.337%)
- positioning took 1.5 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=81.2, 179 (19) missing vertices, mean dist -0.1 [0.3 (%65.3)->0.2 (%34.7))]
- %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.89 +- 0.26 (0.07-->7.36) (max @ vno 25792 --> 180570)
- face area 0.33 +- 0.17 (0.00-->11.40)
- mean absolute distance = 0.22 +- 0.32
- 3653 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1229280.0, rms=3.080
- rms = 3.33, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=1078592.6, rms=2.290 (25.648%)
- 024: dt: 0.2500, sse=1020461.7, rms=1.847 (19.359%)
- 025: dt: 0.2500, sse=1008114.3, rms=1.781 (3.581%)
- rms = 1.76, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=1004132.1, rms=1.757 (1.323%)
- 027: dt: 0.1250, sse=991354.2, rms=1.663 (5.378%)
- rms = 1.66, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=993013.6, rms=1.656 (0.376%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=81.9, 247 (15) missing vertices, mean dist -0.0 [0.2 (%53.3)->0.2 (%46.7))]
- %90 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=1013832.8, rms=1.866
- rms = 2.15, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=959294.9, rms=1.444 (22.608%)
- 030: dt: 0.2500, sse=951509.7, rms=1.270 (12.020%)
- rms = 1.26, time step reduction 2 of 3 to 0.125...
- 031: dt: 0.2500, sse=940758.5, rms=1.263 (0.568%)
- rms = 1.24, time step reduction 3 of 3 to 0.062...
- 032: dt: 0.1250, sse=944924.6, rms=1.239 (1.890%)
- positioning took 0.8 minutes
- generating cortex label...
- 8 non-cortical segments detected
- only using segment with 7977 vertices
- erasing segment 0 (vno[0] = 49850)
- erasing segment 2 (vno[0] = 125421)
- erasing segment 3 (vno[0] = 126562)
- erasing segment 4 (vno[0] = 131568)
- erasing segment 5 (vno[0] = 137625)
- erasing segment 6 (vno[0] = 138788)
- erasing segment 7 (vno[0] = 142878)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.area
- vertex spacing 0.89 +- 0.26 (0.02-->7.30) (max @ vno 25792 --> 180570)
- face area 0.33 +- 0.17 (0.00-->10.85)
- refinement took 8.6 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 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-6.0.0/0050184/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- 36246 bright wm thresholded.
- 330 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.orig...
- computing class statistics...
- border white: 349830 voxels (2.09%)
- border gray 408403 voxels (2.43%)
- WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0]
- GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 51.1 (was 70)
- setting MAX_BORDER_WHITE to 108.5 (was 105)
- setting MIN_BORDER_WHITE to 62.0 (was 85)
- setting MAX_CSF to 40.2 (was 40)
- setting MAX_GRAY to 89.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 51.1 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 29.3 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.80 +- 0.25 (0.02-->6.51) (max @ vno 36471 --> 56935)
- face area 0.27 +- 0.14 (0.00-->8.36)
- mean absolute distance = 0.71 +- 0.89
- 4610 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-11.3, GM=62+-8.7
- mean inside = 89.2, mean outside = 68.9
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- mean border=74.8, 192 (192) missing vertices, mean dist 0.3 [0.6 (%35.9)->0.8 (%64.1))]
- %69 local maxima, %27 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.90 +- 0.29 (0.07-->6.43) (max @ vno 36471 --> 56935)
- face area 0.27 +- 0.15 (0.00-->8.02)
- mean absolute distance = 0.37 +- 0.60
- 4980 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4728224.0, rms=10.756
- 001: dt: 0.5000, sse=2674845.5, rms=7.649 (28.887%)
- 002: dt: 0.5000, sse=1900496.8, rms=5.987 (21.727%)
- 003: dt: 0.5000, sse=1558638.2, rms=5.103 (14.773%)
- 004: dt: 0.5000, sse=1404404.1, rms=4.639 (9.078%)
- 005: dt: 0.5000, sse=1339883.2, rms=4.401 (5.143%)
- 006: dt: 0.5000, sse=1301146.2, rms=4.279 (2.763%)
- 007: dt: 0.5000, sse=1282188.8, rms=4.210 (1.619%)
- rms = 4.17, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1291438.6, rms=4.169 (0.963%)
- 009: dt: 0.2500, sse=1015125.8, rms=3.069 (26.390%)
- 010: dt: 0.2500, sse=943827.2, rms=2.711 (11.675%)
- 011: dt: 0.2500, sse=937804.9, rms=2.639 (2.636%)
- 012: dt: 0.2500, sse=922805.0, rms=2.575 (2.428%)
- rms = 2.55, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=923152.8, rms=2.554 (0.817%)
- 014: dt: 0.1250, sse=899167.4, rms=2.438 (4.563%)
- rms = 2.42, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=898328.4, rms=2.423 (0.590%)
- positioning took 2.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- mean border=78.2, 318 (49) missing vertices, mean dist -0.2 [0.4 (%70.9)->0.3 (%29.1))]
- %78 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.28 (0.10-->6.32) (max @ vno 36471 --> 56935)
- face area 0.34 +- 0.19 (0.00-->10.16)
- mean absolute distance = 0.27 +- 0.42
- 4876 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1698169.0, rms=4.900
- 016: dt: 0.5000, sse=1341758.5, rms=3.586 (26.820%)
- rms = 3.88, time step reduction 1 of 3 to 0.250...
- 017: dt: 0.2500, sse=1143038.2, rms=2.718 (24.211%)
- 018: dt: 0.2500, sse=1070333.6, rms=2.301 (15.336%)
- 019: dt: 0.2500, sse=1082750.9, rms=2.139 (7.037%)
- rms = 2.11, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=1042627.1, rms=2.106 (1.553%)
- 021: dt: 0.1250, sse=1026222.4, rms=1.992 (5.405%)
- rms = 1.98, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=1024595.6, rms=1.981 (0.551%)
- positioning took 1.3 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- mean border=80.2, 346 (26) missing vertices, mean dist -0.1 [0.3 (%63.4)->0.2 (%36.6))]
- %84 local maxima, %11 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.89 +- 0.28 (0.07-->6.30) (max @ vno 36471 --> 56935)
- face area 0.34 +- 0.18 (0.00-->9.92)
- mean absolute distance = 0.25 +- 0.36
- 4069 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1212246.1, rms=3.158
- rms = 3.39, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=1083525.1, rms=2.427 (23.149%)
- 024: dt: 0.2500, sse=1014602.1, rms=1.981 (18.364%)
- 025: dt: 0.2500, sse=997778.1, rms=1.923 (2.938%)
- rms = 1.89, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=990531.2, rms=1.892 (1.595%)
- 027: dt: 0.1250, sse=977592.4, rms=1.786 (5.636%)
- rms = 1.78, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=979218.5, rms=1.784 (0.115%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=80.9, 450 (25) missing vertices, mean dist -0.0 [0.3 (%53.1)->0.2 (%46.9))]
- %87 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=1001979.1, rms=2.002
- rms = 2.28, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=945632.9, rms=1.547 (22.700%)
- 030: dt: 0.2500, sse=928873.8, rms=1.342 (13.246%)
- rms = 1.34, time step reduction 2 of 3 to 0.125...
- 031: dt: 0.2500, sse=925509.5, rms=1.338 (0.297%)
- rms = 1.31, time step reduction 3 of 3 to 0.062...
- 032: dt: 0.1250, sse=936991.9, rms=1.313 (1.917%)
- positioning took 0.8 minutes
- generating cortex label...
- 13 non-cortical segments detected
- only using segment with 7813 vertices
- erasing segment 0 (vno[0] = 61637)
- erasing segment 2 (vno[0] = 75008)
- erasing segment 3 (vno[0] = 83186)
- erasing segment 4 (vno[0] = 124891)
- erasing segment 5 (vno[0] = 124948)
- erasing segment 6 (vno[0] = 125978)
- erasing segment 7 (vno[0] = 126092)
- erasing segment 8 (vno[0] = 129404)
- erasing segment 9 (vno[0] = 130339)
- erasing segment 10 (vno[0] = 131308)
- erasing segment 11 (vno[0] = 134799)
- erasing segment 12 (vno[0] = 136515)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.area
- vertex spacing 0.89 +- 0.28 (0.02-->6.36) (max @ vno 36471 --> 56935)
- face area 0.33 +- 0.18 (0.00-->9.78)
- refinement took 8.4 minutes
- PIDs (30491 30494) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sun Oct 8 05:36:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sun Oct 8 05:36:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 30935 of (30935 30938) to complete...
- Waiting for PID 30938 of (30935 30938) 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 (30935 30938) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sun Oct 8 05:36:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sun Oct 8 05:36:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 30987 of (30987 30990) to complete...
- Waiting for PID 30990 of (30987 30990) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 50.4 mm, total surface area = 108365 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.188 (target=0.015)
step 005: RMS=0.130 (target=0.015)
step 010: RMS=0.100 (target=0.015)
step 015: RMS=0.083 (target=0.015)
step 020: RMS=0.070 (target=0.015)
step 025: RMS=0.058 (target=0.015)
step 030: RMS=0.049 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.037 (target=0.015)
step 045: RMS=0.033 (target=0.015)
step 050: RMS=0.029 (target=0.015)
step 055: RMS=0.027 (target=0.015)
step 060: RMS=0.025 (target=0.015)
- inflation complete.
- inflation took 2.1 minutes
- mris_inflate utimesec 126.664744
- mris_inflate stimesec 0.193970
- mris_inflate ru_maxrss 268744
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 38634
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 14368
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2235
- mris_inflate ru_nivcsw 9788
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 49.6 mm, total surface area = 104273 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.194 (target=0.015)
step 005: RMS=0.136 (target=0.015)
step 010: RMS=0.107 (target=0.015)
step 015: RMS=0.090 (target=0.015)
step 020: RMS=0.075 (target=0.015)
step 025: RMS=0.064 (target=0.015)
step 030: RMS=0.056 (target=0.015)
step 035: RMS=0.048 (target=0.015)
step 040: RMS=0.042 (target=0.015)
step 045: RMS=0.038 (target=0.015)
step 050: RMS=0.035 (target=0.015)
step 055: RMS=0.032 (target=0.015)
step 060: RMS=0.030 (target=0.015)
- inflation complete.
- inflation took 2.2 minutes
- mris_inflate utimesec 136.118306
- mris_inflate stimesec 0.216967
- mris_inflate ru_maxrss 259664
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 37896
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 13824
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2194
- mris_inflate ru_nivcsw 10066
- PIDs (30987 30990) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sun Oct 8 05:38:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 05:38:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 31120 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31123 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31126 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31129 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31132 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31135 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31138 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31141 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31144 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31147 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31150 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- Waiting for PID 31153 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 9.594*4pi (120.565) --> -9 handles
- ICI = 303.8, FI = 2813.7, variation=45515.944
- 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
- 295 vertices thresholded to be in k1 ~ [-0.37 0.24], k2 ~ [-0.17 0.10]
- total integrated curvature = 0.235*4pi (2.952) --> 1 handles
- ICI = 1.7, FI = 13.6, variation=228.444
- 196 vertices thresholded to be in [-0.02 0.02]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 165 vertices thresholded to be in [-0.14 0.12]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.015, std = 0.024
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 16.249*4pi (204.194) --> -15 handles
- ICI = 330.5, FI = 2909.9, variation=47649.717
- 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
- 241 vertices thresholded to be in k1 ~ [-0.40 0.38], k2 ~ [-0.14 0.10]
- total integrated curvature = 0.230*4pi (2.885) --> 1 handles
- ICI = 1.5, FI = 14.1, variation=226.206
- 192 vertices thresholded to be in [-0.02 0.02]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 177 vertices thresholded to be in [-0.18 0.17]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.015, std = 0.025
- done.
- PIDs (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sun Oct 8 05:40:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0050184 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 [ 0050184/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 [ 355 ]
- Gb_filter = 0
- WARN: S lookup min: -0.382513
- WARN: S explicit min: 0.000000 vertex = 252
- #-----------------------------------------
- #@# Curvature Stats rh Sun Oct 8 05:40:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0050184 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 [ 0050184/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 [ 321 ]
- Gb_filter = 0
- WARN: S lookup min: -0.385682
- WARN: S explicit min: 0.000000 vertex = 23
- #--------------------------------------------
- #@# Sphere lh Sun Oct 8 05:40:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sun Oct 8 05:40:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 31334 of (31334 31337) to complete...
- Waiting for PID 31337 of (31334 31337) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0.257...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %20.71
- pass 1: epoch 2 of 3 starting distance error %20.56
- unfolding complete - removing small folds...
- starting distance error %20.48
- removing remaining folds...
- final distance error %20.50
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 445 negative triangles
- 214: dt=0.9900, 445 negative triangles
- 215: dt=0.9900, 198 negative triangles
- 216: dt=0.9900, 142 negative triangles
- 217: dt=0.9900, 132 negative triangles
- 218: dt=0.9900, 119 negative triangles
- 219: dt=0.9900, 110 negative triangles
- 220: dt=0.9900, 110 negative triangles
- 221: dt=0.9900, 94 negative triangles
- 222: dt=0.9900, 93 negative triangles
- 223: dt=0.9900, 97 negative triangles
- 224: dt=0.9900, 79 negative triangles
- 225: dt=0.9900, 94 negative triangles
- 226: dt=0.9900, 95 negative triangles
- 227: dt=0.9900, 96 negative triangles
- 228: dt=0.9900, 98 negative triangles
- 229: dt=0.9900, 78 negative triangles
- 230: dt=0.9900, 101 negative triangles
- 231: dt=0.9900, 95 negative triangles
- 232: dt=0.9900, 105 negative triangles
- 233: dt=0.9900, 94 negative triangles
- 234: dt=0.9900, 105 negative triangles
- 235: dt=0.9900, 92 negative triangles
- 236: dt=0.9900, 97 negative triangles
- 237: dt=0.9900, 108 negative triangles
- 238: dt=0.9900, 102 negative triangles
- 239: dt=0.9405, 104 negative triangles
- 240: dt=0.9405, 97 negative triangles
- 241: dt=0.9405, 100 negative triangles
- 242: dt=0.9405, 100 negative triangles
- 243: dt=0.9405, 102 negative triangles
- 244: dt=0.9405, 90 negative triangles
- 245: dt=0.9405, 98 negative triangles
- 246: dt=0.9405, 95 negative triangles
- 247: dt=0.9405, 88 negative triangles
- 248: dt=0.9405, 90 negative triangles
- 249: dt=0.8935, 91 negative triangles
- 250: dt=0.8935, 89 negative triangles
- 251: dt=0.8935, 92 negative triangles
- 252: dt=0.8935, 89 negative triangles
- 253: dt=0.8935, 84 negative triangles
- 254: dt=0.8935, 83 negative triangles
- 255: dt=0.8935, 79 negative triangles
- 256: dt=0.8935, 79 negative triangles
- 257: dt=0.8935, 77 negative triangles
- 258: dt=0.8935, 76 negative triangles
- 259: dt=0.8935, 76 negative triangles
- 260: dt=0.8935, 81 negative triangles
- 261: dt=0.8935, 79 negative triangles
- 262: dt=0.8935, 77 negative triangles
- 263: dt=0.8935, 81 negative triangles
- 264: dt=0.8935, 70 negative triangles
- 265: dt=0.8935, 73 negative triangles
- 266: dt=0.8935, 73 negative triangles
- 267: dt=0.8935, 71 negative triangles
- 268: dt=0.8935, 72 negative triangles
- 269: dt=0.8935, 74 negative triangles
- 270: dt=0.8935, 76 negative triangles
- 271: dt=0.8935, 69 negative triangles
- 272: dt=0.8935, 70 negative triangles
- 273: dt=0.8935, 69 negative triangles
- 274: dt=0.8935, 70 negative triangles
- 275: dt=0.8935, 69 negative triangles
- 276: dt=0.8935, 72 negative triangles
- 277: dt=0.8935, 68 negative triangles
- 278: dt=0.8935, 71 negative triangles
- 279: dt=0.8935, 72 negative triangles
- 280: dt=0.8935, 68 negative triangles
- 281: dt=0.8935, 73 negative triangles
- 282: dt=0.8935, 68 negative triangles
- 283: dt=0.8935, 61 negative triangles
- 284: dt=0.8935, 58 negative triangles
- 285: dt=0.8935, 67 negative triangles
- 286: dt=0.8935, 63 negative triangles
- 287: dt=0.8935, 59 negative triangles
- 288: dt=0.8935, 62 negative triangles
- 289: dt=0.8935, 60 negative triangles
- 290: dt=0.8935, 64 negative triangles
- 291: dt=0.8935, 59 negative triangles
- 292: dt=0.8935, 63 negative triangles
- 293: dt=0.8935, 67 negative triangles
- 294: dt=0.8488, 60 negative triangles
- 295: dt=0.8488, 54 negative triangles
- 296: dt=0.8488, 53 negative triangles
- 297: dt=0.8488, 55 negative triangles
- 298: dt=0.8488, 56 negative triangles
- 299: dt=0.8488, 53 negative triangles
- 300: dt=0.8488, 51 negative triangles
- 301: dt=0.8488, 53 negative triangles
- 302: dt=0.8488, 51 negative triangles
- 303: dt=0.8488, 53 negative triangles
- 304: dt=0.8488, 51 negative triangles
- 305: dt=0.8488, 49 negative triangles
- 306: dt=0.8488, 51 negative triangles
- 307: dt=0.8488, 50 negative triangles
- 308: dt=0.8488, 49 negative triangles
- 309: dt=0.8488, 51 negative triangles
- 310: dt=0.8488, 53 negative triangles
- 311: dt=0.8488, 45 negative triangles
- 312: dt=0.8488, 46 negative triangles
- 313: dt=0.8488, 43 negative triangles
- 314: dt=0.8488, 45 negative triangles
- 315: dt=0.8488, 42 negative triangles
- 316: dt=0.8488, 42 negative triangles
- 317: dt=0.8488, 41 negative triangles
- 318: dt=0.8488, 38 negative triangles
- 319: dt=0.8488, 40 negative triangles
- 320: dt=0.8488, 38 negative triangles
- 321: dt=0.8488, 37 negative triangles
- 322: dt=0.8488, 38 negative triangles
- 323: dt=0.8488, 31 negative triangles
- 324: dt=0.8488, 32 negative triangles
- 325: dt=0.8488, 34 negative triangles
- 326: dt=0.8488, 34 negative triangles
- 327: dt=0.8488, 31 negative triangles
- 328: dt=0.8488, 34 negative triangles
- 329: dt=0.8488, 32 negative triangles
- 330: dt=0.8488, 31 negative triangles
- 331: dt=0.8488, 31 negative triangles
- 332: dt=0.8488, 29 negative triangles
- 333: dt=0.8488, 32 negative triangles
- 334: dt=0.8488, 33 negative triangles
- 335: dt=0.8488, 32 negative triangles
- 336: dt=0.8488, 27 negative triangles
- 337: dt=0.8488, 28 negative triangles
- 338: dt=0.8488, 26 negative triangles
- 339: dt=0.8488, 30 negative triangles
- 340: dt=0.8488, 25 negative triangles
- 341: dt=0.8488, 26 negative triangles
- 342: dt=0.8488, 27 negative triangles
- 343: dt=0.8488, 29 negative triangles
- 344: dt=0.8488, 29 negative triangles
- 345: dt=0.8488, 29 negative triangles
- 346: dt=0.8488, 27 negative triangles
- 347: dt=0.8488, 24 negative triangles
- 348: dt=0.8488, 25 negative triangles
- 349: dt=0.8488, 26 negative triangles
- 350: dt=0.8488, 26 negative triangles
- 351: dt=0.8488, 25 negative triangles
- 352: dt=0.8488, 30 negative triangles
- 353: dt=0.8488, 26 negative triangles
- 354: dt=0.8488, 24 negative triangles
- 355: dt=0.8488, 25 negative triangles
- 356: dt=0.8488, 20 negative triangles
- 357: dt=0.8488, 23 negative triangles
- 358: dt=0.8488, 18 negative triangles
- 359: dt=0.8488, 20 negative triangles
- 360: dt=0.8488, 18 negative triangles
- 361: dt=0.8488, 20 negative triangles
- 362: dt=0.8488, 19 negative triangles
- 363: dt=0.8488, 22 negative triangles
- 364: dt=0.8488, 21 negative triangles
- 365: dt=0.8488, 16 negative triangles
- 366: dt=0.8488, 16 negative triangles
- 367: dt=0.8488, 13 negative triangles
- 368: dt=0.8488, 15 negative triangles
- 369: dt=0.8488, 14 negative triangles
- 370: dt=0.8488, 17 negative triangles
- 371: dt=0.8488, 18 negative triangles
- 372: dt=0.8488, 14 negative triangles
- 373: dt=0.8488, 14 negative triangles
- 374: dt=0.8488, 10 negative triangles
- 375: dt=0.8488, 12 negative triangles
- 376: dt=0.8488, 7 negative triangles
- 377: dt=0.8488, 10 negative triangles
- 378: dt=0.8488, 7 negative triangles
- 379: dt=0.8488, 8 negative triangles
- 380: dt=0.8488, 8 negative triangles
- 381: dt=0.8488, 6 negative triangles
- 382: dt=0.8488, 3 negative triangles
- 383: dt=0.8488, 4 negative triangles
- 384: dt=0.8488, 2 negative triangles
- 385: dt=0.8488, 1 negative triangles
- 386: dt=0.8488, 2 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 2.16 hours
- mris_sphere utimesec 7790.269698
- mris_sphere stimesec 1.445780
- mris_sphere ru_maxrss 376312
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 65670
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 13112
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 136433
- mris_sphere ru_nivcsw 650897
- FSRUNTIME@ mris_sphere 2.1603 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0.256...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %21.60
- pass 1: epoch 2 of 3 starting distance error %21.56
- unfolding complete - removing small folds...
