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- Sat Oct 7 16:24:22 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0050774 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050774/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0050774
- 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-916 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: 66074808 57415432 8659376 1755812 0 53757024
- -/+ buffers/cache: 3658408 62416400
- Swap: 0 0 0
- ########################################
- program versions used
- $Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
- $Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
- mri_convert.bin -all-info
- ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- FLIRT version 5.5
- $Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
- mri_convert.bin --version
- stable6
- ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- Program nu_correct, built from:
- Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
- ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $
- ProgramName: mri_robust_register.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $
- ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:24:23-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-916 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-6.0.0/0050774
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050774/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050774/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/orig/001.mgz
- $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
- reading from /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050774/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-6.0.0/0050774/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 16:24:26 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/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-6.0.0/0050774/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 16:24:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/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-916 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 16:24:35 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.24071
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.24071/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.24071/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.24071/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:24:37 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.24071/nu0.mnc ./tmp.mri_nu_correct.mni.24071/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.24071/0/ -iterations 1000 -distance 50
- [ntraut@tars-916:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/] [2017-10-07 16:24:37] 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.24071/0/ ./tmp.mri_nu_correct.mni.24071/nu0.mnc ./tmp.mri_nu_correct.mni.24071/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 23
- CV of field change: 0.000951993
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.24071/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.24071/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.24071/nu1.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- changing data type from float to uchar (noscale = 0)...
- MRIchangeType: Building histogram
- writing to orig_nu.mgz...
-
-
- Sat Oct 7 16:25:31 CEST 2017
- mri_nu_correct.mni done
- talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm
- talairach_avi log file is transforms/talairach_avi.log...
- Started at Sat Oct 7 16:25:31 CEST 2017
- Ended at Sat Oct 7 16:26:06 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 16:26:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7588, pval=0.6675 >= threshold=0.0050)
- awk -f /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/transforms/talairach_avi.log
- TalAviQA: 0.97611
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 16:26:08 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-6.0.0/0050774/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-916 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 16:26:08 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.24624
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.24624/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.24624/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.24624/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:26:11 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.24624/nu0.mnc ./tmp.mri_nu_correct.mni.24624/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.24624/0/
- [ntraut@tars-916:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/] [2017-10-07 16:26:11] 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.24624/0/ ./tmp.mri_nu_correct.mni.24624/nu0.mnc ./tmp.mri_nu_correct.mni.24624/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 23
- CV of field change: 0.000997999
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 16:26:54 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.24624/nu1.mnc ./tmp.mri_nu_correct.mni.24624/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.24624/1/
- [ntraut@tars-916:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/] [2017-10-07 16:26:54] running:
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.24624/1/ ./tmp.mri_nu_correct.mni.24624/nu1.mnc ./tmp.mri_nu_correct.mni.24624/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 16
- CV of field change: 0.000961523
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.24624/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.24624/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-6.0.0/0050774/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.24624/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.24624/ones.mgz
- sysname Linux
- hostname tars-916
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.24624/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.24624/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.24624/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.24624/sum.junk --avgwf ./tmp.mri_nu_correct.mni.24624/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.24624/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.24624/sum.junk --avgwf ./tmp.mri_nu_correct.mni.24624/input.mean.dat
- sysname Linux
- hostname tars-916
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.24624/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.24624/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.24624/ones.mgz --i ./tmp.mri_nu_correct.mni.24624/nu2.mnc --sum ./tmp.mri_nu_correct.mni.24624/sum.junk --avgwf ./tmp.mri_nu_correct.mni.24624/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.24624/ones.mgz --i ./tmp.mri_nu_correct.mni.24624/nu2.mnc --sum ./tmp.mri_nu_correct.mni.24624/sum.junk --avgwf ./tmp.mri_nu_correct.mni.24624/output.mean.dat
- sysname Linux
- hostname tars-916
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.24624/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.24624/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.24624/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.24624/nu2.mnc ./tmp.mri_nu_correct.mni.24624/nu2.mnc mul 1.03524903980233383076
- Saving result to './tmp.mri_nu_correct.mni.24624/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.24624/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.24624/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.24624/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 8 seconds.
- mapping ( 3, 108) to ( 3, 110)
-
-
- Sat Oct 7 16:28:02 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 16:28:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_normalize -g 1 -mprage nu.mgz T1.mgz
- using max gradient = 1.000
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- reading from nu.mgz...
- normalizing image...
- talairach transform
- 1.04720 -0.02954 -0.05107 -3.84226;
- 0.04123 1.00340 0.22192 -18.63402;
- 0.01587 -0.11880 1.07536 3.51031;
- 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 = 16
- Starting OpenSpline(): npoints = 16
- 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 110
- gm peak at 52 (52), valley at 17 (17)
- csf peak at 26, setting threshold to 43
- 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 49 (49), valley at 23 (23)
- csf peak at 25, setting threshold to 41
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 2 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 16:30:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mri_em_register.skull.dat -skull nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta
- aligning to atlas containing skull, setting unknown_nbr_spacing = 5
- == Number of threads available to mri_em_register for OpenMP = 2 ==
- reading 1 input volumes...
- logging results to talairach_with_skull.log
- reading '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca'...
- average std = 22.9 using min determinant for regularization = 52.6
- 0 singular and 9002 ill-conditioned covariance matrices regularized
- reading 'nu.mgz'...
- freeing gibbs priors...done.
- accounting for voxel sizes in initial transform
- bounding unknown intensity as < 8.7 or > 569.1
- total sample mean = 77.6 (1399 zeros)
- ************************************************
- spacing=8, using 3243 sample points, tol=1.00e-05...
- ************************************************
- register_mri: find_optimal_transform
- find_optimal_transform: nsamples 3243, passno 0, spacing 8
- resetting wm mean[0]: 100 --> 108
- resetting gm mean[0]: 61 --> 61
- input volume #1 is the most T1-like
- using real data threshold=6.0
- skull bounding box = (48, 35, 29) --> (207, 185, 229)
- using (101, 85, 129) as brain centroid...