- starting distance error %21.45
- removing remaining folds...
- final distance error %21.48
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 674 negative triangles
- 218: dt=0.9900, 674 negative triangles
- 219: dt=0.9900, 345 negative triangles
- 220: dt=0.9900, 277 negative triangles
- 221: dt=0.9900, 245 negative triangles
- 222: dt=0.9900, 208 negative triangles
- 223: dt=0.9900, 198 negative triangles
- 224: dt=0.9900, 179 negative triangles
- 225: dt=0.9900, 157 negative triangles
- 226: dt=0.9900, 144 negative triangles
- 227: dt=0.9900, 147 negative triangles
- 228: dt=0.9900, 132 negative triangles
- 229: dt=0.9900, 132 negative triangles
- 230: dt=0.9900, 129 negative triangles
- 231: dt=0.9900, 109 negative triangles
- 232: dt=0.9900, 111 negative triangles
- 233: dt=0.9900, 107 negative triangles
- 234: dt=0.9900, 110 negative triangles
- 235: dt=0.9900, 95 negative triangles
- 236: dt=0.9900, 95 negative triangles
- 237: dt=0.9900, 88 negative triangles
- 238: dt=0.9900, 97 negative triangles
- 239: dt=0.9900, 76 negative triangles
- 240: dt=0.9900, 82 negative triangles
- 241: dt=0.9900, 78 negative triangles
- 242: dt=0.9900, 75 negative triangles
- 243: dt=0.9900, 76 negative triangles
- 244: dt=0.9900, 62 negative triangles
- 245: dt=0.9900, 75 negative triangles
- 246: dt=0.9900, 64 negative triangles
- 247: dt=0.9900, 56 negative triangles
- 248: dt=0.9900, 66 negative triangles
- 249: dt=0.9900, 60 negative triangles
- 250: dt=0.9900, 61 negative triangles
- 251: dt=0.9900, 54 negative triangles
- 252: dt=0.9900, 56 negative triangles
- 253: dt=0.9900, 56 negative triangles
- 254: dt=0.9900, 47 negative triangles
- 255: dt=0.9900, 45 negative triangles
- 256: dt=0.9900, 44 negative triangles
- 257: dt=0.9900, 39 negative triangles
- 258: dt=0.9900, 44 negative triangles
- 259: dt=0.9900, 40 negative triangles
- 260: dt=0.9900, 44 negative triangles
- 261: dt=0.9900, 42 negative triangles
- 262: dt=0.9900, 42 negative triangles
- 263: dt=0.9900, 41 negative triangles
- 264: dt=0.9900, 41 negative triangles
- 265: dt=0.9900, 37 negative triangles
- 266: dt=0.9900, 38 negative triangles
- 267: dt=0.9900, 45 negative triangles
- 268: dt=0.9900, 41 negative triangles
- 269: dt=0.9900, 35 negative triangles
- 270: dt=0.9900, 47 negative triangles
- 271: dt=0.9900, 39 negative triangles
- 272: dt=0.9900, 39 negative triangles
- 273: dt=0.9900, 43 negative triangles
- 274: dt=0.9900, 35 negative triangles
- 275: dt=0.9900, 30 negative triangles
- 276: dt=0.9900, 34 negative triangles
- 277: dt=0.9900, 27 negative triangles
- 278: dt=0.9900, 27 negative triangles
- 279: dt=0.9900, 30 negative triangles
- 280: dt=0.9900, 29 negative triangles
- 281: dt=0.9900, 25 negative triangles
- 282: dt=0.9900, 22 negative triangles
- 283: dt=0.9900, 24 negative triangles
- 284: dt=0.9900, 25 negative triangles
- 285: dt=0.9900, 24 negative triangles
- 286: dt=0.9900, 18 negative triangles
- 287: dt=0.9900, 14 negative triangles
- 288: dt=0.9900, 11 negative triangles
- 289: dt=0.9900, 20 negative triangles
- 290: dt=0.9900, 12 negative triangles
- 291: dt=0.9900, 9 negative triangles
- 292: dt=0.9900, 7 negative triangles
- 293: dt=0.9900, 3 negative triangles
- 294: dt=0.9900, 5 negative triangles
- 295: dt=0.9900, 8 negative triangles
- 296: dt=0.9900, 8 negative triangles
- 297: dt=0.9900, 4 negative triangles
- 298: dt=0.9900, 2 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 2.29 hours
- mris_sphere utimesec 8602.633200
- mris_sphere stimesec 1.229813
- mris_sphere ru_maxrss 362228
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 63680
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 12496
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 140103
- mris_sphere ru_nivcsw 689438
- FSRUNTIME@ mris_sphere 2.2949 hours 1 threads
- PIDs (31334 31337) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 07:58:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 07:58:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 8578 of (8578 8581) to complete...
- Waiting for PID 8581 of (8578 8581) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 5.585
- curvature mean = 0.029, std = 0.818
- curvature mean = 0.022, std = 0.841
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, -16.00, 0.00) sse = 368316.8, tmin=1.4002
- d=32.00 min @ (8.00, 8.00, 0.00) sse = 319782.4, tmin=2.8256
- d=16.00 min @ (-4.00, -4.00, 0.00) sse = 290221.4, tmin=4.2696
- d=8.00 min @ (2.00, 2.00, -2.00) sse = 283143.7, tmin=5.7386
- d=4.00 min @ (-1.00, 0.00, 1.00) sse = 278174.7, tmin=7.2263
- d=1.00 min @ (0.00, -0.25, 0.00) sse = 278003.5, tmin=10.2035
- d=0.50 min @ (0.12, 0.12, 0.00) sse = 277947.5, tmin=11.6873
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 11.69 min
- curvature mean = -0.006, std = 0.821
- curvature mean = 0.009, std = 0.935
- curvature mean = -0.014, std = 0.826
- curvature mean = 0.003, std = 0.972
- curvature mean = -0.017, std = 0.826
- curvature mean = 0.001, std = 0.988
- 2 Reading smoothwm
- curvature mean = -0.031, std = 0.362
- curvature mean = 0.036, std = 0.246
- curvature mean = 0.074, std = 0.246
- curvature mean = 0.031, std = 0.301
- curvature mean = 0.049, std = 0.398
- curvature mean = 0.030, std = 0.328
- curvature mean = 0.030, std = 0.528
- curvature mean = 0.030, std = 0.339
- curvature mean = 0.012, std = 0.646
- MRISregister() return, current seed 0
- -01: dt=0.0000, 173 negative triangles
- 143: dt=0.9900, 173 negative triangles
- expanding nbhd size to 1
- 144: dt=0.9900, 186 negative triangles
- 145: dt=0.9900, 157 negative triangles
- 146: dt=0.9900, 148 negative triangles
- 147: dt=0.9900, 130 negative triangles
- 148: dt=0.9900, 121 negative triangles
- 149: dt=0.9900, 111 negative triangles
- 150: dt=0.9900, 117 negative triangles
- 151: dt=0.9900, 106 negative triangles
- 152: dt=0.9900, 104 negative triangles
- 153: dt=0.9900, 102 negative triangles
- 154: dt=0.9900, 100 negative triangles
- 155: dt=0.9900, 92 negative triangles
- 156: dt=0.9900, 87 negative triangles
- 157: dt=0.9900, 76 negative triangles
- 158: dt=0.9900, 67 negative triangles
- 159: dt=0.9900, 62 negative triangles
- 160: dt=0.9900, 59 negative triangles
- 161: dt=0.9900, 56 negative triangles
- 162: dt=0.9900, 61 negative triangles
- 163: dt=0.9900, 55 negative triangles
- 164: dt=0.9900, 49 negative triangles
- 165: dt=0.9900, 50 negative triangles
- 166: dt=0.9900, 47 negative triangles
- 167: dt=0.9900, 45 negative triangles
- 168: dt=0.9900, 43 negative triangles
- 169: dt=0.9900, 41 negative triangles
- 170: dt=0.9900, 37 negative triangles
- 171: dt=0.9900, 37 negative triangles
- 172: dt=0.9900, 37 negative triangles
- 173: dt=0.9900, 39 negative triangles
- 174: dt=0.9900, 37 negative triangles
- 175: dt=0.9900, 36 negative triangles
- 176: dt=0.9900, 36 negative triangles
- 177: dt=0.9900, 38 negative triangles
- 178: dt=0.9900, 38 negative triangles
- 179: dt=0.9900, 35 negative triangles
- 180: dt=0.9900, 32 negative triangles
- 181: dt=0.9900, 32 negative triangles
- 182: dt=0.9900, 31 negative triangles
- 183: dt=0.9900, 31 negative triangles
- 184: dt=0.9900, 31 negative triangles
- 185: dt=0.9900, 30 negative triangles
- 186: dt=0.9900, 29 negative triangles
- 187: dt=0.9900, 30 negative triangles
- 188: dt=0.9900, 32 negative triangles
- 189: dt=0.9900, 31 negative triangles
- 190: dt=0.9900, 31 negative triangles
- 191: dt=0.9900, 28 negative triangles
- 192: dt=0.9900, 28 negative triangles
- 193: dt=0.9900, 27 negative triangles
- 194: dt=0.9900, 27 negative triangles
- 195: dt=0.9900, 28 negative triangles
- 196: dt=0.9900, 27 negative triangles
- 197: dt=0.9900, 27 negative triangles
- 198: dt=0.9900, 28 negative triangles
- 199: dt=0.9900, 27 negative triangles
- 200: dt=0.9900, 26 negative triangles
- 201: dt=0.9900, 24 negative triangles
- 202: dt=0.9900, 24 negative triangles
- 203: dt=0.9900, 24 negative triangles
- 204: dt=0.9900, 25 negative triangles
- 205: dt=0.9900, 25 negative triangles
- 206: dt=0.9900, 23 negative triangles
- 207: dt=0.9900, 23 negative triangles
- 208: dt=0.9900, 23 negative triangles
- 209: dt=0.9900, 25 negative triangles
- 210: dt=0.9900, 24 negative triangles
- 211: dt=0.9900, 24 negative triangles
- 212: dt=0.9900, 22 negative triangles
- 213: dt=0.9900, 22 negative triangles
- 214: dt=0.9900, 21 negative triangles
- 215: dt=0.9900, 21 negative triangles
- 216: dt=0.9900, 20 negative triangles
- 217: dt=0.9900, 20 negative triangles
- 218: dt=0.9900, 19 negative triangles
- 219: dt=0.9900, 18 negative triangles
- 220: dt=0.9900, 18 negative triangles
- 221: dt=0.9900, 20 negative triangles
- 222: dt=0.9900, 21 negative triangles
- 223: dt=0.9900, 20 negative triangles
- 224: dt=0.9900, 17 negative triangles
- 225: dt=0.9900, 16 negative triangles
- 226: dt=0.9900, 16 negative triangles
- 227: dt=0.9900, 16 negative triangles
- 228: dt=0.9900, 16 negative triangles
- 229: dt=0.9900, 16 negative triangles
- 230: dt=0.9900, 16 negative triangles
- 231: dt=0.9900, 16 negative triangles
- 232: dt=0.9900, 16 negative triangles
- 233: dt=0.9900, 16 negative triangles
- 234: dt=0.9900, 17 negative triangles
- 235: dt=0.9405, 16 negative triangles
- 236: dt=0.9405, 15 negative triangles
- 237: dt=0.9405, 15 negative triangles
- 238: dt=0.9405, 12 negative triangles
- 239: dt=0.9405, 9 negative triangles
- 240: dt=0.9405, 9 negative triangles
- 241: dt=0.9405, 9 negative triangles
- 242: dt=0.9405, 9 negative triangles
- 243: dt=0.9405, 8 negative triangles
- 244: dt=0.9405, 8 negative triangles
- 245: dt=0.9405, 8 negative triangles
- 246: dt=0.9405, 8 negative triangles
- 247: dt=0.9405, 8 negative triangles
- 248: dt=0.9405, 7 negative triangles
- 249: dt=0.9405, 8 negative triangles
- 250: dt=0.9405, 7 negative triangles
- 251: dt=0.9405, 6 negative triangles
- 252: dt=0.9405, 4 negative triangles
- 253: dt=0.9405, 3 negative triangles
- 254: dt=0.9405, 2 negative triangles
- 255: dt=0.9405, 1 negative triangles
- 256: dt=0.9405, 1 negative triangles
- 257: dt=0.9405, 1 negative triangles
- 258: dt=0.9405, 1 negative triangles
- 259: dt=0.9405, 1 negative triangles
- 260: dt=0.9405, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 2.09 hours
- mris_register utimesec 7517.165217
- mris_register stimesec 2.787576
- mris_register ru_maxrss 323272
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 44168
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 12912
- mris_register ru_oublock 13032
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 359158
- mris_register ru_nivcsw 458257
- FSRUNTIME@ mris_register 2.0896 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 5.631
- curvature mean = 0.021, std = 0.808
- curvature mean = 0.018, std = 0.845
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 0.00) sse = 468431.8, tmin=1.3673
- d=32.00 min @ (-8.00, 0.00, 8.00) sse = 359939.8, tmin=2.7616
- d=16.00 min @ (-4.00, -4.00, -4.00) sse = 328283.5, tmin=4.1754
- d=8.00 min @ (2.00, 0.00, 0.00) sse = 321827.3, tmin=5.6408
- d=4.00 min @ (0.00, 0.00, 1.00) sse = 320140.9, tmin=7.1153
- d=2.00 min @ (0.00, 0.50, 0.00) sse = 319816.8, tmin=8.5951
- d=1.00 min @ (-0.25, -0.25, 0.00) sse = 319762.2, tmin=10.0628
- d=0.50 min @ (0.12, 0.00, -0.12) sse = 319737.6, tmin=11.5173
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 11.52 min
- curvature mean = -0.002, std = 0.815
- curvature mean = 0.007, std = 0.937
- curvature mean = -0.008, std = 0.822
- curvature mean = 0.003, std = 0.973
- curvature mean = -0.011, std = 0.821
- curvature mean = 0.001, std = 0.989
- 2 Reading smoothwm
- curvature mean = -0.034, std = 0.462
- curvature mean = 0.032, std = 0.238
- curvature mean = 0.064, std = 0.194
- curvature mean = 0.027, std = 0.293
- curvature mean = 0.046, std = 0.312
- curvature mean = 0.027, std = 0.318
- curvature mean = 0.030, std = 0.419
- curvature mean = 0.026, std = 0.329
- curvature mean = 0.013, std = 0.523
- MRISregister() return, current seed 0
- -01: dt=0.0000, 159 negative triangles
- 145: dt=0.9900, 159 negative triangles
- expanding nbhd size to 1
- 146: dt=0.9900, 192 negative triangles
- 147: dt=0.9900, 163 negative triangles
- 148: dt=0.9900, 150 negative triangles
- 149: dt=0.9900, 146 negative triangles
- 150: dt=0.9900, 143 negative triangles
- 151: dt=0.9900, 140 negative triangles
- 152: dt=0.9900, 131 negative triangles
- 153: dt=0.9900, 133 negative triangles
- 154: dt=0.9900, 112 negative triangles
- 155: dt=0.9900, 117 negative triangles
- 156: dt=0.9900, 102 negative triangles
- 157: dt=0.9900, 95 negative triangles
- 158: dt=0.9900, 85 negative triangles
- 159: dt=0.9900, 74 negative triangles
- 160: dt=0.9900, 60 negative triangles
- 161: dt=0.9900, 63 negative triangles
- 162: dt=0.9900, 58 negative triangles
- 163: dt=0.9900, 61 negative triangles
- 164: dt=0.9900, 56 negative triangles
- 165: dt=0.9900, 55 negative triangles
- 166: dt=0.9900, 53 negative triangles
- 167: dt=0.9900, 45 negative triangles
- 168: dt=0.9900, 42 negative triangles
- 169: dt=0.9900, 41 negative triangles
- 170: dt=0.9900, 35 negative triangles
- 171: dt=0.9900, 37 negative triangles
- 172: dt=0.9900, 32 negative triangles
- 173: dt=0.9900, 36 negative triangles
- 174: dt=0.9900, 31 negative triangles
- 175: dt=0.9900, 31 negative triangles
- 176: dt=0.9900, 28 negative triangles
- 177: dt=0.9900, 26 negative triangles
- 178: dt=0.9900, 28 negative triangles
- 179: dt=0.9900, 27 negative triangles
- 180: dt=0.9900, 25 negative triangles
- 181: dt=0.9900, 25 negative triangles
- 182: dt=0.9900, 26 negative triangles
- 183: dt=0.9900, 25 negative triangles
- 184: dt=0.9900, 24 negative triangles
- 185: dt=0.9900, 19 negative triangles
- 186: dt=0.9900, 18 negative triangles
- 187: dt=0.9900, 17 negative triangles
- 188: dt=0.9900, 15 negative triangles
- 189: dt=0.9900, 14 negative triangles
- 190: dt=0.9900, 15 negative triangles
- 191: dt=0.9900, 12 negative triangles
- 192: dt=0.9900, 12 negative triangles
- 193: dt=0.9900, 12 negative triangles
- 194: dt=0.9900, 11 negative triangles
- 195: dt=0.9900, 9 negative triangles
- 196: dt=0.9900, 10 negative triangles
- 197: dt=0.9900, 7 negative triangles
- 198: dt=0.9900, 3 negative triangles
- 199: dt=0.9900, 4 negative triangles
- 200: dt=0.9900, 2 negative triangles
- 201: dt=0.9900, 4 negative triangles
- 202: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 2.32 hours
- mris_register utimesec 8876.796521
- mris_register stimesec 2.799574
- mris_register ru_maxrss 316824
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 44056
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 12424
- mris_register ru_oublock 12528
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 414492
- mris_register ru_nivcsw 449973
- FSRUNTIME@ mris_register 2.3230 hours 1 threads
- PIDs (8578 8581) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 10:18:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 10:18:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 16431 of (16431 16434) to complete...