- mean wm in atlas = 108, using box (81,67,104) --> (120, 103,153) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 109 +- 4.7
- after smoothing, mri peak at 109, scaling input intensities by 0.991
- scaling channel 0 by 0.990826
- initial log_p = -4.465
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.322373 @ (-9.091, 9.091, -27.273)
- max log p = -4.231365 @ (4.545, -4.545, 13.636)
- max log p = -4.156407 @ (2.273, 2.273, -6.818)
- max log p = -4.140484 @ (1.136, 5.682, -1.136)
- max log p = -4.121600 @ (0.568, -5.114, 5.114)
- max log p = -4.121600 @ (0.000, 0.000, 0.000)
- Found translation: (-0.6, 7.4, -16.5): log p = -4.122
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.847, old_max_log_p =-4.122 (thresh=-4.1)
- 1.06375 0.00000 0.00000 -8.56520;
- 0.00000 1.19413 0.27823 -46.72612;
- 0.00000 -0.31997 1.03837 21.76173;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.844, old_max_log_p =-3.847 (thresh=-3.8)
- 1.06375 0.00000 0.00000 -8.56520;
- 0.00000 1.10457 0.25736 -32.55861;
- 0.00000 -0.34396 1.11625 7.57462;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 2 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.709, old_max_log_p =-3.844 (thresh=-3.8)
- 1.08311 -0.01104 0.03581 -16.06011;
- 0.00000 1.12450 0.26201 -35.71199;
- -0.03415 -0.32468 1.05368 21.32949;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.709, old_max_log_p =-3.709 (thresh=-3.7)
- 1.08311 -0.01104 0.03581 -16.06011;
- 0.00000 1.12450 0.26201 -35.71199;
- -0.03415 -0.32468 1.05368 21.32949;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 4 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.697, old_max_log_p =-3.709 (thresh=-3.7)
- 1.07972 -0.00600 0.01843 -13.10180;
- 0.00056 1.13098 0.24502 -33.96085;
- -0.01638 -0.30566 1.05579 15.89080;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.691, old_max_log_p =-3.697 (thresh=-3.7)
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13098 0.24502 -33.96085;
- -0.03393 -0.30445 1.05164 18.48693;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.689, old_max_log_p =-3.691 (thresh=-3.7)
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 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
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.689 (old=-4.465)
- transform before final EM align:
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 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
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.2 tol 0.000000
- final transform:
- 1.07678 -0.01098 0.03562 -14.31124;
- 0.00056 1.13231 0.24531 -34.16726;
- -0.03389 -0.30409 1.05040 18.59551;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1194.994333
- mri_em_register stimesec 1.128828
- mri_em_register ru_maxrss 611868
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 157597
- 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 104
- mri_em_register ru_nivcsw 3257
- registration took 10 minutes and 23 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mri_watershed.dat -T1 -brain_atlas /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz
- Mode: T1 normalized volume
- Mode: Use the information of atlas (default parms, --help for details)
- *********************************************************
- The input file is T1.mgz
- The output file is brainmask.auto.mgz
- Weighting the input with atlas information before watershed
- *************************WATERSHED**************************
- Sorting...
- first estimation of the COG coord: x=127 y=103 z=125 r=67
- first estimation of the main basin volume: 1302327 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 18 found in the rest of the brain
- global maximum in x=105, y=88, z=94, Imax=255
- CSF=18, 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=9826182564 voxels, voxel volume =1.000
- = 9826182564 mmm3 = 9826182.144 cm3
- done.
- PostAnalyze...Basin Prior
- 212 basins merged thanks to atlas
- ***** 0 basin(s) merged in 1 iteration(s)
- ***** 0 voxel(s) added to the main basin
- done.
- Weighting the input with prior template
- ****************TEMPLATE DEFORMATION****************
- second estimation of the COG coord: x=127,y=110, z=119, r=10065 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=41 , nb = 45856
- RIGHT_CER CSF_MIN=0, CSF_intensity=6, CSF_MAX=38 , nb = -1032241422
- LEFT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=30 , nb = -1067682846
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=45 , nb = 1082705222
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=37 , nb = 1075799210
- OTHER CSF_MIN=0, CSF_intensity=12, CSF_MAX=56 , nb = 1077386594
- Problem with the least square interpolation in GM_MIN calculation.
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 41, 33, 30, 45
- after analyzing : 26, 33, 33, 36
- RIGHT_CER
- before analyzing : 38, 31, 28, 47
- after analyzing : 22, 31, 31, 35
- LEFT_CER
- before analyzing : 30, 27, 24, 55
- after analyzing : 19, 27, 27, 34
- RIGHT_BRAIN
- before analyzing : 45, 34, 30, 44
- after analyzing : 27, 34, 34, 36
- LEFT_BRAIN
- before analyzing : 37, 32, 30, 45
- after analyzing : 25, 32, 32, 35
- OTHER
- before analyzing : 56, 76, 82, 95
- after analyzing : 56, 80, 82, 83
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...63 iterations
- *********************VALIDATION*********************
- curvature mean = -0.012, std = 0.012
- curvature mean = 71.685, std = 8.186
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 2.14, sigma = 3.38
- after rotation: sse = 2.14, sigma = 3.38
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 2.15, its var is 2.57
- before Erosion-Dilatation 0.08% 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...34 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1745924 voxels, voxel volume = 1.000 mm3
- = 1745924 mmm3 = 1745.924 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 22.083642
- mri_watershed stimesec 0.396939
- mri_watershed ru_maxrss 823888
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 213311
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 0
- mri_watershed ru_oublock 2848
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1068
- mri_watershed ru_nivcsw 47
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 16:40:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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=23.0
- skull bounding box = (56, 49, 45) --> (198, 178, 214)
- using (103, 92, 130) as brain centroid...
- mean wm in atlas = 107, using box (86,76,109) --> (120, 107,150) to find MRI wm
- before smoothing, mri peak at 110
- robust fit to distribution - 109 +- 4.7
- after smoothing, mri peak at 109, scaling input intensities by 0.982
- scaling channel 0 by 0.981651
- initial log_p = -4.316
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -3.992566 @ (-9.091, 9.091, -27.273)
- max log p = -3.794109 @ (4.545, 4.545, 13.636)
- max log p = -3.600174 @ (2.273, -2.273, -2.273)
- max log p = -3.578632 @ (1.136, -3.409, -3.409)
- max log p = -3.571891 @ (-0.568, 3.977, 1.705)
- max log p = -3.559395 @ (0.284, -1.420, 0.284)
- Found translation: (-1.4, 10.5, -17.3): log p = -3.559
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.427, old_max_log_p =-3.559 (thresh=-3.6)
- 1.00000 0.00000 0.00000 -1.42046;
- 0.00000 1.14016 0.13053 -20.76044;
- 0.00000 -0.15011 0.99144 0.04903;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.427, old_max_log_p =-3.427 (thresh=-3.4)
- 1.00000 0.00000 0.00000 -1.42046;
- 0.00000 1.14016 0.13053 -20.76044;
- 0.00000 -0.15011 0.99144 0.04903;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 2 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.256, old_max_log_p =-3.427 (thresh=-3.4)
- 1.01696 -0.04005 0.02778 -2.52747;
- 0.03456 1.11722 0.12900 -24.37798;
- -0.03395 -0.15002 0.99091 8.20390;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.256, old_max_log_p =-3.256 (thresh=-3.3)
- 1.01696 -0.04005 0.02778 -2.52747;
- 0.03456 1.11722 0.12900 -24.37798;
- -0.03395 -0.15002 0.99091 8.20390;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 4 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.204, old_max_log_p =-3.256 (thresh=-3.3)
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01730 1.11379 0.14468 -23.67085;
- -0.02609 -0.16821 0.98655 9.27204;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.199, old_max_log_p =-3.204 (thresh=-3.2)
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.199, old_max_log_p =-3.199 (thresh=-3.2)
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- min search scale 0.025000 reached
- ***********************************************
- Computing MAP estimate using 2830 samples...
- ***********************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-05
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.199 (old=-4.316)
- transform before final EM align:
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- **************************************************
- EM alignment process ...
- Computing final MAP estimate using 315557 samples.
- **************************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-07
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.01881 -0.02050 0.02212 -3.78201;
- 0.01726 1.11118 0.14434 -23.33578;
- -0.02602 -0.16782 0.98424 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- dfp_em_step_func: 010: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 011: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 012: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 013: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 014: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 015: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 016: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 017: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- dfp_em_step_func: 018: -log(p) = 3.8
- after pass:transform: ( 1.02, -0.02, 0.02, -3.78)
- ( 0.02, 1.11, 0.14, -23.34)
- ( -0.03, -0.17, 0.98, 9.50)
- pass 2 through quasi-newton minimization...
- outof QuasiNewtonEMA: 020: -log(p) = 3.8 tol 0.000000
- final transform:
- 1.01920 -0.02020 0.02256 -3.78201;
- 0.01747 1.11138 0.14457 -23.33578;
- -0.02584 -0.16765 0.98440 9.49745;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1050.007374
- mri_em_register stimesec 1.204816
- mri_em_register ru_maxrss 599052
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 159461
- mri_em_register ru_majflt 1
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 2864
- 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 127
- mri_em_register ru_nivcsw 2851
- registration took 9 minutes and 12 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 16:50:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta norm.mgz
- writing control point volume to ctrl_pts.mgz
- using MR volume brainmask.mgz to mask input volume...
- reading 1 input volume
- reading atlas from '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'...
- reading transform from 'transforms/talairach.lta'...
- reading input volume from nu.mgz...
- resetting wm mean[0]: 98 --> 107
- resetting gm mean[0]: 61 --> 61
- input volume #1 is the most T1-like
- using real data threshold=23.0
- skull bounding box = (56, 49, 44) --> (198, 178, 214)
- using (103, 92, 129) as brain centroid...
- mean wm in atlas = 107, using box (86,76,108) --> (120, 107,149) to find MRI wm
- before smoothing, mri peak at 110
- robust fit to distribution - 109 +- 4.7
- after smoothing, mri peak at 109, scaling input intensities by 0.982
- scaling channel 0 by 0.981651
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.01920 -0.02020 0.02256 -3.78201;
- 0.01747 1.11138 0.14457 -23.33578;
- -0.02584 -0.16765 0.98440 9.49745;
- 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 (128, 50, 42) --> (192, 154, 210)
- Left_Cerebral_White_Matter: limiting intensities to 96.0 --> 132.0
- 0 of 1403 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (64, 53, 40) --> (128, 156, 209)
- Right_Cerebral_White_Matter: limiting intensities to 97.0 --> 132.0
- 0 of 1338 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (130, 131, 69) --> (177, 169, 124)
- Left_Cerebellum_White_Matter: limiting intensities to 107.0 --> 132.0
- 7 of 9 (77.8%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (85, 131, 66) --> (129, 168, 124)
- Right_Cerebellum_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 23 (0.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (112, 121, 105) --> (145, 184, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 0 of 8 (0.0%) samples deleted
- using 2781 total control points for intensity normalization...
- bias field = 0.990 +- 0.041
- 21 of 2774 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (128, 50, 42) --> (192, 154, 210)
- Left_Cerebral_White_Matter: limiting intensities to 91.0 --> 132.0
- 0 of 1796 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (64, 53, 40) --> (128, 156, 209)
- Right_Cerebral_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 1658 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (130, 131, 69) --> (177, 169, 124)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 15 of 65 (23.1%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (85, 131, 66) --> (129, 168, 124)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 3 of 60 (5.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (112, 121, 105) --> (145, 184, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 24 of 76 (31.6%) samples deleted
- using 3655 total control points for intensity normalization...
- bias field = 1.026 +- 0.046
- 25 of 3551 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (128, 50, 42) --> (192, 154, 210)
- Left_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0
- 6 of 1825 (0.3%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (64, 53, 40) --> (128, 156, 209)
- Right_Cerebral_White_Matter: limiting intensities to 91.0 --> 132.0
- 1 of 1734 (0.1%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (130, 131, 69) --> (177, 169, 124)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 50 of 96 (52.1%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (85, 131, 66) --> (129, 168, 124)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 34 of 92 (37.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (112, 121, 105) --> (145, 184, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 140 of 185 (75.7%) samples deleted
- using 3932 total control points for intensity normalization...
- bias field = 1.029 +- 0.039
- 11 of 3646 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 46 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 16:51:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mri_ca_register.dat -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.m3z
- not handling expanded ventricles...
- using previously computed transform transforms/talairach.lta
- renormalizing sequences with structure alignment, equivalent to:
- -renormalize
- -regularize_mean 0.500
- -regularize 0.500
- using MR volume brainmask.mgz to mask input volume...
- == Number of threads available to mri_ca_register for OpenMP = 2 ==
- reading 1 input volumes...
- logging results to talairach.log
- reading input volume 'norm.mgz'...
- reading GCA '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'...
- label assignment complete, 0 changed (0.00%)
- det(m_affine) = 1.14 (predicted orig area = 7.0)
- label assignment complete, 0 changed (0.00%)
- freeing gibbs priors...done.