- Waiting for PID 16434 of (16431 16434) 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 (16431 16434) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 10:18:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 10:18:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 16475 of (16475 16478) to complete...
- Waiting for PID 16478 of (16475 16478) 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 (16475 16478) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 10:18:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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 10:18:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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 16521 of (16521 16524) to complete...
- Waiting for PID 16524 of (16521 16524) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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...
- 1678 labels changed using aseg
- relabeling using gibbs priors...
- 000: 4037 changed, 183509 examined...
- 001: 993 changed, 16858 examined...
- 002: 251 changed, 5357 examined...
- 003: 87 changed, 1454 examined...
- 004: 33 changed, 490 examined...
- 005: 8 changed, 193 examined...
- 006: 4 changed, 50 examined...
- 007: 4 changed, 26 examined...
- 008: 3 changed, 21 examined...
- 009: 3 changed, 20 examined...
- 010: 1 changed, 13 examined...
- 011: 1 changed, 9 examined...
- 012: 0 changed, 5 examined...
- 330 labels changed using aseg
- 000: 161 total segments, 117 labels (618 vertices) changed
- 001: 44 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2311 vertices marked for relabeling...
- 2311 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 21 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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...
- 1342 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3419 changed, 176561 examined...
- 001: 866 changed, 14613 examined...
- 002: 224 changed, 4763 examined...
- 003: 78 changed, 1355 examined...
- 004: 26 changed, 466 examined...
- 005: 16 changed, 161 examined...
- 006: 7 changed, 96 examined...
- 007: 6 changed, 52 examined...
- 008: 3 changed, 41 examined...
- 009: 1 changed, 17 examined...
- 010: 2 changed, 5 examined...
- 011: 3 changed, 13 examined...
- 012: 2 changed, 12 examined...
- 013: 3 changed, 13 examined...
- 014: 1 changed, 11 examined...
- 015: 0 changed, 8 examined...
- 180 labels changed using aseg
- 000: 136 total segments, 99 labels (502 vertices) changed
- 001: 40 total segments, 3 labels (6 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2112 vertices marked for relabeling...
- 2112 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 20 seconds.
- PIDs (16521 16524) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 10:18:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 10:18:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 rh
- Waiting for PID 16586 of (16586 16589) to complete...
- Waiting for PID 16589 of (16586 16589) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 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-6.0.0/0050184/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- 36246 bright wm thresholded.
- 330 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig...
- computing class statistics...
- border white: 349830 voxels (2.09%)
- border gray 408403 voxels (2.43%)
- WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0]
- GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 52.1 (was 70)
- setting MAX_BORDER_WHITE to 109.5 (was 105)
- setting MIN_BORDER_WHITE to 63.0 (was 85)
- setting MAX_CSF to 41.2 (was 40)
- setting MAX_GRAY to 90.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 52.1 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 30.3 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=100+-8.7, GM=63+-7.8
- mean inside = 90.3, 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 0.89 +- 0.26 (0.02-->7.30) (max @ vno 25792 --> 180570)
- face area 0.33 +- 0.17 (0.00-->10.82)
- mean absolute distance = 0.58 +- 0.77
- 4812 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 79 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 5 points - only 0.00% unknown
- deleting segment 5 with 332 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 4 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 2 points - only 0.00% unknown
- deleting segment 8 with 13 points - only 0.00% unknown
- deleting segment 9 with 5 points - only 0.00% unknown
- deleting segment 10 with 9 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 11 with 1 points - only 0.00% unknown
- deleting segment 12 with 6 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 13 with 1 points - only 0.00% unknown
- deleting segment 14 with 13 points - only 0.00% unknown
- deleting segment 15 with 38 points - only 0.00% unknown
- deleting segment 16 with 47 points - only 0.00% unknown
- deleting segment 17 with 19 points - only 0.00% unknown
- mean border=75.1, 185 (185) missing vertices, mean dist 0.4 [0.8 (%12.8)->0.6 (%87.2))]
- %70 local maxima, %26 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.27 (0.07-->7.09) (max @ vno 25792 --> 180570)
- face area 0.33 +- 0.17 (0.00-->10.24)
- mean absolute distance = 0.35 +- 0.54
- 4652 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=3277457.2, rms=8.210
- 001: dt: 0.5000, sse=1752693.2, rms=4.930 (39.950%)
- 002: dt: 0.5000, sse=1457970.8, rms=4.065 (17.543%)
- rms = 4.07, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=1238656.9, rms=3.195 (21.401%)
- 004: dt: 0.2500, sse=1148451.4, rms=2.757 (13.707%)
- 005: dt: 0.2500, sse=1108743.4, rms=2.536 (8.035%)
- 006: dt: 0.2500, sse=1094112.6, rms=2.449 (3.429%)
- 007: dt: 0.2500, sse=1086918.1, rms=2.381 (2.769%)
- rms = 2.34, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=1077636.9, rms=2.339 (1.740%)
- 009: dt: 0.1250, sse=1064326.0, rms=2.258 (3.502%)
- rms = 2.24, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=1062095.5, rms=2.242 (0.676%)
- positioning took 1.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 85 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 1 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 4 with 249 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 5 with 2 points - only 0.00% unknown
- deleting segment 6 with 8 points - only 0.00% unknown
- deleting segment 7 with 28 points - only 42.86% 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
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- deleting segment 11 with 32 points - only 0.00% unknown
- deleting segment 12 with 41 points - only 0.00% unknown
- deleting segment 13 with 16 points - only 0.00% unknown
- mean border=79.1, 161 (47) missing vertices, mean dist -0.2 [0.4 (%76.2)->0.3 (%23.8))]
- %83 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.27 (0.04-->7.04) (max @ vno 25792 --> 180570)
- face area 0.35 +- 0.18 (0.00-->11.41)
- mean absolute distance = 0.24 +- 0.37
- 4065 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1865344.1, rms=5.149
- 011: dt: 0.5000, sse=1374545.9, rms=3.507 (31.898%)
- rms = 3.79, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=1172296.1, rms=2.607 (25.656%)
- 013: dt: 0.2500, sse=1103252.5, rms=2.110 (19.059%)
- 014: dt: 0.2500, sse=1063528.6, rms=1.900 (9.955%)
- rms = 1.86, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=1055818.6, rms=1.857 (2.298%)
- 016: dt: 0.1250, sse=1046119.8, rms=1.748 (5.825%)
- rms = 1.74, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=1042403.4, rms=1.741 (0.436%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 86 points - only 0.00% unknown
- deleting segment 1 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 263 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 4 with 2 points - only 0.00% unknown
- deleting segment 5 with 9 points - only 0.00% unknown
- deleting segment 6 with 28 points - only 42.86% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 24 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 9 with 4 points - only 0.00% unknown
- deleting segment 10 with 32 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- deleting segment 12 with 42 points - only 0.00% unknown
- deleting segment 13 with 17 points - only 0.00% unknown
- mean border=81.1, 199 (29) missing vertices, mean dist -0.1 [0.3 (%65.6)->0.2 (%34.4))]
- %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.89 +- 0.27 (0.08-->7.02) (max @ vno 25792 --> 180570)
- face area 0.34 +- 0.18 (0.00-->11.37)
- mean absolute distance = 0.22 +- 0.32
- 3551 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1234805.2, rms=3.051
- rms = 3.29, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=1082518.9, rms=2.243 (26.494%)
- 019: dt: 0.2500, sse=1026138.4, rms=1.772 (21.000%)
- 020: dt: 0.2500, sse=1014089.7, rms=1.707 (3.648%)
- rms = 1.69, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=1023752.2, rms=1.693 (0.833%)
- 022: dt: 0.1250, sse=994267.9, rms=1.591 (6.003%)
- rms = 1.59, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=993950.4, rms=1.591 (0.047%)
- positioning took 1.0 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 89 points - only 0.00% unknown
- deleting segment 1 with 5 points - only 0.00% unknown
- deleting segment 2 with 263 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 3 with 2 points - only 0.00% unknown
- deleting segment 4 with 9 points - only 0.00% unknown
- deleting segment 5 with 28 points - only 42.86% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 2 points - only 0.00% unknown
- deleting segment 7 with 24 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 8 with 4 points - only 0.00% unknown
- deleting segment 9 with 14 points - only 0.00% unknown
- deleting segment 10 with 36 points - only 0.00% unknown
- deleting segment 11 with 41 points - only 0.00% unknown
- deleting segment 12 with 17 points - only 0.00% unknown
- mean border=81.8, 239 (21) missing vertices, mean dist -0.0 [0.2 (%53.6)->0.2 (%46.4))]
- %90 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=1015217.2, rms=1.821
- rms = 2.13, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=965899.8, rms=1.387 (23.818%)
- 025: dt: 0.2500, sse=958940.8, rms=1.217 (12.296%)
- rms = 1.22, time step reduction 2 of 3 to 0.125...
- rms = 1.21, time step reduction 3 of 3 to 0.062...
- 026: dt: 0.1250, sse=949324.4, rms=1.211 (0.462%)
- positioning took 0.6 minutes
- generating cortex label...
- 10 non-cortical segments detected
- only using segment with 7963 vertices
- erasing segment 0 (vno[0] = 49850)
- erasing segment 2 (vno[0] = 115349)
- erasing segment 3 (vno[0] = 124284)
- erasing segment 4 (vno[0] = 126561)
- erasing segment 5 (vno[0] = 127686)
- erasing segment 6 (vno[0] = 131568)
- erasing segment 7 (vno[0] = 137625)
- erasing segment 8 (vno[0] = 138788)
- erasing segment 9 (vno[0] = 142878)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.area
- vertex spacing 0.89 +- 0.27 (0.02-->7.02) (max @ vno 25792 --> 180570)
- face area 0.33 +- 0.18 (0.00-->11.08)
- 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 80 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=50.2, 194 (194) missing vertices, mean dist 1.7 [1.0 (%0.0)->3.0 (%100.0))]
- %13 local maxima, %42 large gradients and %41 min vals, 345 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=37523964.0, rms=32.164
- 001: dt: 0.0500, sse=32750904.0, rms=29.996 (6.742%)
- 002: dt: 0.0500, sse=29352106.0, rms=28.351 (5.485%)
- 003: dt: 0.0500, sse=26778886.0, rms=27.038 (4.629%)
- 004: dt: 0.0500, sse=24732406.0, rms=25.947 (4.036%)
- 005: dt: 0.0500, sse=23043042.0, rms=25.010 (3.610%)
- 006: dt: 0.0500, sse=21610630.0, rms=24.188 (3.289%)
- 007: dt: 0.0500, sse=20369108.0, rms=23.451 (3.045%)
- 008: dt: 0.0500, sse=19277732.0, rms=22.784 (2.845%)
- 009: dt: 0.0500, sse=18306400.0, rms=22.173 (2.680%)
- 010: dt: 0.0500, sse=17434068.0, rms=21.610 (2.540%)
- positioning took 1.4 minutes
- mean border=50.1, 153 (80) missing vertices, mean dist 1.5 [0.2 (%0.0)->2.5 (%100.0))]
- %14 local maxima, %43 large gradients and %40 min vals, 287 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=18356804.0, rms=22.210
- 011: dt: 0.0500, sse=17562144.0, rms=21.699 (2.302%)
- 012: dt: 0.0500, sse=16839564.0, rms=21.223 (2.192%)
- 013: dt: 0.0500, sse=16179745.0, rms=20.779 (2.092%)
- 014: dt: 0.0500, sse=15574832.0, rms=20.364 (2.000%)
- 015: dt: 0.0500, sse=15019690.0, rms=19.974 (1.911%)
- 016: dt: 0.0500, sse=14509670.0, rms=19.610 (1.824%)
- 017: dt: 0.0500, sse=14040043.0, rms=19.269 (1.742%)
- 018: dt: 0.0500, sse=13606610.0, rms=18.948 (1.665%)
- 019: dt: 0.0500, sse=13205855.0, rms=18.646 (1.592%)
- 020: dt: 0.0500, sse=12834933.0, rms=18.362 (1.521%)
- positioning took 1.4 minutes
- mean border=50.0, 164 (58) missing vertices, mean dist 1.3 [0.1 (%0.8)->2.2 (%99.2))]
- %14 local maxima, %43 large gradients and %40 min vals, 318 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=12969981.0, rms=18.474
- 021: dt: 0.0500, sse=12620668.0, rms=18.204 (1.459%)
- 022: dt: 0.0500, sse=12295680.0, rms=17.950 (1.398%)
- 023: dt: 0.0500, sse=11990694.0, rms=17.708 (1.350%)
- 024: dt: 0.0500, sse=11705478.0, rms=17.478 (1.297%)
- 025: dt: 0.0500, sse=11437735.0, rms=17.260 (1.250%)
- 026: dt: 0.0500, sse=11184870.0, rms=17.051 (1.211%)
- 027: dt: 0.0500, sse=10944684.0, rms=16.850 (1.179%)
- 028: dt: 0.0500, sse=10714367.0, rms=16.655 (1.157%)
- 029: dt: 0.0500, sse=10492507.0, rms=16.465 (1.142%)
- 030: dt: 0.0500, sse=10278372.0, rms=16.279 (1.128%)
- positioning took 1.4 minutes
- mean border=49.9, 208 (50) missing vertices, mean dist 1.1 [0.1 (%5.0)->2.0 (%95.0))]
- %15 local maxima, %43 large gradients and %39 min vals, 273 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=10379889.0, rms=16.369
- 031: dt: 0.5000, sse=8815548.0, rms=14.952 (8.654%)
- 032: dt: 0.5000, sse=7635135.5, rms=13.781 (7.830%)
- 033: dt: 0.5000, sse=6666168.0, rms=12.741 (7.551%)
- 034: dt: 0.5000, sse=5846171.0, rms=11.784 (7.506%)
- 035: dt: 0.5000, sse=5156048.0, rms=10.915 (7.374%)
- 036: dt: 0.5000, sse=4549852.0, rms=10.089 (7.567%)
- 037: dt: 0.5000, sse=4014957.5, rms=9.303 (7.798%)
- 038: dt: 0.5000, sse=3540822.0, rms=8.545 (8.146%)
- 039: dt: 0.5000, sse=3159368.8, rms=7.884 (7.736%)
- 040: dt: 0.5000, sse=2862780.5, rms=7.328 (7.052%)
- 041: dt: 0.5000, sse=2651805.8, rms=6.906 (5.763%)
- 042: dt: 0.5000, sse=2502363.8, rms=6.589 (4.589%)
- 043: dt: 0.5000, sse=2405315.0, rms=6.375 (3.238%)
- 044: dt: 0.5000, sse=2335222.8, rms=6.215 (2.518%)
- 045: dt: 0.5000, sse=2292568.0, rms=6.116 (1.590%)
- 046: dt: 0.5000, sse=2253611.5, rms=6.022 (1.539%)
- 047: dt: 0.5000, sse=2230905.2, rms=5.968 (0.889%)
- rms = 5.92, time step reduction 1 of 3 to 0.250...