- average std[0] = 5.0
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.039
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.849, neg=0, invalid=762
- 0001: dt=252.935211, rms=0.808 (4.824%), neg=0, invalid=762
- 0002: dt=173.917460, rms=0.790 (2.242%), neg=0, invalid=762
- 0003: dt=295.936000, rms=0.778 (1.512%), neg=0, invalid=762
- 0004: dt=131.270073, rms=0.772 (0.678%), neg=0, invalid=762
- 0005: dt=887.808000, rms=0.761 (1.517%), neg=0, invalid=762
- 0006: dt=129.472000, rms=0.757 (0.510%), neg=0, invalid=762
- 0007: dt=443.904000, rms=0.754 (0.321%), neg=0, invalid=762
- 0008: dt=129.472000, rms=0.753 (0.242%), neg=0, invalid=762
- 0009: dt=129.472000, rms=0.752 (0.097%), neg=0, invalid=762
- 0010: dt=129.472000, rms=0.751 (0.169%), neg=0, invalid=762
- 0011: dt=129.472000, rms=0.749 (0.246%), neg=0, invalid=762
- 0012: dt=129.472000, rms=0.746 (0.299%), neg=0, invalid=762
- 0013: dt=129.472000, rms=0.744 (0.313%), neg=0, invalid=762
- 0014: dt=129.472000, rms=0.742 (0.300%), neg=0, invalid=762
- 0015: dt=129.472000, rms=0.740 (0.275%), neg=0, invalid=762
- 0016: dt=129.472000, rms=0.738 (0.264%), neg=0, invalid=762
- 0017: dt=129.472000, rms=0.736 (0.235%), neg=0, invalid=762
- 0018: dt=129.472000, rms=0.735 (0.206%), neg=0, invalid=762
- 0019: dt=129.472000, rms=0.733 (0.197%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.732 (0.177%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.731 (0.181%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.729 (0.182%), neg=0, invalid=762
- 0023: dt=129.472000, rms=0.728 (0.180%), neg=0, invalid=762
- 0024: dt=129.472000, rms=0.727 (0.176%), neg=0, invalid=762
- 0025: dt=129.472000, rms=0.725 (0.175%), neg=0, invalid=762
- 0026: dt=129.472000, rms=0.724 (0.173%), neg=0, invalid=762
- 0027: dt=129.472000, rms=0.723 (0.162%), neg=0, invalid=762
- 0028: dt=129.472000, rms=0.722 (0.144%), neg=0, invalid=762
- 0029: dt=129.472000, rms=0.721 (0.134%), neg=0, invalid=762
- 0030: dt=129.472000, rms=0.720 (0.118%), neg=0, invalid=762
- 0031: dt=129.472000, rms=0.719 (0.106%), neg=0, invalid=762
- 0032: dt=517.888000, rms=0.719 (0.020%), neg=0, invalid=762
- 0033: dt=517.888000, rms=0.719 (-0.119%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.720, neg=0, invalid=762
- 0034: dt=295.936000, rms=0.718 (0.202%), neg=0, invalid=762
- 0035: dt=221.952000, rms=0.718 (0.026%), neg=0, invalid=762
- 0036: dt=221.952000, rms=0.718 (0.036%), neg=0, invalid=762
- 0037: dt=221.952000, rms=0.718 (0.030%), neg=0, invalid=762
- 0038: dt=221.952000, rms=0.718 (0.028%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.723, neg=0, invalid=762
- 0039: dt=202.877470, rms=0.713 (1.399%), neg=0, invalid=762
- 0040: dt=161.323601, rms=0.703 (1.408%), neg=0, invalid=762
- 0041: dt=62.208000, rms=0.699 (0.617%), neg=0, invalid=762
- 0042: dt=497.664000, rms=0.689 (1.392%), neg=0, invalid=762
- 0043: dt=62.208000, rms=0.683 (0.955%), neg=0, invalid=762
- 0044: dt=331.776000, rms=0.677 (0.754%), neg=0, invalid=762
- 0045: dt=36.288000, rms=0.675 (0.279%), neg=0, invalid=762
- 0046: dt=36.288000, rms=0.675 (0.073%), neg=0, invalid=762
- 0047: dt=36.288000, rms=0.675 (0.047%), neg=0, invalid=762
- 0048: dt=36.288000, rms=0.674 (0.077%), neg=0, invalid=762
- 0049: dt=36.288000, rms=0.673 (0.119%), neg=0, invalid=762
- 0050: dt=36.288000, rms=0.672 (0.191%), neg=0, invalid=762
- 0051: dt=36.288000, rms=0.670 (0.264%), neg=0, invalid=762
- 0052: dt=36.288000, rms=0.668 (0.310%), neg=0, invalid=762
- 0053: dt=36.288000, rms=0.666 (0.323%), neg=0, invalid=762
- 0054: dt=36.288000, rms=0.664 (0.316%), neg=0, invalid=762
- 0055: dt=36.288000, rms=0.662 (0.301%), neg=0, invalid=762
- 0056: dt=36.288000, rms=0.660 (0.279%), neg=0, invalid=762
- 0057: dt=36.288000, rms=0.658 (0.254%), neg=0, invalid=762
- 0058: dt=36.288000, rms=0.657 (0.236%), neg=0, invalid=762
- 0059: dt=36.288000, rms=0.655 (0.230%), neg=0, invalid=762
- 0060: dt=36.288000, rms=0.654 (0.223%), neg=0, invalid=762
- 0061: dt=36.288000, rms=0.653 (0.216%), neg=0, invalid=762
- 0062: dt=36.288000, rms=0.651 (0.212%), neg=0, invalid=762
- 0063: dt=36.288000, rms=0.650 (0.196%), neg=0, invalid=762
- 0064: dt=36.288000, rms=0.649 (0.173%), neg=0, invalid=762
- 0065: dt=36.288000, rms=0.648 (0.155%), neg=0, invalid=762
- 0066: dt=36.288000, rms=0.647 (0.133%), neg=0, invalid=762
- 0067: dt=36.288000, rms=0.646 (0.111%), neg=0, invalid=762
- 0068: dt=36.288000, rms=0.645 (0.102%), neg=0, invalid=762
- 0069: dt=145.152000, rms=0.645 (0.024%), neg=0, invalid=762
- 0070: dt=145.152000, rms=0.645 (-0.006%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.646, neg=0, invalid=762
- 0071: dt=74.520548, rms=0.645 (0.273%), neg=0, invalid=762
- 0072: dt=36.288000, rms=0.644 (0.011%), neg=0, invalid=762
- 0073: dt=36.288000, rms=0.644 (-0.006%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.668, neg=0, invalid=762
- 0074: dt=0.000000, rms=0.667 (0.129%), neg=0, invalid=762
- 0075: dt=0.000000, rms=0.667 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.668, neg=0, invalid=762
- 0076: dt=0.000000, rms=0.667 (0.129%), neg=0, invalid=762
- 0077: dt=0.000000, rms=0.667 (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=0.737, neg=0, invalid=762
- 0078: dt=5.088889, rms=0.718 (2.520%), neg=0, invalid=762
- 0079: dt=2.270270, rms=0.718 (0.106%), neg=0, invalid=762