- 048: dt: 0.5000, sse=2211638.5, rms=5.920 (0.812%)
- 049: dt: 0.2500, sse=2007869.1, rms=5.363 (9.401%)
- 050: dt: 0.2500, sse=1940237.4, rms=5.182 (3.376%)
- rms = 5.19, time step reduction 2 of 3 to 0.125...
- 051: dt: 0.1250, sse=1915897.9, rms=5.111 (1.370%)
- 052: dt: 0.1250, sse=1883743.8, rms=5.015 (1.889%)
- rms = 5.00, time step reduction 3 of 3 to 0.062...
- 053: dt: 0.1250, sse=1879654.5, rms=5.001 (0.271%)
- positioning took 4.4 minutes
- mean border=48.8, 3157 (19) missing vertices, mean dist 0.1 [0.2 (%47.0)->0.6 (%53.0))]
- %28 local maxima, %31 large gradients and %35 min vals, 152 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=2254072.2, rms=5.218
- rms = 5.39, time step reduction 1 of 3 to 0.250...
- 054: dt: 0.2500, sse=2096254.8, rms=4.752 (8.934%)
- 055: dt: 0.2500, sse=2019991.0, rms=4.506 (5.176%)
- 056: dt: 0.2500, sse=1997980.5, rms=4.447 (1.321%)
- rms = 4.40, time step reduction 2 of 3 to 0.125...
- 057: dt: 0.2500, sse=1981395.6, rms=4.399 (1.073%)
- 058: dt: 0.1250, sse=1907172.2, rms=4.139 (5.902%)
- 059: dt: 0.1250, sse=1888726.6, rms=4.078 (1.488%)
- rms = 4.06, time step reduction 3 of 3 to 0.062...
- 060: dt: 0.1250, sse=1883355.6, rms=4.061 (0.423%)
- positioning took 1.7 minutes
- mean border=48.2, 3489 (19) missing vertices, mean dist 0.1 [0.1 (%48.7)->0.4 (%51.3))]
- %40 local maxima, %20 large gradients and %35 min vals, 158 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=1948085.1, rms=4.282
- rms = 4.95, time step reduction 1 of 3 to 0.250...
- 061: dt: 0.2500, sse=1897676.6, rms=4.107 (4.073%)
- rms = 4.10, time step reduction 2 of 3 to 0.125...
- 062: dt: 0.2500, sse=1892594.5, rms=4.100 (0.163%)
- 063: dt: 0.1250, sse=1867299.1, rms=4.007 (2.275%)
- rms = 3.98, time step reduction 3 of 3 to 0.062...
- 064: dt: 0.1250, sse=1857372.5, rms=3.976 (0.780%)
- positioning took 1.1 minutes
- mean border=47.6, 6888 (17) missing vertices, mean dist 0.1 [0.1 (%49.1)->0.3 (%50.9))]
- %42 local maxima, %17 large gradients and %34 min vals, 186 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-6.0.0/0050184/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1891630.9, rms=4.082
- rms = 4.57, time step reduction 1 of 3 to 0.250...
- 065: dt: 0.2500, sse=1862445.8, rms=3.979 (2.526%)
- rms = 3.93, time step reduction 2 of 3 to 0.125...
- 066: dt: 0.2500, sse=1842974.5, rms=3.932 (1.168%)
- 067: dt: 0.1250, sse=1819643.8, rms=3.842 (2.287%)
- rms = 3.80, time step reduction 3 of 3 to 0.062...
- 068: dt: 0.1250, sse=1806828.0, rms=3.801 (1.084%)
- positioning took 1.1 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.area.pial
- vertex spacing 1.03 +- 0.48 (0.02-->6.88) (max @ vno 25792 --> 180570)
- face area 0.41 +- 0.36 (0.00-->8.95)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 183509 vertices processed
- 25000 of 183509 vertices processed
- 50000 of 183509 vertices processed
- 75000 of 183509 vertices processed
- 100000 of 183509 vertices processed
- 125000 of 183509 vertices processed
- 150000 of 183509 vertices processed
- 175000 of 183509 vertices processed
- 0 of 183509 vertices processed
- 25000 of 183509 vertices processed
- 50000 of 183509 vertices processed
- 75000 of 183509 vertices processed
- 100000 of 183509 vertices processed
- 125000 of 183509 vertices processed
- 150000 of 183509 vertices processed
- 175000 of 183509 vertices processed
- thickness calculation complete, 737:1769 truncations.
- 32156 vertices at 0 distance
- 112536 vertices at 1 distance
- 120083 vertices at 2 distance
- 59485 vertices at 3 distance
- 20287 vertices at 4 distance
- 6230 vertices at 5 distance
- 2064 vertices at 6 distance
- 780 vertices at 7 distance
- 312 vertices at 8 distance
- 142 vertices at 9 distance
- 92 vertices at 10 distance
- 73 vertices at 11 distance
- 51 vertices at 12 distance
- 33 vertices at 13 distance
- 42 vertices at 14 distance
- 36 vertices at 15 distance
- 38 vertices at 16 distance
- 30 vertices at 17 distance
- 23 vertices at 18 distance
- 25 vertices at 19 distance
- 24 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.thickness
- positioning took 21.7 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 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-6.0.0/0050184/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- 36246 bright wm thresholded.
- 330 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.orig...
- computing class statistics...
- border white: 349830 voxels (2.09%)
- border gray 408403 voxels (2.43%)
- WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0]
- GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 51.1 (was 70)
- setting MAX_BORDER_WHITE to 108.5 (was 105)
- setting MIN_BORDER_WHITE to 62.0 (was 85)
- setting MAX_CSF to 40.2 (was 40)
- setting MAX_GRAY to 89.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 51.1 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 29.3 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-11.3, GM=62+-8.7
- mean inside = 89.2, mean outside = 68.9
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.89 +- 0.28 (0.02-->6.36) (max @ vno 36471 --> 56935)
- face area 0.33 +- 0.18 (0.00-->9.78)
- mean absolute distance = 0.61 +- 0.85
- 4070 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 24 points - only 0.00% unknown
- deleting segment 1 with 91 points - only 0.00% unknown
- deleting segment 2 with 6 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- deleting segment 6 with 851 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 6 points - only 0.00% unknown
- mean border=74.5, 334 (333) missing vertices, mean dist 0.3 [0.9 (%15.0)->0.6 (%85.0))]
- %67 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 0.91 +- 0.29 (0.04-->6.06) (max @ vno 36471 --> 56935)
- face area 0.33 +- 0.18 (0.00-->8.83)
- mean absolute distance = 0.37 +- 0.60
- 4552 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2956386.5, rms=7.803
- 001: dt: 0.5000, sse=1678541.6, rms=4.876 (37.507%)
- 002: dt: 0.5000, sse=1445057.4, rms=4.159 (14.714%)
- rms = 4.17, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=1231101.2, rms=3.308 (20.463%)
- 004: dt: 0.2500, sse=1169655.4, rms=2.912 (11.976%)
- 005: dt: 0.2500, sse=1125942.5, rms=2.712 (6.871%)
- 006: dt: 0.2500, sse=1120952.5, rms=2.636 (2.777%)
- 007: dt: 0.2500, sse=1103432.9, rms=2.579 (2.176%)
- rms = 2.54, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=1088773.6, rms=2.543 (1.383%)
- 009: dt: 0.1250, sse=1081356.0, rms=2.453 (3.560%)
- rms = 2.44, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=1077140.4, rms=2.437 (0.649%)
- positioning took 1.5 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 23 points - only 0.00% unknown
- deleting segment 1 with 84 points - only 0.00% unknown
- deleting segment 2 with 11 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- deleting segment 4 with 3 points - only 0.00% unknown
- deleting segment 5 with 201 points - only 0.00% unknown
- deleting segment 6 with 5 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 2 points - only 0.00% unknown
- deleting segment 8 with 5 points - only 0.00% unknown
- deleting segment 9 with 27 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 10 with 4 points - only 0.00% unknown
- deleting segment 11 with 6 points - only 0.00% unknown
- deleting segment 12 with 5 points - only 0.00% unknown
- mean border=78.1, 315 (97) missing vertices, mean dist -0.2 [0.4 (%71.5)->0.3 (%28.5))]
- %79 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.29 (0.06-->6.01) (max @ vno 36471 --> 56935)
- face area 0.35 +- 0.19 (0.00-->9.39)
- mean absolute distance = 0.27 +- 0.42
- 4837 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1670372.6, rms=4.729
- 011: dt: 0.5000, sse=1319476.6, rms=3.484 (26.330%)
- rms = 3.80, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=1134146.4, rms=2.610 (25.070%)
- 013: dt: 0.2500, sse=1078487.4, rms=2.203 (15.622%)
- 014: dt: 0.2500, sse=1049395.9, rms=2.064 (6.294%)
- rms = 2.04, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=1060412.9, rms=2.044 (0.979%)
- 016: dt: 0.1250, sse=1034343.6, rms=1.937 (5.246%)
- rms = 1.93, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=1039814.4, rms=1.930 (0.332%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 23 points - only 0.00% unknown
- deleting segment 1 with 84 points - only 0.00% unknown
- deleting segment 2 with 15 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- deleting segment 4 with 3 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 5 with 2 points - only 0.00% unknown
- deleting segment 6 with 251 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 7 with 1 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 8 with 4 points - only 0.00% unknown
- deleting segment 9 with 5 points - only 0.00% unknown
- deleting segment 10 with 24 points - only 0.00% unknown
- deleting segment 11 with 16 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 12 with 1 points - only 0.00% unknown
- deleting segment 13 with 5 points - only 0.00% unknown
- mean border=80.1, 385 (70) missing vertices, mean dist -0.1 [0.3 (%63.6)->0.2 (%36.4))]
- %85 local maxima, %11 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.89 +- 0.28 (0.06-->6.02) (max @ vno 36471 --> 56935)
- face area 0.34 +- 0.19 (0.00-->9.26)
- mean absolute distance = 0.25 +- 0.36
- 3953 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1227175.6, rms=3.141
- rms = 3.35, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=1080331.8, rms=2.407 (23.390%)
- 019: dt: 0.2500, sse=1013980.6, rms=1.954 (18.795%)
- 020: dt: 0.2500, sse=1010983.6, rms=1.894 (3.087%)
- rms = 1.87, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=1001831.4, rms=1.870 (1.242%)
- 022: dt: 0.1250, sse=993117.6, rms=1.761 (5.873%)
- rms = 1.76, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=985587.2, rms=1.756 (0.247%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 24 points - only 0.00% unknown
- deleting segment 1 with 84 points - only 0.00% unknown
- deleting segment 2 with 19 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 3 points - only 0.00% unknown
- deleting segment 4 with 291 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 5 with 4 points - only 0.00% unknown
- deleting segment 6 with 5 points - only 0.00% unknown
- deleting segment 7 with 27 points - only 0.00% unknown
- deleting segment 8 with 26 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
- mean border=80.8, 493 (60) missing vertices, mean dist -0.0 [0.3 (%53.2)->0.2 (%46.8))]
- %87 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=1008865.1, rms=1.984
- rms = 2.27, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=955329.9, rms=1.532 (22.783%)
- 025: dt: 0.2500, sse=951188.0, rms=1.332 (13.099%)
- rms = 1.33, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=971612.4, rms=1.328 (0.255%)
- rms = 1.30, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=928651.9, rms=1.302 (1.979%)
- positioning took 0.7 minutes
- generating cortex label...
- 16 non-cortical segments detected
- only using segment with 7657 vertices
- erasing segment 0 (vno[0] = 60028)
- erasing segment 2 (vno[0] = 75008)
- erasing segment 3 (vno[0] = 81824)
- erasing segment 4 (vno[0] = 114157)
- erasing segment 5 (vno[0] = 120465)
- erasing segment 6 (vno[0] = 123792)
- erasing segment 7 (vno[0] = 124853)
- erasing segment 8 (vno[0] = 124937)
- erasing segment 9 (vno[0] = 124948)
- erasing segment 10 (vno[0] = 126092)
- erasing segment 11 (vno[0] = 129404)
- erasing segment 12 (vno[0] = 130339)
- erasing segment 13 (vno[0] = 131308)
- erasing segment 14 (vno[0] = 134799)
- erasing segment 15 (vno[0] = 136515)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.area
- vertex spacing 0.89 +- 0.28 (0.02-->6.09) (max @ vno 36471 --> 56935)
- face area 0.34 +- 0.18 (0.00-->9.28)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 0 with 4 points - only 0.00% unknown
- deleting segment 1 with 16 points - only 0.00% unknown
- deleting segment 3 with 11 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=49.7, 332 (332) missing vertices, mean dist 1.7 [2.4 (%0.0)->3.0 (%100.0))]
- %12 local maxima, %43 large gradients and %41 min vals, 412 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=35259072.0, rms=31.781
- 001: dt: 0.0500, sse=30849556.0, rms=29.674 (6.631%)
- 002: dt: 0.0500, sse=27678854.0, rms=28.060 (5.437%)
- 003: dt: 0.0500, sse=25262388.0, rms=26.765 (4.615%)
- 004: dt: 0.0500, sse=23330044.0, rms=25.683 (4.045%)
- 005: dt: 0.0500, sse=21730312.0, rms=24.751 (3.630%)
- 006: dt: 0.0500, sse=20371042.0, rms=23.930 (3.316%)
- 007: dt: 0.0500, sse=19189644.0, rms=23.193 (3.079%)
- 008: dt: 0.0500, sse=18149256.0, rms=22.524 (2.884%)
- 009: dt: 0.0500, sse=17221696.0, rms=21.910 (2.725%)
- 010: dt: 0.0500, sse=16388212.0, rms=21.344 (2.586%)
- positioning took 1.3 minutes
- mean border=49.5, 280 (173) missing vertices, mean dist 1.4 [0.2 (%0.1)->2.5 (%99.9))]
- %13 local maxima, %43 large gradients and %40 min vals, 432 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=17314748.0, rms=21.978
- 011: dt: 0.0500, sse=16553182.0, rms=21.463 (2.343%)
- 012: dt: 0.0500, sse=15860190.0, rms=20.983 (2.235%)
- 013: dt: 0.0500, sse=15227786.0, rms=20.536 (2.133%)
- 014: dt: 0.0500, sse=14648925.0, rms=20.117 (2.038%)
- 015: dt: 0.0500, sse=14118204.0, rms=19.726 (1.946%)
- 016: dt: 0.0500, sse=13630256.0, rms=19.358 (1.861%)
- 017: dt: 0.0500, sse=13181345.0, rms=19.014 (1.777%)
- 018: dt: 0.0500, sse=12767335.0, rms=18.691 (1.698%)
- 019: dt: 0.0500, sse=12384426.0, rms=18.388 (1.625%)
- 020: dt: 0.0500, sse=12029436.0, rms=18.101 (1.557%)
- positioning took 1.3 minutes
- mean border=49.4, 296 (120) missing vertices, mean dist 1.3 [0.1 (%1.5)->2.2 (%98.5))]
- %13 local maxima, %43 large gradients and %40 min vals, 397 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=12146508.0, rms=18.204
- 021: dt: 0.0500, sse=11810697.0, rms=17.930 (1.502%)
- 022: dt: 0.0500, sse=11498233.0, rms=17.672 (1.441%)
- 023: dt: 0.0500, sse=11205426.0, rms=17.426 (1.390%)
- 024: dt: 0.0500, sse=10931897.0, rms=17.194 (1.335%)
- 025: dt: 0.0500, sse=10675125.0, rms=16.972 (1.287%)
- 026: dt: 0.0500, sse=10432571.0, rms=16.760 (1.248%)
- 027: dt: 0.0500, sse=10201776.0, rms=16.556 (1.218%)
- 028: dt: 0.0500, sse=9980169.0, rms=16.358 (1.199%)
- 029: dt: 0.0500, sse=9767576.0, rms=16.165 (1.179%)
- 030: dt: 0.0500, sse=9562601.0, rms=15.977 (1.164%)
- positioning took 1.3 minutes
- mean border=49.4, 366 (102) missing vertices, mean dist 1.1 [0.1 (%7.0)->2.0 (%93.0))]
- %14 local maxima, %43 large gradients and %39 min vals, 355 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=9668821.0, rms=16.075
- 031: dt: 0.5000, sse=8154796.0, rms=14.624 (9.029%)
- 032: dt: 0.5000, sse=7055631.0, rms=13.465 (7.923%)
- 033: dt: 0.5000, sse=6164668.0, rms=12.448 (7.553%)
- 034: dt: 0.5000, sse=5429533.5, rms=11.536 (7.328%)
- 035: dt: 0.5000, sse=4824626.0, rms=10.729 (6.993%)
- 036: dt: 0.5000, sse=4300407.0, rms=9.975 (7.028%)
- 037: dt: 0.5000, sse=3849700.0, rms=9.282 (6.952%)
- 038: dt: 0.5000, sse=3469699.0, rms=8.652 (6.786%)
- 039: dt: 0.5000, sse=3155332.5, rms=8.095 (6.432%)
- 040: dt: 0.5000, sse=2901731.2, rms=7.616 (5.928%)
- 041: dt: 0.5000, sse=2721480.2, rms=7.257 (4.714%)
- 042: dt: 0.5000, sse=2591570.0, rms=6.985 (3.738%)
- 043: dt: 0.5000, sse=2512007.5, rms=6.813 (2.466%)
- 044: dt: 0.5000, sse=2437071.0, rms=6.646 (2.448%)
- 045: dt: 0.5000, sse=2394655.8, rms=6.550 (1.452%)
- 046: dt: 0.5000, sse=2347354.5, rms=6.441 (1.657%)
- rms = 6.40, time step reduction 1 of 3 to 0.250...
- 047: dt: 0.5000, sse=2329838.2, rms=6.399 (0.650%)
- 048: dt: 0.2500, sse=2152143.5, rms=5.937 (7.232%)
- 049: dt: 0.2500, sse=2092282.5, rms=5.786 (2.533%)
- rms = 5.78, time step reduction 2 of 3 to 0.125...
- 050: dt: 0.2500, sse=2093112.4, rms=5.784 (0.040%)
- 051: dt: 0.1250, sse=2042206.9, rms=5.646 (2.385%)
- rms = 5.62, time step reduction 3 of 3 to 0.062...
- 052: dt: 0.1250, sse=2032710.9, rms=5.621 (0.448%)
- positioning took 3.9 minutes
- mean border=48.3, 3517 (38) missing vertices, mean dist 0.2 [0.2 (%45.7)->0.7 (%54.3))]
- %26 local maxima, %32 large gradients and %36 min vals, 209 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=2386672.5, rms=5.757
- rms = 5.75, time step reduction 1 of 3 to 0.250...
- 053: dt: 0.5000, sse=2374491.0, rms=5.747 (0.169%)
- 054: dt: 0.2500, sse=2129681.8, rms=5.047 (12.177%)
- 055: dt: 0.2500, sse=2069985.9, rms=4.873 (3.445%)
- rms = 4.86, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=2064205.2, rms=4.856 (0.347%)
- 057: dt: 0.1250, sse=1991294.2, rms=4.618 (4.910%)
- 058: dt: 0.1250, sse=1974917.2, rms=4.566 (1.120%)
- rms = 4.55, time step reduction 3 of 3 to 0.062...
- 059: dt: 0.1250, sse=1968548.0, rms=4.546 (0.442%)
- positioning took 1.5 minutes
- mean border=47.6, 3778 (33) missing vertices, mean dist 0.1 [0.2 (%46.8)->0.5 (%53.2))]
- %39 local maxima, %20 large gradients and %36 min vals, 214 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=2039115.6, rms=4.739
- rms = 5.22, time step reduction 1 of 3 to 0.250...
- 060: dt: 0.2500, sse=1990370.2, rms=4.581 (3.332%)
- rms = 4.55, time step reduction 2 of 3 to 0.125...
- 061: dt: 0.2500, sse=1978396.5, rms=4.550 (0.669%)
- 062: dt: 0.1250, sse=1953654.2, rms=4.464 (1.880%)
- rms = 4.42, time step reduction 3 of 3 to 0.062...
- 063: dt: 0.1250, sse=1940411.8, rms=4.424 (0.901%)
- positioning took 1.1 minutes
- mean border=47.0, 7464 (32) missing vertices, mean dist 0.1 [0.2 (%47.6)->0.4 (%52.4))]
- %41 local maxima, %17 large gradients and %34 min vals, 225 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-6.0.0/0050184/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1971041.8, rms=4.509
- rms = 4.86, time step reduction 1 of 3 to 0.250...
- 064: dt: 0.2500, sse=1938642.8, rms=4.403 (2.356%)
- 065: dt: 0.2500, sse=1909194.6, rms=4.327 (1.725%)
- rms = 4.31, time step reduction 2 of 3 to 0.125...
- 066: dt: 0.2500, sse=1900609.4, rms=4.310 (0.394%)
- 067: dt: 0.1250, sse=1856591.0, rms=4.152 (3.654%)
- rms = 4.11, time step reduction 3 of 3 to 0.062...
- 068: dt: 0.1250, sse=1843206.6, rms=4.109 (1.033%)
- positioning took 1.3 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.area.pial
- vertex spacing 1.03 +- 0.50 (0.05-->7.76) (max @ vno 128494 --> 174907)
- face area 0.42 +- 0.38 (0.00-->13.11)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 176561 vertices processed
- 25000 of 176561 vertices processed
- 50000 of 176561 vertices processed
- 75000 of 176561 vertices processed
- 100000 of 176561 vertices processed
- 125000 of 176561 vertices processed
- 150000 of 176561 vertices processed
- 175000 of 176561 vertices processed
- 0 of 176561 vertices processed
- 25000 of 176561 vertices processed
- 50000 of 176561 vertices processed
- 75000 of 176561 vertices processed
- 100000 of 176561 vertices processed
- 125000 of 176561 vertices processed
- 150000 of 176561 vertices processed
- 175000 of 176561 vertices processed
- thickness calculation complete, 381:1683 truncations.
- 29700 vertices at 0 distance
- 104822 vertices at 1 distance
- 114774 vertices at 2 distance
- 60185 vertices at 3 distance
- 21161 vertices at 4 distance
- 6673 vertices at 5 distance
- 2175 vertices at 6 distance
- 748 vertices at 7 distance
- 291 vertices at 8 distance
- 167 vertices at 9 distance
- 123 vertices at 10 distance
- 75 vertices at 11 distance
- 51 vertices at 12 distance
- 37 vertices at 13 distance
- 47 vertices at 14 distance
- 34 vertices at 15 distance
- 23 vertices at 16 distance
- 33 vertices at 17 distance
- 19 vertices at 18 distance
- 36 vertices at 19 distance
- 30 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.thickness
- positioning took 20.9 minutes
- PIDs (16586 16589) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 10:40:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label
- Total face volume 363569
- Total vertex volume 359012 (mask=0)
- #@# 0050184 lh 359012
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 10:40:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label
- Total face volume 345861
- Total vertex volume 341473 (mask=0)
- #@# 0050184 rh 341473
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 10:40:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184
- 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 = 81
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz
- mris_volmask took 30.85 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 11:11:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 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 0050184 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 11:11:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 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 0050184 rh pial
- Waiting for PID 18508 of (18508 18511 18514 18518) to complete...
- Waiting for PID 18511 of (18508 18511 18514 18518) to complete...
- Waiting for PID 18514 of (18508 18511 18514 18518) to complete...
- Waiting for PID 18518 of (18508 18511 18514 18518) 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 0050184 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 363569
- Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1572 1129 2906 2.679 0.376 0.102 0.018 9 1.2 bankssts
- 1354 899 2529 2.578 0.734 0.119 0.023 17 1.4 caudalanteriorcingulate
- 4398 2911 9074 2.793 0.518 0.122 0.038 53 5.6 caudalmiddlefrontal
- 3161 2046 5348 2.298 0.599 0.151 0.044 62 5.5 cuneus
- 755 511 2634 3.465 0.712 0.138 0.051 12 1.6 entorhinal
- 6018 4094 13549 2.811 0.674 0.123 0.034 81 8.8 fusiform
- 9772 6467 19276 2.687 0.558 0.130 0.036 138 13.5 inferiorparietal
- 6603 4607 17469 3.022 0.744 0.143 0.045 104 12.2 inferiortemporal
- 1800 1146 3094 2.370 0.858 0.118 0.037 25 2.2 isthmuscingulate
- 11605 7247 18305 2.265 0.579 0.139 0.046 188 20.8 lateraloccipital
- 5394 3592 11546 2.894 0.735 0.137 0.044 86 9.4 lateralorbitofrontal
- 5482 4071 11270 2.456 0.676 0.149 0.039 77 8.8 lingual
- 4023 2834 9299 2.919 0.712 0.126 0.034 67 5.1 medialorbitofrontal
- 6500 4548 17463 2.933 0.744 0.140 0.047 129 12.1 middletemporal
- 1188 829 2642 2.750 0.622 0.091 0.019 7 0.9 parahippocampal
- 3307 1993 5091 2.451 0.598 0.121 0.039 45 5.1 paracentral
- 3344 2272 7679 2.939 0.560 0.126 0.036 43 4.9 parsopercularis
- 1392 897 3585 2.962 0.787 0.132 0.042 19 2.2 parsorbitalis
- 2364 1569 5009 2.762 0.572 0.136 0.036 36 3.1 parstriangularis
- 2749 2004 3890 2.034 0.523 0.150 0.041 37 4.7 pericalcarine
- 10925 6679 17318 2.262 0.697 0.137 0.052 192 23.9 postcentral
- 2621 1824 5587 2.765 0.788 0.154 0.041 49 4.3 posteriorcingulate
- 10323 6317 19264 2.675 0.631 0.123 0.048 166 20.4 precentral
- 7482 5147 14303 2.586 0.526 0.130 0.034 101 10.4 precuneus
- 2000 1382 4864 2.934 0.757 0.137 0.046 35 4.3 rostralanteriorcingulate
- 10580 7269 22647 2.589 0.646 0.142 0.042 183 17.7 rostralmiddlefrontal
- 15883 10685 36650 2.893 0.625 0.127 0.037 204 22.4 superiorfrontal
- 10503 6662 18598 2.414 0.549 0.131 0.036 145 14.8 superiorparietal
- 6413 4498 14633 2.806 0.649 0.124 0.033 74 8.6 superiortemporal
- 9268 6284 19137 2.740 0.554 0.135 0.038 136 13.1 supramarginal
- 482 315 1307 2.874 0.462 0.162 0.052 13 0.8 frontalpole
- 725 518 2857 3.436 0.751 0.149 0.056 13 1.4 temporalpole
- 754 476 1380 2.477 0.512 0.134 0.030 10 0.9 transversetemporal
- 4083 2774 8799 3.271 0.750 0.122 0.033 40 5.5 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0050184 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 363569
- Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1572 1056 2906 2.679 0.376 0.139 0.038 30 2.4 bankssts
- 1354 1071 2529 2.578 0.734 0.165 0.045 47 2.6 caudalanteriorcingulate
- 4398 3432 9074 2.793 0.518 0.137 0.034 66 6.5 caudalmiddlefrontal
- 3161 2630 5348 2.298 0.599 0.155 0.036 47 5.2 cuneus
- 755 998 2634 3.465 0.712 0.203 0.040 12 1.5 entorhinal
- 6018 5502 13549 2.811 0.674 0.175 0.045 119 12.8 fusiform
- 9772 7839 19276 2.687 0.558 0.150 0.039 173 17.1 inferiorparietal
- 6603 6599 17469 3.022 0.744 0.184 0.050 143 15.0 inferiortemporal
- 1800 1446 3094 2.370 0.858 0.159 0.044 38 3.2 isthmuscingulate
- 11605 8829 18305 2.265 0.579 0.138 0.035 175 18.1 lateraloccipital
- 5394 4251 11546 2.894 0.735 0.150 0.041 103 9.5 lateralorbitofrontal
- 5482 5192 11270 2.456 0.676 0.172 0.043 90 10.9 lingual
- 4023 3521 9299 2.919 0.712 0.162 0.039 65 7.0 medialorbitofrontal
- 6500 6989 17463 2.933 0.744 0.187 0.046 129 13.5 middletemporal
- 1188 1133 2642 2.750 0.622 0.157 0.037 12 2.1 parahippocampal
- 3307 2211 5091 2.451 0.598 0.124 0.051 53 8.9 paracentral
- 3344 2944 7679 2.939 0.560 0.159 0.038 55 6.0 parsopercularis
- 1392 1367 3585 2.962 0.787 0.161 0.040 23 2.4 parsorbitalis
- 2364 1985 5009 2.762 0.572 0.158 0.040 38 4.0 parstriangularis
- 2749 1843 3890 2.034 0.523 0.142 0.037 53 4.7 pericalcarine
- 10925 8270 17318 2.262 0.697 0.138 0.039 157 19.2 postcentral
- 2621 2137 5587 2.765 0.788 0.157 0.043 41 4.9 posteriorcingulate
- 10323 7563 19264 2.675 0.631 0.126 0.041 170 17.6 precentral
- 7482 5774 14303 2.586 0.526 0.147 0.040 128 12.5 precuneus
- 2000 1951 4864 2.934 0.757 0.177 0.044 32 3.8 rostralanteriorcingulate
- 10580 9756 22647 2.589 0.646 0.173 0.044 175 21.5 rostralmiddlefrontal
- 15883 13732 36650 2.893 0.625 0.153 0.039 252 28.3 superiorfrontal
- 10503 8288 18598 2.414 0.549 0.142 0.034 150 15.8 superiorparietal
- 6413 5689 14633 2.806 0.649 0.156 0.038 100 11.2 superiortemporal
- 9268 7542 19137 2.740 0.554 0.150 0.041 151 15.7 supramarginal
- 482 557 1307 2.874 0.462 0.198 0.033 7 0.7 frontalpole
- 725 1095 2857 3.436 0.751 0.249 0.054 14 2.0 temporalpole
- 754 674 1380 2.477 0.512 0.152 0.033 14 1.1 transversetemporal
- 4083 2465 8799 3.271 0.750 0.127 0.038 78 6.3 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0050184 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861
- Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1017 712 1895 2.700 0.414 0.104 0.023 5 1.1 bankssts
- 1176 764 2247 2.540 0.670 0.118 0.033 15 1.5 caudalanteriorcingulate
- 4254 2847 8358 2.470 0.630 0.140 0.056 79 10.0 caudalmiddlefrontal
- 2562 1703 4053 2.177 0.572 0.157 0.045 43 4.8 cuneus
- 569 371 1614 2.885 0.908 0.146 0.058 9 1.6 entorhinal
- 5402 3771 12225 2.779 0.665 0.140 0.043 87 9.6 fusiform
- 10857 7291 23663 2.786 0.573 0.137 0.038 183 16.9 inferiorparietal
- 4540 3107 9032 2.491 0.662 0.139 0.048 73 9.2 inferiortemporal
- 1718 1147 3234 2.366 0.994 0.123 0.037 25 2.2 isthmuscingulate
- 10511 6757 18989 2.452 0.641 0.143 0.042 195 18.0 lateraloccipital
- 5100 3463 11507 2.783 0.744 0.145 0.054 96 11.8 lateralorbitofrontal
- 6688 4634 11752 2.316 0.697 0.159 0.055 116 14.7 lingual
- 3523 2466 7697 2.600 0.750 0.127 0.038 60 6.0 medialorbitofrontal
- 4936 3418 12857 2.815 0.744 0.142 0.050 106 10.9 middletemporal
- 951 691 2205 2.745 0.633 0.120 0.037 11 1.4 parahippocampal
- 3604 2288 6363 2.577 0.512 0.122 0.035 39 5.2 paracentral
- 2571 1727 5793 2.767 0.696 0.132 0.047 37 4.8 parsopercularis
- 1348 957 3798 2.676 0.739 0.161 0.056 33 3.1 parsorbitalis
- 2775 1947 5953 2.464 0.595 0.139 0.042 44 4.9 parstriangularis
- 2748 1894 3588 2.044 0.504 0.142 0.040 37 4.7 pericalcarine
- 10533 6592 16737 2.215 0.649 0.144 0.064 221 29.4 postcentral
- 2144 1493 4567 2.662 0.805 0.130 0.031 30 2.7 posteriorcingulate
- 11308 7270 20508 2.484 0.627 0.134 0.053 167 24.4 precentral
- 8368 5673 15912 2.677 0.495 0.127 0.032 106 10.7 precuneus
- 1246 796 2845 3.048 0.902 0.149 0.060 29 3.1 rostralanteriorcingulate
- 11290 7739 24175 2.464 0.689 0.152 0.053 246 25.9 rostralmiddlefrontal
- 15065 10357 36292 2.855 0.682 0.140 0.049 241 29.9 superiorfrontal
- 11312 7277 20266 2.476 0.496 0.127 0.033 155 13.8 superiorparietal
- 6429 4461 13986 2.664 0.658 0.140 0.042 105 11.0 superiortemporal
- 8456 5592 16813 2.675 0.565 0.136 0.044 129 14.6 supramarginal
- 569 373 1537 2.785 0.557 0.171 0.057 15 1.1 frontalpole
- 448 343 907 2.060 0.778 0.165 0.057 9 1.0 temporalpole
- 653 449 1125 2.290 0.448 0.150 0.046 9 1.0 transversetemporal
- 3478 2446 8330 3.201 0.819 0.141 0.052 58 7.6 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0050184 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861
- Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1017 695 1895 2.700 0.414 0.138 0.042 14 1.9 bankssts
- 1176 954 2247 2.540 0.670 0.182 0.065 28 2.8 caudalanteriorcingulate
- 4254 3700 8358 2.470 0.630 0.171 0.053 78 10.1 caudalmiddlefrontal
- 2562 2071 4053 2.177 0.572 0.142 0.034 32 3.8 cuneus
- 569 709 1614 2.885 0.908 0.215 0.055 7 1.6 entorhinal
- 5402 4996 12225 2.779 0.665 0.176 0.048 102 11.6 fusiform
- 10857 9377 23663 2.786 0.573 0.159 0.042 319 20.4 inferiorparietal
- 4540 4171 9032 2.491 0.662 0.181 0.051 103 10.7 inferiortemporal
- 1718 1508 3234 2.366 0.994 0.169 0.048 42 3.6 isthmuscingulate
- 10511 8513 18989 2.452 0.641 0.144 0.036 176 17.1 lateraloccipital
- 5100 4619 11507 2.783 0.744 0.181 0.055 101 13.0 lateralorbitofrontal
- 6688 5392 11752 2.316 0.697 0.153 0.046 109 12.9 lingual
- 3523 3330 7697 2.600 0.750 0.172 0.046 61 7.4 medialorbitofrontal
- 4936 5424 12857 2.815 0.744 0.201 0.057 113 14.2 middletemporal
- 951 871 2205 2.745 0.633 0.179 0.046 17 2.1 parahippocampal
- 3604 2584 6363 2.577 0.512 0.131 0.034 51 5.5 paracentral
- 2571 2315 5793 2.767 0.696 0.173 0.050 44 5.5 parsopercularis
- 1348 1750 3798 2.676 0.739 0.213 0.048 21 3.1 parsorbitalis
- 2775 2743 5953 2.464 0.595 0.190 0.048 50 6.0 parstriangularis
- 2748 1671 3588 2.044 0.504 0.119 0.033 47 3.6 pericalcarine
- 10533 7987 16737 2.215 0.649 0.143 0.047 204 20.0 postcentral
- 2144 1833 4567 2.662 0.805 0.166 0.045 47 4.3 posteriorcingulate
- 11308 8577 20508 2.484 0.627 0.141 0.042 217 21.2 precentral
- 8368 6124 15912 2.677 0.495 0.138 0.038 149 13.9 precuneus
- 1246 1158 2845 3.048 0.902 0.219 0.075 60 4.8 rostralanteriorcingulate
- 11290 11315 24175 2.464 0.689 0.201 0.057 225 30.7 rostralmiddlefrontal
- 15065 14114 36292 2.855 0.682 0.179 0.052 320 34.2 superiorfrontal
- 11312 8993 20266 2.476 0.496 0.140 0.034 174 16.4 superiorparietal
- 6429 5951 13986 2.664 0.658 0.173 0.046 118 13.1 superiortemporal
- 8456 6891 16813 2.675 0.565 0.158 0.045 148 16.5 supramarginal
- 569 689 1537 2.785 0.557 0.227 0.051 11 1.3 frontalpole
- 448 544 907 2.060 0.778 0.242 0.088 15 1.5 temporalpole
- 653 502 1125 2.290 0.448 0.148 0.039 12 1.1 transversetemporal
- 3478 2478 8330 3.201 0.819 0.165 0.049 79 7.8 insula
- PIDs (18508 18511 18514 18518) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 11:13:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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 11:13:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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 18743 of (18743 18746) to complete...