- 0080: dt=2.270270, rms=0.718 (-0.034%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.718, neg=0, invalid=762
- 0081: dt=0.000000, rms=0.718 (0.102%), neg=0, invalid=762
- 0082: dt=0.000000, rms=0.718 (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=0.786, neg=0, invalid=762
- 0083: dt=1.792000, rms=0.779 (0.895%), neg=0, invalid=762
- 0084: dt=2.063415, rms=0.772 (0.986%), neg=0, invalid=762
- 0085: dt=0.384000, rms=0.771 (0.052%), neg=0, invalid=762
- 0086: dt=0.384000, rms=0.771 (0.013%), neg=0, invalid=762
- 0087: dt=0.384000, rms=0.771 (-0.015%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.772, neg=0, invalid=762
- 0088: dt=1.280000, rms=0.770 (0.242%), neg=0, invalid=762
- 0089: dt=1.536000, rms=0.769 (0.116%), neg=0, invalid=762
- 0090: dt=1.536000, rms=0.769 (0.020%), neg=0, invalid=762
- 0091: dt=1.536000, rms=0.769 (-0.078%), 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=0.731, neg=0, invalid=762
- 0092: dt=0.984749, rms=0.705 (3.636%), neg=0, invalid=762
- 0093: dt=0.096000, rms=0.704 (0.174%), neg=0, invalid=762
- 0094: dt=0.096000, rms=0.704 (-0.130%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.704, neg=0, invalid=762
- 0095: dt=0.028000, rms=0.704 (0.105%), neg=0, invalid=762
- 0096: dt=0.001750, rms=0.704 (0.001%), neg=0, invalid=762
- 0097: dt=0.001750, rms=0.704 (0.001%), neg=0, invalid=762
- 0098: dt=0.001750, rms=0.704 (-0.000%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.23283 ( 5)
- Left_Lateral_Ventricle (4): linear fit = 0.23 x + 0.0 (689 voxels, overlap=0.005)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (689 voxels, peak = 5), gca=8.0
- gca peak = 0.15565 (16)
- mri peak = 0.13923 ( 5)
- Right_Lateral_Ventricle (43): linear fit = 0.28 x + 0.0 (663 voxels, overlap=0.111)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (663 voxels, peak = 4), gca=6.4
- gca peak = 0.26829 (96)
- mri peak = 0.07317 (77)
- Right_Pallidum (52): linear fit = 0.89 x + 0.0 (732 voxels, overlap=0.105)
- Right_Pallidum (52): linear fit = 0.89 x + 0.0 (732 voxels, peak = 86), gca=85.9
- gca peak = 0.20183 (93)
- mri peak = 0.05993 (76)
- Left_Pallidum (13): linear fit = 0.85 x + 0.0 (660 voxels, overlap=0.228)
- Left_Pallidum (13): linear fit = 0.85 x + 0.0 (660 voxels, peak = 79), gca=78.6
- gca peak = 0.21683 (55)
- mri peak = 0.09434 (54)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (647 voxels, overlap=0.989)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (647 voxels, peak = 50), gca=50.3
- gca peak = 0.30730 (58)
- mri peak = 0.13235 (53)
- Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (593 voxels, overlap=0.859)
- Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (593 voxels, peak = 52), gca=51.9
- gca peak = 0.11430 (101)
- mri peak = 0.11190 (104)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (59860 voxels, overlap=0.687)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (59860 voxels, peak = 104), gca=103.5
- gca peak = 0.12076 (102)
- mri peak = 0.13360 (104)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (61235 voxels, overlap=0.656)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (61235 voxels, peak = 105), gca=104.5
- gca peak = 0.14995 (59)
- mri peak = 0.06418 (52)
- Left_Cerebral_Cortex (3): linear fit = 0.83 x + 0.0 (20828 voxels, overlap=0.316)
- Left_Cerebral_Cortex (3): linear fit = 0.83 x + 0.0 (20828 voxels, peak = 49), gca=49.3
- gca peak = 0.15082 (58)
- mri peak = 0.06997 (52)
- Right_Cerebral_Cortex (42): linear fit = 0.85 x + 0.0 (19977 voxels, overlap=0.222)
- Right_Cerebral_Cortex (42): linear fit = 0.85 x + 0.0 (19977 voxels, peak = 49), gca=49.0
- gca peak = 0.14161 (67)
- mri peak = 0.08221 (58)
- Right_Caudate (50): linear fit = 0.86 x + 0.0 (781 voxels, overlap=0.037)
- Right_Caudate (50): linear fit = 0.86 x + 0.0 (781 voxels, peak = 57), gca=57.3
- gca peak = 0.15243 (71)
- mri peak = 0.09913 (59)
- Left_Caudate (11): linear fit = 0.81 x + 0.0 (853 voxels, overlap=0.085)
- Left_Caudate (11): linear fit = 0.81 x + 0.0 (853 voxels, peak = 58), gca=57.9
- gca peak = 0.13336 (57)
- mri peak = 0.05281 (47)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12228 voxels, overlap=0.964)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12228 voxels, peak = 54), gca=53.9
- gca peak = 0.13252 (56)
- mri peak = 0.04725 (54)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (11763 voxels, overlap=0.985)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (11763 voxels, peak = 53), gca=52.9
- gca peak = 0.18181 (84)
- mri peak = 0.05334 (85)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6433 voxels, overlap=0.893)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6433 voxels, peak = 88), gca=87.8
- gca peak = 0.20573 (83)
- mri peak = 0.06517 (86)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (5749 voxels, overlap=0.924)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (5749 voxels, peak = 88), gca=87.6
- gca peak = 0.21969 (57)
- mri peak = 0.09485 (56)
- Left_Amygdala (18): linear fit = 0.92 x + 0.0 (466 voxels, overlap=0.856)
- Left_Amygdala (18): linear fit = 0.92 x + 0.0 (466 voxels, peak = 52), gca=52.2
- gca peak = 0.39313 (56)
- mri peak = 0.09594 (50)
- Right_Amygdala (54): linear fit = 0.92 x + 0.0 (417 voxels, overlap=1.003)
- Right_Amygdala (54): linear fit = 0.92 x + 0.0 (417 voxels, peak = 51), gca=51.2
- gca peak = 0.14181 (85)