- Waiting for PID 18746 of (18743 18746) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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...
- 65 labels changed using aseg
- relabeling using gibbs priors...
- 000: 12137 changed, 183509 examined...
- 001: 2780 changed, 46863 examined...
- 002: 810 changed, 14488 examined...
- 003: 345 changed, 4588 examined...
- 004: 174 changed, 1990 examined...
- 005: 92 changed, 964 examined...
- 006: 55 changed, 504 examined...
- 007: 21 changed, 278 examined...
- 008: 15 changed, 111 examined...
- 009: 4 changed, 81 examined...
- 010: 3 changed, 28 examined...
- 011: 2 changed, 21 examined...
- 012: 1 changed, 16 examined...
- 013: 0 changed, 7 examined...
- 0 labels changed using aseg
- 000: 371 total segments, 283 labels (3620 vertices) changed
- 001: 107 total segments, 21 labels (56 vertices) changed
- 002: 86 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 44 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1508 vertices marked for relabeling...
- 1508 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 27 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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...
- 2 labels changed using aseg
- relabeling using gibbs priors...
- 000: 11659 changed, 176561 examined...
- 001: 2814 changed, 45230 examined...
- 002: 818 changed, 14578 examined...
- 003: 357 changed, 4676 examined...
- 004: 160 changed, 1958 examined...
- 005: 84 changed, 926 examined...
- 006: 42 changed, 457 examined...
- 007: 20 changed, 223 examined...
- 008: 12 changed, 103 examined...
- 009: 9 changed, 76 examined...
- 010: 5 changed, 48 examined...
- 011: 0 changed, 20 examined...
- 0 labels changed using aseg
- 000: 346 total segments, 255 labels (4179 vertices) changed
- 001: 105 total segments, 16 labels (55 vertices) changed
- 002: 89 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 25 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1656 vertices marked for relabeling...
- 1656 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 27 seconds.
- PIDs (18743 18746) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 11:13:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 11:13:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh white
- Waiting for PID 18797 of (18797 18800) to complete...
- Waiting for PID 18800 of (18797 18800) 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 0050184 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 363569
- Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1406 967 2970 2.605 0.560 0.132 0.034 19 2.0 G&S_frontomargin
- 1763 1178 3606 2.543 0.511 0.138 0.036 27 2.6 G&S_occipital_inf
- 2625 1452 3470 2.126 0.605 0.131 0.053 47 6.0 G&S_paracentral
- 2713 1829 6369 2.896 0.634 0.146 0.044 41 4.6 G&S_subcentral
- 1238 871 3186 2.698 0.571 0.166 0.055 29 2.6 G&S_transv_frontopol
- 3341 2294 7164 2.835 0.604 0.122 0.036 41 5.4 G&S_cingul-Ant
- 1819 1295 3729 2.789 0.554 0.110 0.023 14 1.8 G&S_cingul-Mid-Ant
- 2164 1481 4619 2.931 0.560 0.142 0.037 33 3.1 G&S_cingul-Mid-Post
- 846 572 2269 3.063 0.646 0.167 0.056 19 1.8 G_cingul-Post-dorsal
- 305 200 799 2.716 0.852 0.143 0.071 8 0.6 G_cingul-Post-ventral
- 2860 1829 4963 2.203 0.566 0.151 0.048 60 5.1 G_cuneus
- 2218 1463 6086 3.143 0.528 0.133 0.042 37 3.8 G_front_inf-Opercular
- 744 461 2111 3.186 0.501 0.152 0.054 16 1.6 G_front_inf-Orbital
- 1330 885 3370 2.962 0.489 0.161 0.051 31 2.6 G_front_inf-Triangul
- 5675 3738 14117 2.798 0.663 0.148 0.052 123 10.8 G_front_middle
- 10954 7226 28091 3.001 0.634 0.137 0.044 182 17.6 G_front_sup
- 787 538 1936 3.398 0.730 0.140 0.047 13 1.4 G_Ins_lg&S_cent_ins
- 877 556 2648 3.699 0.692 0.126 0.040 13 1.3 G_insular_short
- 3994 2411 8333 2.628 0.653 0.147 0.051 86 7.2 G_occipital_middle
- 1968 1257 3311 2.257 0.687 0.133 0.035 30 2.6 G_occipital_sup
- 2656 1771 7318 3.110 0.685 0.137 0.041 49 4.3 G_oc-temp_lat-fusifor
- 3751 2715 8650 2.534 0.752 0.166 0.048 69 7.5 G_oc-temp_med-Lingual
- 1400 948 4179 3.158 0.734 0.118 0.037 16 2.2 G_oc-temp_med-Parahip
- 3283 2129 8777 2.931 0.804 0.143 0.054 66 6.7 G_orbital
- 3868 2576 9044 2.715 0.618 0.148 0.048 80 6.9 G_pariet_inf-Angular
- 4710 3167 11963 2.928 0.575 0.146 0.044 86 7.7 G_pariet_inf-Supramar
- 4049 2480 8715 2.545 0.610 0.138 0.045 75 7.1 G_parietal_sup
- 4516 2460 6888 2.232 0.662 0.154 0.074 120 14.9 G_postcentral
- 3734 2051 8028 2.794 0.705 0.137 0.075 108 11.5 G_precentral
- 3838 2529 8345 2.639 0.508 0.137 0.040 74 6.2 G_precuneus
- 1358 991 3940 3.034 0.679 0.159 0.048 39 2.3 G_rectus
- 914 648 2286 3.377 0.974 0.122 0.042 12 1.3 G_subcallosal
- 598 369 1384 2.626 0.561 0.142 0.037 10 1.0 G_temp_sup-G_T_transv
- 2275 1573 6705 2.987 0.644 0.143 0.043 38 3.9 G_temp_sup-Lateral
- 678 496 1918 3.535 0.638 0.122 0.041 6 1.0 G_temp_sup-Plan_polar
- 1206 863 2683 2.805 0.647 0.103 0.025 11 1.1 G_temp_sup-Plan_tempo
- 3334 2369 10769 3.264 0.724 0.155 0.054 70 7.5 G_temporal_inf
- 3618 2550 12253 3.160 0.720 0.154 0.058 85 7.9 G_temporal_middle
- 438 298 679 2.539 0.655 0.114 0.020 3 0.4 Lat_Fis-ant-Horizont
- 368 258 576 2.623 0.471 0.122 0.031 2 0.5 Lat_Fis-ant-Vertical
- 1368 929 1907 2.593 0.474 0.118 0.025 10 1.4 Lat_Fis-post
- 3261 1862 3981 1.987 0.561 0.144 0.060 59 8.1 Pole_occipital
- 1798 1263 6720 3.320 0.878 0.153 0.058 35 4.2 Pole_temporal
- 3260 2571 5260 2.214 0.612 0.149 0.037 41 5.3 S_calcarine
- 4438 2928 5377 2.066 0.565 0.115 0.033 35 5.9 S_central
- 1344 930 2076 2.513 0.561 0.128 0.034 12 1.8 S_cingul-Marginalis
- 632 430 1104 2.979 0.548 0.108 0.027 4 0.7 S_circular_insula_ant
- 1398 982 2361 2.946 0.808 0.106 0.023 8 1.3 S_circular_insula_inf
- 2227 1510 3560 2.931 0.460 0.107 0.023 11 2.2 S_circular_insula_sup
- 1104 781 2214 2.877 0.580 0.117 0.028 9 1.4 S_collat_transv_ant
- 624 428 746 2.112 0.328 0.144 0.040 8 0.9 S_collat_transv_post
- 2582 1798 4125 2.414 0.484 0.116 0.028 21 2.7 S_front_inf
- 2111 1482 3724 2.346 0.574 0.130 0.031 22 2.8 S_front_middle
- 4209 2893 7871 2.709 0.521 0.115 0.029 38 4.9 S_front_sup
- 708 486 1031 2.458 0.401 0.108 0.022 4 0.7 S_interm_prim-Jensen
- 4219 2804 6131 2.359 0.398 0.124 0.029 39 5.0 S_intrapariet&P_trans
- 2136 1418 2791 2.195 0.394 0.119 0.029 17 2.5 S_oc_middle&Lunatus
- 1931 1275 2757 2.400 0.355 0.122 0.027 17 2.1 S_oc_sup&transversal
- 1029 716 1696 2.346 0.488 0.129 0.031 13 1.2 S_occipital_ant
- 1433 967 2301 2.583 0.509 0.105 0.023 9 1.4 S_oc-temp_lat
- 2964 2108 4870 2.433 0.404 0.103 0.020 16 2.6 S_oc-temp_med&Lingual
- 481 315 718 2.337 0.493 0.123 0.023 5 0.4 S_orbital_lateral
- 988 691 1381 2.491 0.518 0.107 0.019 6 0.8 S_orbital_med-olfact
- 1978 1353 3956 2.921 0.749 0.139 0.037 28 3.0 S_orbital-H_Shaped
- 2991 2014 4970 2.611 0.515 0.122 0.028 28 3.5 S_parieto_occipital
- 2123 1320 2298 1.973 0.753 0.109 0.020 24 1.6 S_pericallosal
- 4741 3146 7135 2.401 0.525 0.125 0.031 48 5.5 S_postcentral
- 2145 1445 3706 2.692 0.413 0.097 0.020 11 1.7 S_precentral-inf-part
- 1900 1256 2819 2.626 0.438 0.092 0.017 8 1.3 S_precentral-sup-part
- 1041 711 2121 2.785 0.597 0.113 0.027 13 1.1 S_suborbital
- 1086 752 1680 2.462 0.514 0.119 0.027 7 1.2 S_subparietal
- 2477 1704 3820 2.571 0.556 0.127 0.031 34 3.3 S_temporal_inf
- 7367 5124 12883 2.615 0.496 0.114 0.026 66 8.4 S_temporal_sup
- 513 355 677 2.374 0.413 0.110 0.018 3 0.4 S_temporal_transverse
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 0050184 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861
- Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1191 822 2396 2.433 0.697 0.159 0.062 25 3.8 G&S_frontomargin
- 1829 1263 4147 2.692 0.517 0.150 0.048 32 3.3 G&S_occipital_inf
- 2400 1352 4047 2.502 0.612 0.134 0.055 39 5.7 G&S_paracentral
- 2861 1858 5532 2.600 0.654 0.144 0.060 58 7.6 G&S_subcentral
- 1475 1012 3838 2.735 0.702 0.159 0.052 37 3.5 G&S_transv_frontopol
- 3937 2665 8163 2.657 0.634 0.133 0.048 67 7.4 G&S_cingul-Ant
- 2163 1501 4495 2.783 0.587 0.117 0.034 21 2.9 G&S_cingul-Mid-Ant
- 1831 1293 4112 2.930 0.564 0.126 0.032 20 2.5 G&S_cingul-Mid-Post
- 678 464 1886 2.976 0.875 0.160 0.048 15 1.2 G_cingul-Post-dorsal
- 331 237 909 2.645 0.813 0.153 0.045 6 0.5 G_cingul-Post-ventral
- 2579 1712 4185 2.112 0.589 0.158 0.046 44 4.9 G_cuneus
- 1899 1320 5530 2.948 0.687 0.161 0.065 44 4.9 G_front_inf-Opercular
- 454 317 1428 2.916 0.652 0.146 0.043 8 0.9 G_front_inf-Orbital
- 1274 856 3321 2.721 0.538 0.162 0.060 33 3.0 G_front_inf-Triangul
- 5362 3571 14827 2.741 0.672 0.176 0.074 163 16.4 G_front_middle
- 9616 6535 26149 2.971 0.707 0.152 0.054 190 21.2 G_front_sup
- 728 514 2199 3.587 0.752 0.163 0.075 13 2.2 G_Ins_lg&S_cent_ins
- 713 507 2303 3.596 0.791 0.170 0.063 28 2.0 G_insular_short
- 3959 2611 10221 2.897 0.605 0.156 0.046 118 7.6 G_occipital_middle
- 2294 1336 4189 2.578 0.590 0.136 0.043 38 3.6 G_occipital_sup
- 2936 1999 8088 3.047 0.714 0.155 0.051 64 5.8 G_oc-temp_lat-fusifor
- 4238 2761 7939 2.312 0.745 0.167 0.064 91 10.4 G_oc-temp_med-Lingual
- 993 666 2803 2.951 0.782 0.140 0.059 18 2.5 G_oc-temp_med-Parahip
- 3114 2263 9515 2.862 0.735 0.167 0.065 85 8.4 G_orbital
- 3837 2531 10040 2.910 0.614 0.149 0.052 91 8.2 G_pariet_inf-Angular
- 3969 2633 9956 2.845 0.627 0.157 0.058 91 8.8 G_pariet_inf-Supramar
- 3734 2343 8008 2.580 0.532 0.138 0.039 69 5.2 G_parietal_sup
- 3881 2353 6733 2.207 0.656 0.172 0.090 124 15.5 G_postcentral
- 4364 2721 9831 2.675 0.679 0.147 0.072 88 12.6 G_precentral
- 3538 2346 7726 2.741 0.515 0.137 0.040 60 5.4 G_precuneus
- 1067 756 3083 2.804 0.575 0.159 0.047 31 2.2 G_rectus
- 650 454 1742 3.252 1.237 0.117 0.057 12 1.2 G_subcallosal
- 487 364 1157 2.449 0.504 0.160 0.047 9 0.9 G_temp_sup-G_T_transv
- 1973 1406 5824 2.923 0.626 0.163 0.056 51 4.3 G_temp_sup-Lateral
- 1337 959 2994 2.709 0.935 0.138 0.057 20 2.9 G_temp_sup-Plan_polar
- 1475 995 2937 2.719 0.490 0.114 0.027 13 1.6 G_temp_sup-Plan_tempo
- 2391 1622 6024 2.646 0.732 0.149 0.058 50 6.3 G_temporal_inf
- 2719 1886 8744 3.044 0.744 0.155 0.059 77 6.7 G_temporal_middle
- 490 337 613 2.082 0.333 0.099 0.018 2 0.4 Lat_Fis-ant-Horizont
- 407 281 668 2.382 0.571 0.111 0.027 2 0.5 Lat_Fis-ant-Vertical
- 1846 1241 2628 2.616 0.502 0.126 0.032 16 2.5 Lat_Fis-post
- 4324 2606 6084 2.098 0.691 0.144 0.045 71 8.3 Pole_occipital
- 1349 960 2953 2.284 0.861 0.176 0.082 30 5.2 Pole_temporal
- 3330 2518 5277 2.363 0.634 0.145 0.038 41 5.6 S_calcarine
- 4411 2843 4888 1.946 0.484 0.124 0.045 50 7.9 S_central
- 1640 1137 3057 2.518 0.533 0.109 0.029 15 1.9 S_cingul-Marginalis
- 650 452 1310 2.857 0.729 0.133 0.041 4 1.5 S_circular_insula_ant
- 1212 825 1863 2.553 0.772 0.100 0.024 7 1.2 S_circular_insula_inf
- 1696 1157 2743 2.667 0.639 0.111 0.031 10 2.3 S_circular_insula_sup
- 729 556 1506 2.476 0.583 0.123 0.028 7 0.7 S_collat_transv_ant
- 436 315 711 2.557 0.657 0.159 0.037 4 0.9 S_collat_transv_post
- 2728 1897 4102 2.210 0.531 0.123 0.036 40 4.6 S_front_inf
- 3148 2165 5409 2.262 0.605 0.136 0.040 50 5.1 S_front_middle
- 3713 2550 6047 2.409 0.517 0.126 0.041 36 6.8 S_front_sup
- 725 478 1089 2.370 0.365 0.104 0.024 5 0.7 S_interm_prim-Jensen
- 4373 2938 6375 2.321 0.386 0.111 0.023 35 4.0 S_intrapariet&P_trans
- 1671 1128 2230 2.373 0.352 0.126 0.027 15 1.9 S_oc_middle&Lunatus
- 2073 1425 3205 2.439 0.452 0.127 0.027 20 2.2 S_oc_sup&transversal
- 1109 732 1638 2.471 0.422 0.120 0.033 16 1.8 S_occipital_ant
- 1388 935 2015 2.398 0.401 0.118 0.030 13 1.6 S_oc-temp_lat
- 2872 2053 4425 2.409 0.434 0.124 0.028 24 3.3 S_oc-temp_med&Lingual
- 346 267 561 1.974 0.510 0.135 0.031 3 0.4 S_orbital_lateral
- 982 681 1525 2.502 0.569 0.107 0.021 7 0.8 S_orbital_med-olfact
- 1757 1171 3469 2.689 0.754 0.134 0.042 25 3.1 S_orbital-H_Shaped
- 3218 2196 5174 2.600 0.420 0.124 0.026 33 3.3 S_parieto_occipital
- 1994 1241 2094 2.037 0.911 0.105 0.023 20 1.5 S_pericallosal
- 4526 2941 6518 2.373 0.462 0.115 0.031 41 5.8 S_postcentral
- 2530 1678 3800 2.366 0.574 0.113 0.037 21 3.5 S_precentral-inf-part
- 2150 1428 3482 2.445 0.553 0.122 0.034 19 3.0 S_precentral-sup-part
- 495 344 674 2.310 0.414 0.095 0.014 3 0.3 S_suborbital
- 1550 1108 2771 2.622 0.486 0.114 0.025 13 1.6 S_subparietal
- 1326 912 1960 2.505 0.546 0.119 0.031 10 1.6 S_temporal_inf
- 6362 4342 11035 2.671 0.497 0.120 0.028 60 7.4 S_temporal_sup
- 467 309 553 2.364 0.459 0.116 0.024 3 0.4 S_temporal_transverse
- PIDs (18797 18800) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 11:14:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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 11:14:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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 18868 of (18868 18871) to complete...
- Waiting for PID 18871 of (18868 18871) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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...
- 1115 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2509 changed, 183509 examined...
- 001: 591 changed, 11471 examined...
- 002: 159 changed, 3304 examined...
- 003: 56 changed, 909 examined...
- 004: 26 changed, 323 examined...
- 005: 16 changed, 164 examined...
- 006: 8 changed, 97 examined...
- 007: 3 changed, 53 examined...
- 008: 3 changed, 19 examined...
- 009: 3 changed, 20 examined...
- 010: 3 changed, 22 examined...
- 011: 2 changed, 22 examined...
- 012: 1 changed, 13 examined...
- 013: 0 changed, 7 examined...
- 197 labels changed using aseg
- 000: 64 total segments, 31 labels (441 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1097 vertices marked for relabeling...
- 1097 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 22 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 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...
- 1138 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2462 changed, 176561 examined...
- 001: 580 changed, 11240 examined...
- 002: 163 changed, 3224 examined...
- 003: 67 changed, 957 examined...
- 004: 33 changed, 408 examined...
- 005: 14 changed, 196 examined...
- 006: 4 changed, 84 examined...
- 007: 4 changed, 28 examined...
- 008: 5 changed, 24 examined...
- 009: 4 changed, 28 examined...
- 010: 6 changed, 20 examined...
- 011: 6 changed, 32 examined...
- 012: 5 changed, 30 examined...
- 013: 5 changed, 20 examined...
- 014: 1 changed, 27 examined...
- 015: 1 changed, 7 examined...
- 016: 1 changed, 7 examined...
- 017: 1 changed, 7 examined...
- 018: 3 changed, 6 examined...
- 019: 2 changed, 14 examined...
- 020: 3 changed, 12 examined...
- 021: 5 changed, 17 examined...
- 022: 4 changed, 21 examined...
- 023: 3 changed, 13 examined...
- 024: 2 changed, 12 examined...
- 025: 1 changed, 14 examined...
- 026: 0 changed, 7 examined...
- 120 labels changed using aseg
- 000: 92 total segments, 59 labels (568 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 6 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1429 vertices marked for relabeling...
- 1429 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 21 seconds.
- PIDs (18868 18871) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 11:15:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 11:15:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh white
- Waiting for PID 18921 of (18921 18924) to complete...
- Waiting for PID 18924 of (18921 18924) 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 0050184 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 363569
- Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 2566 1725 5667 2.828 0.758 0.119 0.028 28 2.9 caudalanteriorcingulate
- 4864 3209 9933 2.765 0.533 0.123 0.040 63 6.8 caudalmiddlefrontal
- 4182 2705 7222 2.356 0.594 0.147 0.042 77 6.8 cuneus
- 648 435 2295 3.457 0.753 0.138 0.052 11 1.5 entorhinal
- 5747 3910 12787 2.786 0.655 0.120 0.031 74 7.3 fusiform
- 10120 6666 20005 2.657 0.543 0.129 0.037 147 14.2 inferiorparietal
- 6369 4449 17206 3.053 0.761 0.142 0.046 102 12.3 inferiortemporal
- 1774 1131 3096 2.397 0.868 0.120 0.038 25 2.2 isthmuscingulate
- 11629 7251 18285 2.262 0.586 0.139 0.045 189 20.7 lateraloccipital
- 6054 4056 13519 2.902 0.758 0.139 0.045 100 10.9 lateralorbitofrontal
- 5650 4176 11531 2.444 0.680 0.150 0.041 81 9.3 lingual
- 3048 2165 7441 2.863 0.705 0.129 0.035 61 3.8 medialorbitofrontal
- 8419 5883 21273 2.897 0.710 0.138 0.044 151 14.8 middletemporal
- 1225 853 2737 2.755 0.628 0.092 0.019 7 0.9 parahippocampal
- 3853 2355 6152 2.483 0.595 0.121 0.038 51 6.0 paracentral
- 3113 2111 7197 2.959 0.549 0.125 0.036 40 4.5 parsopercularis
- 1414 915 3373 2.997 0.728 0.128 0.039 18 2.3 parsorbitalis
- 2770 1880 5906 2.720 0.576 0.137 0.037 41 3.7 parstriangularis
- 2626 1930 3786 2.056 0.512 0.149 0.040 34 4.4 pericalcarine
- 12167 7492 19047 2.279 0.701 0.136 0.050 206 25.7 postcentral
- 2961 2031 6188 2.769 0.765 0.150 0.040 52 4.7 posteriorcingulate
- 10206 6273 18889 2.670 0.629 0.123 0.047 163 19.9 precentral
- 7269 5000 14104 2.580 0.532 0.129 0.033 94 9.9 precuneus
- 2697 1845 5905 2.900 0.706 0.132 0.042 42 5.0 rostralanteriorcingulate
- 7553 5114 16437 2.640 0.662 0.135 0.039 114 11.4 rostralmiddlefrontal
- 16589 11217 37954 2.829 0.635 0.133 0.040 246 25.2 superiorfrontal
- 8358 5317 14940 2.443 0.523 0.131 0.036 117 11.8 superiorparietal
- 8345 5904 19671 2.854 0.665 0.125 0.034 98 11.2 superiortemporal
- 8293 5627 17242 2.740 0.565 0.136 0.038 121 11.9 supramarginal
- 744 468 1368 2.478 0.513 0.134 0.030 10 0.9 transversetemporal
- 3573 2402 7854 3.328 0.726 0.120 0.033 36 4.7 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 0050184 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861
- Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1281 839 2407 2.528 0.670 0.117 0.033 16 1.6 caudalanteriorcingulate
- 4445 2976 8712 2.485 0.620 0.141 0.056 83 10.6 caudalmiddlefrontal
- 3226 2144 4999 2.212 0.551 0.151 0.042 50 5.6 cuneus
- 555 362 1598 2.907 0.900 0.146 0.059 9 1.6 entorhinal
- 5025 3543 11573 2.818 0.665 0.138 0.039 78 8.0 fusiform
- 10877 7306 23707 2.783 0.575 0.138 0.039 216 17.4 inferiorparietal
- 4949 3382 9886 2.483 0.656 0.143 0.052 83 11.0 inferiortemporal
- 1724 1143 3233 2.361 0.984 0.122 0.037 25 2.2 isthmuscingulate
- 10539 6749 18691 2.427 0.632 0.142 0.041 166 17.7 lateraloccipital
- 5506 3831 13342 2.839 0.778 0.149 0.055 112 13.0 lateralorbitofrontal
- 6620 4544 11586 2.322 0.696 0.159 0.054 115 14.3 lingual
- 2595 1823 5949 2.659 0.748 0.126 0.038 45 3.6 medialorbitofrontal
- 5657 3914 14050 2.783 0.716 0.139 0.048 112 11.7 middletemporal
- 1022 739 2332 2.713 0.631 0.120 0.036 12 1.5 parahippocampal
- 3750 2397 6753 2.591 0.527 0.124 0.037 42 5.6 paracentral
- 2989 2043 6658 2.682 0.695 0.136 0.047 51 5.6 parsopercularis
- 1106 768 2696 2.598 0.638 0.123 0.038 17 1.6 parsorbitalis
- 2707 1889 5893 2.507 0.613 0.144 0.044 39 5.2 parstriangularis
- 2672 1836 3475 2.038 0.515 0.139 0.042 33 4.6 pericalcarine
- 11426 7179 18158 2.226 0.641 0.143 0.062 230 30.9 postcentral
- 2242 1559 4678 2.672 0.791 0.130 0.031 30 2.7 posteriorcingulate
- 10824 6965 19730 2.490 0.638 0.134 0.054 164 23.6 precentral
- 8565 5845 16795 2.690 0.498 0.130 0.033 117 11.4 precuneus
- 1751 1130 3933 2.986 0.919 0.137 0.054 39 4.1 rostralanteriorcingulate
- 8022 5443 16691 2.416 0.691 0.154 0.056 176 18.3 rostralmiddlefrontal
- 18908 12997 45001 2.792 0.678 0.141 0.048 317 37.6 superiorfrontal
- 9583 6154 17375 2.491 0.505 0.124 0.032 129 11.4 superiorparietal
- 7813 5446 16727 2.654 0.673 0.140 0.043 124 13.4 superiortemporal
- 8053 5303 15878 2.674 0.561 0.135 0.043 123 13.7 supramarginal
- 617 429 1093 2.261 0.447 0.150 0.046 9 0.9 transversetemporal
- 3251 2277 7876 3.207 0.802 0.139 0.047 52 7.1 insula
- PIDs (18921 18924) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 11:16:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- pctsurfcon --s 0050184 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 11:16:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts
- pctsurfcon --s 0050184 --rh-only
- Waiting for PID 18993 of (18993 19006) to complete...
- Waiting for PID 19006 of (18993 19006) to complete...
- pctsurfcon --s 0050184 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts/pctsurfcon.log
- Sun Oct 8 11:16:12 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-6.0.0/0050184/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-555 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-6.0.0/0050184/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.wm.mgh --regheader 0050184 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 96613
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.wm.mgh
- Dim: 183509 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.gm.mgh --projfrac 0.3 --regheader 0050184 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 119609
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.gm.mgh
- Dim: 183509 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.w-g.pct.mgh --annot 0050184 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/lh.w-g.pct.mgh --annot 0050184 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-555
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/lh.w-g.pct.mgh
- Vertex Area is 0.665667 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 0050184 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts/pctsurfcon.log
- Sun Oct 8 11:16:12 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-6.0.0/0050184/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-555 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-6.0.0/0050184/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.wm.mgh --regheader 0050184 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 92825
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.wm.mgh
- Dim: 176561 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.gm.mgh --projfrac 0.3 --regheader 0050184 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 114814
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.gm.mgh
- Dim: 176561 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.w-g.pct.mgh --annot 0050184 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/rh.w-g.pct.mgh --annot 0050184 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-555
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/rh.w-g.pct.mgh
- Vertex Area is 0.670462 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 (18993 19006) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 11:16:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 2359 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 2654 voxels changed to hypointensity...
- 5094 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 11:16:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184
- mri_aparc2aseg --s 0050184 --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 11:16:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184
- mri_aparc2aseg --s 0050184 --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 11:16:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184
- mri_aparc2aseg --s 0050184 --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 19172 of (19172 19175 19178) to complete...
- Waiting for PID 19175 of (19172 19175 19178) to complete...
- Waiting for PID 19178 of (19172 19175 19178) to complete...
- mri_aparc2aseg --s 0050184 --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 0050184
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/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-6.0.0/0050184/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 8.28
- 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 --> 63
- rescaling Left_Lateral_Ventricle from 13 --> 18
- rescaling Left_Inf_Lat_Vent from 34 --> 27
- rescaling Left_Cerebellum_White_Matter from 86 --> 80
- rescaling Left_Cerebellum_Cortex from 60 --> 53
- rescaling Left_Thalamus from 94 --> 94
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 26
- rescaling Fourth_Ventricle from 22 --> 17
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 58
- rescaling Left_Amygdala from 56 --> 60
- rescaling CSF from 32 --> 36
- rescaling Left_Accumbens_area from 62 --> 61
- rescaling Left_VentralDC from 87 --> 90
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 60
- rescaling Right_Lateral_Ventricle from 13 --> 13
- rescaling Right_Inf_Lat_Vent from 25 --> 22
- rescaling Right_Cerebellum_White_Matter from 87 --> 89
- rescaling Right_Cerebellum_Cortex from 59 --> 58
- rescaling Right_Thalamus_Proper from 85 --> 81
- rescaling Right_Caudate from 62 --> 66
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 52
- rescaling Right_Amygdala from 55 --> 53
- rescaling Right_Accumbens_area from 65 --> 65
- rescaling Right_VentralDC from 86 --> 91
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 56
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 692252
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 194 changed.
- pass 2: 13 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0050184 --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 0050184
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/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-6.0.0/0050184/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 8.28
- 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 --> 63
- rescaling Left_Lateral_Ventricle from 13 --> 18
- rescaling Left_Inf_Lat_Vent from 34 --> 27
- rescaling Left_Cerebellum_White_Matter from 86 --> 80
- rescaling Left_Cerebellum_Cortex from 60 --> 53
- rescaling Left_Thalamus from 94 --> 94
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 26
- rescaling Fourth_Ventricle from 22 --> 17
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 58
- rescaling Left_Amygdala from 56 --> 60
- rescaling CSF from 32 --> 36
- rescaling Left_Accumbens_area from 62 --> 61
- rescaling Left_VentralDC from 87 --> 90
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 60
- rescaling Right_Lateral_Ventricle from 13 --> 13
- rescaling Right_Inf_Lat_Vent from 25 --> 22
- rescaling Right_Cerebellum_White_Matter from 87 --> 89
- rescaling Right_Cerebellum_Cortex from 59 --> 58
- rescaling Right_Thalamus_Proper from 85 --> 81
- rescaling Right_Caudate from 62 --> 66
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 52
- rescaling Right_Amygdala from 55 --> 53
- rescaling Right_Accumbens_area from 65 --> 65
- rescaling Right_VentralDC from 86 --> 91
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 56
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 692820
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 194 changed.