- mri peak = 0.05003 (87)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (5815 voxels, overlap=0.936)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (5815 voxels, peak = 86), gca=86.3
- gca peak = 0.11978 (83)
- mri peak = 0.06568 (84)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4596 voxels, overlap=0.929)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4596 voxels, peak = 84), gca=84.2
- gca peak = 0.13399 (79)
- mri peak = 0.07319 (68)
- Left_Putamen (12): linear fit = 0.87 x + 0.0 (1658 voxels, overlap=0.234)
- Left_Putamen (12): linear fit = 0.87 x + 0.0 (1658 voxels, peak = 68), gca=68.3
- gca peak = 0.14159 (79)
- mri peak = 0.07521 (63)
- Right_Putamen (51): linear fit = 0.83 x + 0.0 (2182 voxels, overlap=0.248)
- Right_Putamen (51): linear fit = 0.83 x + 0.0 (2182 voxels, peak = 66), gca=66.0
- gca peak = 0.10025 (80)
- mri peak = 0.10272 (83)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (11086 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (11086 voxels, peak = 88), gca=87.6
- gca peak = 0.13281 (86)
- mri peak = 0.07813 (89)
- Right_VentralDC (60): linear fit = 1.07 x + 0.0 (850 voxels, overlap=0.727)
- Right_VentralDC (60): linear fit = 1.07 x + 0.0 (850 voxels, peak = 92), gca=91.6
- gca peak = 0.12801 (89)
- mri peak = 0.06903 (90)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (923 voxels, overlap=0.850)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (923 voxels, peak = 92), gca=92.1
- gca peak = 0.20494 (23)
- uniform distribution in MR - rejecting arbitrary fit
- gca peak = 0.15061 (21)
- mri peak = 0.09647 (10)
- Fourth_Ventricle (15): linear fit = 0.38 x + 0.0 (261 voxels, overlap=0.036)
- Fourth_Ventricle (15): linear fit = 0.38 x + 0.0 (261 voxels, peak = 8), gca=7.9
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18056 (32)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak Third_Ventricle = 0.20494 (23)
- gca peak Fourth_Ventricle = 0.15061 (21)
- gca peak CSF = 0.20999 (34)
- gca peak Left_Accumbens_area = 0.39030 (62)
- gca peak Left_undetermined = 0.95280 (25)
- gca peak Left_vessel = 0.67734 (53)
- gca peak Left_choroid_plexus = 0.09433 (44)
- gca peak Right_Inf_Lat_Vent = 0.23544 (26)
- gca peak Right_Accumbens_area = 0.30312 (64)
- gca peak Right_vessel = 0.46315 (51)
- gca peak Right_choroid_plexus = 0.14086 (44)
- gca peak Fifth_Ventricle = 0.51669 (36)
- gca peak WM_hypointensities = 0.09722 (76)
- gca peak non_WM_hypointensities = 0.11899 (47)
- gca peak Optic_Chiasm = 0.39033 (72)
- label assignment complete, 0 changed (0.00%)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.89 x + 0.0
- estimating mean wm scale to be 1.02 x + 0.0
- estimating mean csf scale to be 0.40 x + 0.0
- saving intensity scales to talairach.label_intensities.txt
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.008
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.724, neg=0, invalid=762
- 0099: dt=142.167939, rms=0.718 (0.878%), neg=0, invalid=762
- 0100: dt=221.952000, rms=0.714 (0.523%), neg=0, invalid=762
- 0101: dt=110.976000, rms=0.713 (0.160%), neg=0, invalid=762
- 0102: dt=221.952000, rms=0.712 (0.201%), neg=0, invalid=762
- 0103: dt=92.480000, rms=0.711 (0.081%), neg=0, invalid=762
- 0104: dt=517.888000, rms=0.709 (0.284%), neg=0, invalid=762
- 0105: dt=73.984000, rms=0.709 (0.060%), neg=0, invalid=762
- 0106: dt=1775.616000, rms=0.706 (0.374%), neg=0, invalid=762
- 0107: dt=92.480000, rms=0.705 (0.164%), neg=0, invalid=762
- 0108: dt=221.952000, rms=0.705 (0.018%), neg=0, invalid=762
- 0109: dt=221.952000, rms=0.704 (0.062%), neg=0, invalid=762
- 0110: dt=221.952000, rms=0.704 (0.081%), neg=0, invalid=762
- 0111: dt=221.952000, rms=0.703 (0.072%), neg=0, invalid=762
- 0112: dt=221.952000, rms=0.702 (0.112%), neg=0, invalid=762
- 0113: dt=221.952000, rms=0.701 (0.120%), neg=0, invalid=762
- 0114: dt=221.952000, rms=0.701 (0.078%), neg=0, invalid=762
- 0115: dt=221.952000, rms=0.700 (0.091%), neg=0, invalid=762
- 0116: dt=221.952000, rms=0.700 (0.071%), neg=0, invalid=762
- 0117: dt=221.952000, rms=0.699 (0.055%), neg=0, invalid=762
- 0118: dt=221.952000, rms=0.699 (0.072%), neg=0, invalid=762
- 0119: dt=221.952000, rms=0.699 (0.051%), neg=0, invalid=762
- 0120: dt=221.952000, rms=0.698 (0.040%), neg=0, invalid=762
- 0121: dt=221.952000, rms=0.698 (0.054%), neg=0, invalid=762
- 0122: dt=221.952000, rms=0.698 (0.043%), neg=0, invalid=762
- 0123: dt=221.952000, rms=0.697 (0.045%), neg=0, invalid=762
- 0124: dt=221.952000, rms=0.697 (0.053%), neg=0, invalid=762
- 0125: dt=221.952000, rms=0.697 (0.039%), neg=0, invalid=762
- 0126: dt=221.952000, rms=0.696 (0.045%), neg=0, invalid=762
- 0127: dt=221.952000, rms=0.696 (0.059%), neg=0, invalid=762
- 0128: dt=221.952000, rms=0.696 (0.027%), neg=0, invalid=762
- 0129: dt=221.952000, rms=0.695 (0.031%), neg=0, invalid=762
- 0130: dt=221.952000, rms=0.695 (0.047%), neg=0, invalid=762
- 0131: dt=221.952000, rms=0.695 (0.037%), neg=0, invalid=762
- 0132: dt=221.952000, rms=0.695 (0.036%), neg=0, invalid=762
- 0133: dt=221.952000, rms=0.694 (0.042%), neg=0, invalid=762
- 0134: dt=221.952000, rms=0.694 (0.031%), neg=0, invalid=762
- 0135: dt=221.952000, rms=0.694 (0.032%), neg=0, invalid=762
- 0136: dt=221.952000, rms=0.694 (0.047%), neg=0, invalid=762
- 0137: dt=221.952000, rms=0.693 (0.037%), neg=0, invalid=762
- 0138: dt=221.952000, rms=0.693 (0.030%), neg=0, invalid=762