- pass 2: 13 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0050184 --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 0050184
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/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-6.0.0/0050184/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 8.28
- 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 --> 63
- rescaling Left_Lateral_Ventricle from 13 --> 18
- rescaling Left_Inf_Lat_Vent from 34 --> 27
- rescaling Left_Cerebellum_White_Matter from 86 --> 80
- rescaling Left_Cerebellum_Cortex from 60 --> 53
- rescaling Left_Thalamus from 94 --> 94
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 26
- rescaling Fourth_Ventricle from 22 --> 17
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 58
- rescaling Left_Amygdala from 56 --> 60
- rescaling CSF from 32 --> 36
- rescaling Left_Accumbens_area from 62 --> 61
- rescaling Left_VentralDC from 87 --> 90
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 60
- rescaling Right_Lateral_Ventricle from 13 --> 13
- rescaling Right_Inf_Lat_Vent from 25 --> 22
- rescaling Right_Cerebellum_White_Matter from 87 --> 89
- rescaling Right_Cerebellum_Cortex from 59 --> 58
- rescaling Right_Thalamus_Proper from 85 --> 81
- rescaling Right_Caudate from 62 --> 66
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 52
- rescaling Right_Amygdala from 55 --> 53
- rescaling Right_Accumbens_area from 65 --> 65
- rescaling Right_VentralDC from 86 --> 91
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 56
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 692820
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 194 changed.
- pass 2: 13 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (19172 19175 19178) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 11:26:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 11:26:11 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-6.0.0/0050184/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-555 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-6.0.0/0050184/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-555
- 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 11:26:11 CEST 2017
- Ended at Sun Oct 8 11:26:17 CEST 2017
- Apas2aseg-Run-Time-Sec 6
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 11:26:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184
- 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 0050184
- $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 0050184
- sysname Linux
- hostname tars-555
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1936761 mm^3 (det: 1.005857 )
- Computing euler number
- orig.nofix lheno = -312, rheno = -540
- orig.nofix lhholes = 157, rhholes = 271
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 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 11:27:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184
- mri_aparc2aseg --s 0050184 --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 0050184
- 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-6.0.0/0050184/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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-6.0.0/0050184/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8686 vertices from left hemi
- Ripped 8412 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-6.0.0/0050184/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 1198411
- Used brute-force search on 6 voxels
- Fixing Parahip LH WM
- Found 11 clusters
- 0 k 1.000000
- 1 k 3.000000
- 2 k 1.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 1.000000
- 6 k 1718.000000
- 7 k 2.000000
- 8 k 1.000000
- 9 k 1.000000
- 10 k 1.000000
- Fixing Parahip RH WM
- Found 2 clusters
- 0 k 27.000000
- 1 k 1553.000000
- 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 0050184 --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 0050184 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-555
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1936761 mm^3 (det: 1.005857 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 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-6.0.0/0050184/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 11:37:53 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 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 19958 of (19958 19964 19970 19976 19981) to complete...
- Waiting for PID 19964 of (19958 19964 19970 19976 19981) to complete...
- Waiting for PID 19970 of (19958 19964 19970 19976 19981) to complete...
- Waiting for PID 19976 of (19958 19964 19970 19976 19981) to complete...
- Waiting for PID 19981 of (19958 19964 19970 19976 19981) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4129 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 1762
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 5891
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 7909 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 2698
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 10607
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4077 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 588
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4665
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 5983 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 1834
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 7817
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 5784 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 1463
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 7247
- mri_label2label: Done
- PIDs (19958 19964 19970 19976 19981) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 20044 of (20044 20050 20056 20062) to complete...
- Waiting for PID 20050 of (20044 20050 20056 20062) to complete...
- Waiting for PID 20056 of (20044 20050 20056 20062) to complete...
- Waiting for PID 20062 of (20044 20050 20056 20062) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4070 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 760
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4830
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 13589 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 3919
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 17508
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4181 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 906
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 5087
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 3422 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 910
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4332
- mri_label2label: Done
- PIDs (20044 20050 20056 20062) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 20111 of (20111 20117 20123 20128 20133) to complete...
- Waiting for PID 20117 of (20111 20117 20123 20128 20133) to complete...
- Waiting for PID 20123 of (20111 20117 20123 20128 20133) to complete...
- Waiting for PID 20128 of (20111 20117 20123 20128 20133) to complete...
- Waiting for PID 20133 of (20111 20117 20123 20128 20133) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4641 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 2983
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 7624
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 8114 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 5779
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 13893
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 2018 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 885
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2903
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1290 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 135
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1425
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1199 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 89
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1288
- mri_label2label: Done
- PIDs (20111 20117 20123 20128 20133) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 20197 of (20197 20203 20209 20215 20220) to complete...
- Waiting for PID 20203 of (20197 20203 20209 20215 20220) to complete...
- Waiting for PID 20209 of (20197 20203 20209 20215 20220) to complete...
- Waiting for PID 20215 of (20197 20203 20209 20215 20220) to complete...
- Waiting for PID 20220 of (20197 20203 20209 20215 20220) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1014 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 488
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1502
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 2092 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 898
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2990
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1504 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 167
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1671
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1996 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 661
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2657
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 2319 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 778
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 3097
- mri_label2label: Done
- PIDs (20197 20203 20209 20215 20220) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 20320 of (20320 20326 20332 20337) to complete...
- Waiting for PID 20326 of (20320 20326 20332 20337) to complete...
- Waiting for PID 20332 of (20320 20326 20332 20337) to complete...
- Waiting for PID 20337 of (20320 20326 20332 20337) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1549 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 317
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1866
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 7035 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 1687
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 8722
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1912 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 499
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2411
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1151 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 373
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1524
- mri_label2label: Done
- PIDs (20320 20326 20332 20337) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 20386 of (20386 20392 20398 20403 20410) to complete...
- Waiting for PID 20392 of (20386 20392 20398 20403 20410) to complete...
- Waiting for PID 20398 of (20386 20392 20398 20403 20410) to complete...
- Waiting for PID 20403 of (20386 20392 20398 20403 20410) to complete...
- Waiting for PID 20410 of (20386 20392 20398 20403 20410) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 3405 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 2098
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 5503
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 3334 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 2656
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 5990
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 513 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 228
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 741
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 470 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 73
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 543
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 450 nlabel points
- Performing mapping from target back to the source label 183509
- Number of reverse mapping hits = 24
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 474
- mri_label2label: Done
- PIDs (20386 20392 20398 20403 20410) completed and logs appended.
- mris_label2annot --s 0050184 --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-6.0.0/0050184/label
- cmdline mris_label2annot --s 0050184 --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-555
- machine x86_64
- user ntraut
- subject 0050184
- 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-6.0.0/0050184/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 124536 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.BA_exvivo.annot
- mris_label2annot --s 0050184 --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-6.0.0/0050184/label
- cmdline mris_label2annot --s 0050184 --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-555
- machine x86_64
- user ntraut
- subject 0050184
- 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-6.0.0/0050184/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 148630 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 363569
- Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 2129 1180 3499 2.317 0.737 0.165 0.080 63 7.2 BA1_exvivo
- 6494 4135 10320 2.401 0.591 0.133 0.042 95 11.4 BA2_exvivo
- 1431 952 1394 1.788 0.371 0.129 0.037 13 2.1 BA3a_exvivo
- 4043 2520 6283 2.151 0.697 0.131 0.044 57 7.4 BA3b_exvivo
- 2692 1512 4249 2.523 0.610 0.130 0.057 52 7.2 BA4a_exvivo
- 1863 1089 2666 2.614 0.512 0.116 0.049 21 3.3 BA4p_exvivo
- 13395 8647 30441 2.874 0.635 0.122 0.041 203 21.1 BA6_exvivo
- 3330 2244 7974 2.957 0.589 0.113 0.029 34 3.7 BA44_exvivo
- 3312 2247 7205 2.729 0.544 0.142 0.040 55 5.2 BA45_exvivo
- 4807 3327 7309 2.037 0.581 0.147 0.045 82 8.9 V1_exvivo
- 11428 7685 19406 2.268 0.621 0.153 0.047 193 21.9 V2_exvivo
- 2705 1805 4787 2.430 0.561 0.129 0.037 32 3.6 MT_exvivo
- 693 450 2227 3.193 0.779 0.120 0.044 9 1.4 perirhinal_exvivo
- 651 459 1708 3.165 0.677 0.104 0.025 5 0.5 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 0050184 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 363569
- Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1348 710 2090 2.270 0.674 0.170 0.083 33 5.2 BA1_exvivo
- 2791 1699 4328 2.264 0.614 0.136 0.053 52 6.6 BA2_exvivo
- 1216 813 1146 1.785 0.371 0.130 0.036 10 1.8 BA3a_exvivo
- 2387 1487 2820 1.809 0.430 0.117 0.039 28 4.0 BA3b_exvivo
- 2601 1434 4058 2.601 0.566 0.122 0.053 45 5.9 BA4a_exvivo
- 1462 871 2084 2.579 0.555 0.116 0.044 15 2.5 BA4p_exvivo
- 7256 4580 16094 2.830 0.667 0.125 0.047 132 14.1 BA6_exvivo
- 2161 1448 5252 2.985 0.572 0.116 0.031 25 2.6 BA44_exvivo
- 1378 957 3286 2.864 0.546 0.159 0.048 27 2.6 BA45_exvivo
- 5129 3518 7905 2.046 0.583 0.147 0.045 88 9.4 V1_exvivo
- 5730 3906 9363 2.153 0.627 0.157 0.050 101 11.7 V2_exvivo
- 710 477 1327 2.523 0.508 0.126 0.031 9 0.7 MT_exvivo
- 368 232 1154 3.163 0.719 0.121 0.053 5 1.0 perirhinal_exvivo
- 342 237 875 3.248 0.488 0.086 0.017 1 0.3 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 11:42:32 CEST 2017
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA1_exvivo.label --trgsubject 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 20544 of (20544 20550 20556 20562 20566) to complete...
- Waiting for PID 20550 of (20544 20550 20556 20562 20566) to complete...
- Waiting for PID 20556 of (20544 20550 20556 20562 20566) to complete...
- Waiting for PID 20562 of (20544 20550 20556 20562 20566) to complete...
- Waiting for PID 20566 of (20544 20550 20556 20562 20566) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 1687
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 5649
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 2236
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 8923
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 859
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4839
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 1648
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 6170
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4a_exvivo.label --trgsubject 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 1731
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 7478
- mri_label2label: Done
- PIDs (20544 20550 20556 20562 20566) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 20621 of (20621 20627 20633 20639) to complete...
- Waiting for PID 20627 of (20621 20627 20633 20639) to complete...
- Waiting for PID 20633 of (20621 20627 20633 20639) to complete...
- Waiting for PID 20639 of (20621 20627 20633 20639) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 1023
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 5496
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 3774
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 16030
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 2231
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 9143
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 1553
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6908
- mri_label2label: Done
- PIDs (20621 20627 20633 20639) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 20699 of (20699 20705 20711 20716 20721) to complete...
- Waiting for PID 20705 of (20699 20705 20711 20716 20721) to complete...
- Waiting for PID 20711 of (20699 20705 20711 20716 20721) to complete...
- Waiting for PID 20716 of (20699 20705 20711 20716 20721) to complete...
- Waiting for PID 20721 of (20699 20705 20711 20716 20721) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 2757
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 7484
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 5080
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 13096
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 1319
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 3251
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 103
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1141
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 26
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 778
- mri_label2label: Done
- PIDs (20699 20705 20711 20716 20721) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 20783 of (20783 20789 20795 20801 20806) to complete...
- Waiting for PID 20789 of (20783 20789 20795 20801 20806) to complete...
- Waiting for PID 20795 of (20783 20789 20795 20801 20806) to complete...
- Waiting for PID 20801 of (20783 20789 20795 20801 20806) to complete...
- Waiting for PID 20806 of (20783 20789 20795 20801 20806) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 454
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 1330
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 915
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 3603
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 200
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1898
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 770
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2953
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 452
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1840
- mri_label2label: Done
- PIDs (20783 20789 20795 20801 20806) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 20855 of (20855 20861 20867 20872) to complete...
- Waiting for PID 20861 of (20855 20861 20867 20872) to complete...
- Waiting for PID 20867 of (20855 20861 20867 20872) to complete...
- Waiting for PID 20872 of (20855 20861 20867 20872) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 355
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1844
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 2105
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 9064
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 315
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1327
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 369
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1547
- mri_label2label: Done
- PIDs (20855 20861 20867 20872) 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 0050184 --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 0050184 --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 0050184 --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 0050184 --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 0050184 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 20932 of (20932 20938 20944 20950 20956) to complete...
- Waiting for PID 20938 of (20932 20938 20944 20950 20956) to complete...
- Waiting for PID 20944 of (20932 20938 20944 20950 20956) to complete...
- Waiting for PID 20950 of (20932 20938 20944 20950 20956) to complete...
- Waiting for PID 20956 of (20932 20938 20944 20950 20956) 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 1900
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 5132
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 2198
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 5635
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 166
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 434
- 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 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 50
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 744
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject 0050184 --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 = 0050184
- 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-6.0.0/0050184/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561
- Number of reverse mapping hits = 6
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 297
- mri_label2label: Done
- PIDs (20932 20938 20944 20950 20956) completed and logs appended.
- mris_label2annot --s 0050184 --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-6.0.0/0050184/label
- cmdline mris_label2annot --s 0050184 --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-555
- machine x86_64
- user ntraut
- subject 0050184
- 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-6.0.0/0050184/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 117966 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.BA_exvivo.annot
- mris_label2annot --s 0050184 --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-6.0.0/0050184/label
- cmdline mris_label2annot --s 0050184 --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-555
- machine x86_64
- user ntraut
- subject 0050184
- 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-6.0.0/0050184/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 143513 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 345861
- Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1691 989 2965 2.251 0.671 0.174 0.094 53 7.0 BA1_exvivo
- 5408 3480 8744 2.356 0.521 0.130 0.045 83 10.6 BA2_exvivo
- 1640 1040 1568 1.826 0.433 0.139 0.055 26 4.0 BA3a_exvivo
- 3328 2068 4520 1.905 0.551 0.143 0.069 70 9.9 BA3b_exvivo
- 2465 1487 4373 2.560 0.609 0.136 0.057 39 6.5 BA4a_exvivo
- 1894 1166 2612 2.317 0.504 0.128 0.058 29 4.5 BA4p_exvivo
- 12177 8166 28455 2.804 0.683 0.137 0.049 180 23.9 BA6_exvivo
- 5195 3523 10182 2.568 0.619 0.133 0.044 72 9.0 BA44_exvivo
- 4924 3478 11385 2.520 0.670 0.146 0.048 103 10.0 BA45_exvivo
- 5055 3308 7459 2.085 0.620 0.152 0.053 79 11.9 V1_exvivo
- 10750 7152 17215 2.261 0.654 0.154 0.046 184 19.5 V2_exvivo
- 3201 2131 6139 2.658 0.484 0.129 0.033 41 4.4 MT_exvivo
- 572 372 1605 2.814 0.880 0.141 0.070 10 1.7 perirhinal_exvivo
- 295 201 554 2.485 0.623 0.094 0.023 2 0.2 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 0050184 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 345861
- Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 )
- lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330
- rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386
- lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073
- rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462
- SubCortGMVol 69394.000
- SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428
- SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432
- BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270
- BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064
- BrainSegVolNotVent 1432157.000
- CerebellumVol 163847.000
- VentChorVol 9855.000
- 3rd4th5thCSF 4797.000
- CSFVol 892.000, OptChiasmVol 240.000
- MaskVol 1935358.000
- 1204 706 1948 2.154 0.610 0.180 0.097 39 5.3 BA1_exvivo
- 3206 2026 5534 2.352 0.557 0.139 0.057 63 8.1 BA2_exvivo
- 1362 882 1224 1.848 0.422 0.131 0.042 16 2.3 BA3a_exvivo
- 2566 1626 3043 1.772 0.434 0.141 0.066 48 7.5 BA3b_exvivo
- 1588 931 2557 2.478 0.641 0.131 0.052 23 3.9 BA4a_exvivo
- 1528 974 2150 2.349 0.513 0.126 0.055 21 3.3 BA4p_exvivo
- 7925 5283 18453 2.795 0.669 0.140 0.052 123 16.3 BA6_exvivo
- 1158 811 2780 2.710 0.677 0.158 0.061 25 2.8 BA44_exvivo
- 1372 985 3497 2.598 0.576 0.154 0.050 29 2.7 BA45_exvivo
- 4798 3161 6890 2.080 0.598 0.149 0.050 73 10.7 V1_exvivo
- 5381 3685 8446 2.108 0.676 0.166 0.055 98 11.8 V2_exvivo
- 426 282 1178 2.881 0.596 0.150 0.043 8 0.8 MT_exvivo
- 339 224 1008 2.926 0.799 0.131 0.044 3 0.6 perirhinal_exvivo
- 195 138 346 2.491 0.517 0.082 0.014 1 0.1 entorhinal_exvivo
- Started at Sat Oct 7 18:45:48 CEST 2017
- Ended at Sun Oct 8 11:47:02 CEST 2017
- #@#%# recon-all-run-time-hours 17.021
- recon-all -s 0050184 finished without error at Sun Oct 8 11:47:02 CEST 2017
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