- 0139: dt=221.952000, rms=0.693 (0.041%), neg=0, invalid=762
- 0140: dt=221.952000, rms=0.693 (0.043%), neg=0, invalid=762
- 0141: dt=221.952000, rms=0.692 (0.039%), neg=0, invalid=762
- 0142: dt=221.952000, rms=0.692 (0.040%), neg=0, invalid=762
- 0143: dt=221.952000, rms=0.692 (0.040%), neg=0, invalid=762
- 0144: dt=221.952000, rms=0.691 (0.036%), neg=0, invalid=762
- 0145: dt=221.952000, rms=0.691 (0.038%), neg=0, invalid=762
- 0146: dt=221.952000, rms=0.691 (0.034%), neg=0, invalid=762
- 0147: dt=221.952000, rms=0.691 (0.021%), neg=0, invalid=762
- 0148: dt=221.952000, rms=0.691 (0.031%), neg=0, invalid=762
- 0149: dt=221.952000, rms=0.690 (0.032%), neg=0, invalid=762
- 0150: dt=221.952000, rms=0.690 (0.022%), neg=0, invalid=762
- 0151: dt=221.952000, rms=0.690 (0.031%), neg=0, invalid=762
- 0152: dt=221.952000, rms=0.690 (0.026%), neg=0, invalid=762
- 0153: dt=221.952000, rms=0.690 (0.019%), neg=0, invalid=762
- 0154: dt=221.952000, rms=0.689 (0.033%), neg=0, invalid=762
- 0155: dt=221.952000, rms=0.689 (0.018%), neg=0, invalid=762
- 0156: dt=221.952000, rms=0.689 (0.018%), neg=0, invalid=762
- 0157: dt=1183.744000, rms=0.689 (0.032%), neg=0, invalid=762
- 0158: dt=27.744000, rms=0.689 (0.002%), neg=0, invalid=762
- 0159: dt=27.744000, rms=0.689 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.690, neg=0, invalid=762
- 0160: dt=129.472000, rms=0.688 (0.221%), neg=0, invalid=762
- 0161: dt=369.920000, rms=0.688 (0.074%), neg=0, invalid=762
- 0162: dt=129.472000, rms=0.688 (0.025%), neg=0, invalid=762
- 0163: dt=129.472000, rms=0.687 (0.023%), neg=0, invalid=762
- 0164: dt=129.472000, rms=0.687 (0.029%), neg=0, invalid=762
- 0165: dt=129.472000, rms=0.687 (0.036%), neg=0, invalid=762
- 0166: dt=129.472000, rms=0.687 (0.034%), neg=0, invalid=762
- 0167: dt=129.472000, rms=0.686 (0.040%), neg=0, invalid=762
- 0168: dt=129.472000, rms=0.686 (0.036%), neg=0, invalid=762
- 0169: dt=129.472000, rms=0.686 (0.033%), neg=0, invalid=762
- 0170: dt=129.472000, rms=0.686 (0.033%), neg=0, invalid=762
- 0171: dt=129.472000, rms=0.686 (0.030%), neg=0, invalid=762
- 0172: dt=129.472000, rms=0.685 (0.026%), neg=0, invalid=762
- 0173: dt=129.472000, rms=0.685 (0.019%), neg=0, invalid=762
- 0174: dt=129.472000, rms=0.685 (0.017%), neg=0, invalid=762
- 0175: dt=369.920000, rms=0.685 (0.005%), neg=0, invalid=762
- 0176: dt=369.920000, rms=0.685 (-0.020%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.687, neg=0, invalid=762
- 0177: dt=88.705167, rms=0.683 (0.521%), neg=0, invalid=762
- 0178: dt=180.078431, rms=0.677 (0.896%), neg=0, invalid=762
- 0179: dt=44.255319, rms=0.674 (0.398%), neg=0, invalid=762
- 0180: dt=580.608000, rms=0.663 (1.682%), neg=0, invalid=762
- 0181: dt=78.861423, rms=0.660 (0.499%), neg=0, invalid=762
- 0182: dt=86.153846, rms=0.658 (0.183%), neg=0, invalid=762
- 0183: dt=103.680000, rms=0.657 (0.161%), neg=0, invalid=762
- 0184: dt=70.423792, rms=0.656 (0.230%), neg=0, invalid=762
- 0185: dt=62.208000, rms=0.655 (0.095%), neg=0, invalid=762
- 0186: dt=145.152000, rms=0.653 (0.293%), neg=0, invalid=762
- 0187: dt=36.288000, rms=0.653 (0.073%), neg=0, invalid=762
- 0188: dt=580.608000, rms=0.648 (0.710%), neg=0, invalid=762
- 0189: dt=36.288000, rms=0.646 (0.264%), neg=0, invalid=762
- 0190: dt=145.152000, rms=0.645 (0.181%), neg=0, invalid=762
- 0191: dt=36.288000, rms=0.645 (0.057%), neg=0, invalid=762
- 0192: dt=1658.880000, rms=0.640 (0.778%), neg=0, invalid=762
- 0193: dt=68.363636, rms=0.635 (0.756%), neg=0, invalid=762
- 0194: dt=65.613445, rms=0.634 (0.213%), neg=0, invalid=762
- 0195: dt=124.416000, rms=0.633 (0.075%), neg=0, invalid=762
- 0196: dt=36.288000, rms=0.633 (0.040%), neg=0, invalid=762
- 0197: dt=36.288000, rms=0.633 (0.026%), neg=0, invalid=762
- 0198: dt=36.288000, rms=0.633 (0.043%), neg=0, invalid=762
- 0199: dt=36.288000, rms=0.632 (0.057%), neg=0, invalid=762
- 0200: dt=36.288000, rms=0.632 (0.069%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.631 (0.077%), neg=0, invalid=762
- 0202: dt=36.288000, rms=0.631 (0.084%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.630 (0.091%), neg=0, invalid=762
- 0204: dt=36.288000, rms=0.630 (0.097%), neg=0, invalid=762
- 0205: dt=36.288000, rms=0.629 (0.104%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.628 (0.109%), neg=0, invalid=762
- 0207: dt=36.288000, rms=0.628 (0.112%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.627 (0.112%), neg=0, invalid=762
- 0209: dt=36.288000, rms=0.626 (0.110%), neg=0, invalid=762
- 0210: dt=36.288000, rms=0.625 (0.112%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.625 (0.113%), neg=0, invalid=762
- 0212: dt=36.288000, rms=0.624 (0.112%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.623 (0.109%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.623 (0.103%), neg=0, invalid=762
- 0215: dt=36.288000, rms=0.623 (0.007%), neg=0, invalid=762
- 0216: dt=36.288000, rms=0.623 (0.015%), neg=0, invalid=762
- 0217: dt=36.288000, rms=0.622 (0.025%), neg=0, invalid=762
- 0218: dt=36.288000, rms=0.622 (0.034%), neg=0, invalid=762
- 0219: dt=36.288000, rms=0.622 (0.039%), neg=0, invalid=762
- 0220: dt=36.288000, rms=0.622 (0.043%), neg=0, invalid=762
- 0221: dt=36.288000, rms=0.622 (0.009%), neg=0, invalid=762
- 0222: dt=36.288000, rms=0.622 (0.009%), neg=0, invalid=762
- 0223: dt=18.144000, rms=0.622 (0.004%), neg=0, invalid=762
- 0224: dt=9.072000, rms=0.622 (0.003%), neg=0, invalid=762
- 0225: dt=2.268000, rms=0.622 (0.000%), neg=0, invalid=762
- 0226: dt=1.134000, rms=0.622 (0.000%), neg=0, invalid=762
- 0227: dt=0.283500, rms=0.622 (0.000%), neg=0, invalid=762
- 0228: dt=0.070875, rms=0.622 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.623, neg=0, invalid=762
- 0229: dt=109.142857, rms=0.619 (0.545%), neg=0, invalid=762
- 0230: dt=36.288000, rms=0.618 (0.122%), neg=0, invalid=762
- 0231: dt=331.776000, rms=0.617 (0.256%), neg=0, invalid=762
- 0232: dt=36.288000, rms=0.616 (0.120%), neg=0, invalid=762
- 0233: dt=145.152000, rms=0.615 (0.105%), neg=0, invalid=762
- 0234: dt=82.944000, rms=0.615 (0.045%), neg=0, invalid=762
- 0235: dt=82.944000, rms=0.615 (0.049%), neg=0, invalid=762
- 0236: dt=82.944000, rms=0.614 (0.079%), neg=0, invalid=762
- 0237: dt=82.944000, rms=0.614 (0.102%), neg=0, invalid=762
- 0238: dt=82.944000, rms=0.613 (0.116%), neg=0, invalid=762
- 0239: dt=82.944000, rms=0.612 (0.127%), neg=0, invalid=762
- 0240: dt=82.944000, rms=0.612 (0.116%), neg=0, invalid=762
- 0241: dt=82.944000, rms=0.611 (0.126%), neg=0, invalid=762
- 0242: dt=82.944000, rms=0.610 (0.123%), neg=0, invalid=762
- 0243: dt=82.944000, rms=0.609 (0.122%), neg=0, invalid=762
- 0244: dt=82.944000, rms=0.609 (0.120%), neg=0, invalid=762
- 0245: dt=82.944000, rms=0.608 (0.117%), neg=0, invalid=762
- 0246: dt=82.944000, rms=0.607 (0.117%), neg=0, invalid=762
- 0247: dt=82.944000, rms=0.606 (0.112%), neg=0, invalid=762
- 0248: dt=82.944000, rms=0.606 (0.107%), neg=0, invalid=762
- 0249: dt=82.944000, rms=0.605 (0.107%), neg=0, invalid=762
- 0250: dt=82.944000, rms=0.604 (0.108%), neg=0, invalid=762
- 0251: dt=82.944000, rms=0.604 (0.013%), neg=0, invalid=762
- 0252: dt=82.944000, rms=0.604 (0.029%), neg=0, invalid=762
- 0253: dt=82.944000, rms=0.604 (0.021%), neg=0, invalid=762
- 0254: dt=41.472000, rms=0.604 (0.019%), neg=0, invalid=762
- 0255: dt=82.944000, rms=0.604 (0.010%), neg=0, invalid=762
- 0256: dt=0.648000, rms=0.604 (0.003%), neg=0, invalid=762
- 0257: dt=0.324000, rms=0.604 (0.000%), neg=0, invalid=762
- 0258: dt=0.020250, rms=0.604 (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=0.611, neg=0, invalid=762
- 0259: dt=32.000000, rms=0.607 (0.634%), neg=0, invalid=762
- 0260: dt=64.703297, rms=0.602 (0.809%), neg=0, invalid=762
- 0261: dt=0.175000, rms=0.602 (0.015%), neg=0, invalid=762
- 0262: dt=0.175000, rms=0.602 (0.010%), neg=0, invalid=762
- 0263: dt=0.043750, rms=0.602 (0.003%), neg=0, invalid=762
- 0264: dt=0.001367, rms=0.602 (0.000%), neg=0, invalid=762
- 0265: dt=0.000000, rms=0.602 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.603, neg=0, invalid=762
- 0266: dt=29.142857, rms=0.597 (1.086%), neg=0, invalid=762
- 0267: dt=23.059542, rms=0.594 (0.454%), neg=0, invalid=762
- 0268: dt=30.940397, rms=0.592 (0.374%), neg=0, invalid=762
- 0269: dt=11.200000, rms=0.590 (0.258%), neg=0, invalid=762
- 0270: dt=153.600000, rms=0.585 (0.983%), neg=0, invalid=762
- 0271: dt=19.168317, rms=0.581 (0.612%), neg=0, invalid=762
- 0272: dt=25.600000, rms=0.580 (0.223%), neg=0, invalid=762
- 0273: dt=24.517413, rms=0.579 (0.182%), neg=0, invalid=762
- 0274: dt=24.785455, rms=0.578 (0.188%), neg=0, invalid=762
- 0275: dt=23.666667, rms=0.577 (0.158%), neg=0, invalid=762
- 0276: dt=25.600000, rms=0.576 (0.167%), neg=0, invalid=762
- 0277: dt=22.193548, rms=0.575 (0.145%), neg=0, invalid=762
- 0278: dt=25.600000, rms=0.574 (0.145%), neg=0, invalid=762
- 0279: dt=25.600000, rms=0.573 (0.131%), neg=0, invalid=762
- 0280: dt=23.564854, rms=0.572 (0.133%), neg=0, invalid=762
- 0281: dt=24.421053, rms=0.572 (0.123%), neg=0, invalid=762
- 0282: dt=23.445545, rms=0.571 (0.119%), neg=0, invalid=762
- 0283: dt=25.600000, rms=0.570 (0.117%), neg=0, invalid=762
- 0284: dt=19.200000, rms=0.570 (0.117%), neg=0, invalid=762
- 0285: dt=38.400000, rms=0.569 (0.124%), neg=0, invalid=762
- 0286: dt=11.200000, rms=0.568 (0.104%), neg=0, invalid=762
- 0287: dt=179.200000, rms=0.566 (0.438%), neg=0, invalid=762
- 0288: dt=11.200000, rms=0.565 (0.255%), neg=0, invalid=762
- 0289: dt=32.000000, rms=0.564 (0.137%), neg=0, invalid=762
- 0290: dt=25.600000, rms=0.563 (0.083%), neg=0, invalid=762
- 0291: dt=25.600000, rms=0.563 (0.081%), neg=0, invalid=762
- 0292: dt=25.600000, rms=0.562 (0.061%), neg=0, invalid=762
- 0293: dt=25.600000, rms=0.562 (0.074%), neg=0, invalid=762
- 0294: dt=11.200000, rms=0.562 (0.049%), neg=0, invalid=762
- 0295: dt=11.200000, rms=0.562 (0.030%), neg=0, invalid=762
- 0296: dt=11.200000, rms=0.561 (0.055%), neg=0, invalid=762
- 0297: dt=11.200000, rms=0.561 (0.080%), neg=0, invalid=762
- 0298: dt=11.200000, rms=0.560 (0.096%), neg=0, invalid=762
- 0299: dt=11.200000, rms=0.560 (0.112%), neg=0, invalid=762
- 0300: dt=11.200000, rms=0.559 (0.126%), neg=0, invalid=762
- 0301: dt=11.200000, rms=0.558 (0.140%), neg=0, invalid=762
- 0302: dt=11.200000, rms=0.557 (0.141%), neg=0, invalid=762
- 0303: dt=11.200000, rms=0.557 (0.151%), neg=0, invalid=762
- 0304: dt=11.200000, rms=0.556 (0.153%), neg=0, invalid=762
- 0305: dt=11.200000, rms=0.555 (0.155%), neg=0, invalid=762
- 0306: dt=11.200000, rms=0.554 (0.159%), neg=0, invalid=762
- 0307: dt=11.200000, rms=0.553 (0.159%), neg=0, invalid=762
- 0308: dt=11.200000, rms=0.552 (0.154%), neg=0, invalid=762
- 0309: dt=11.200000, rms=0.551 (0.149%), neg=0, invalid=762
- 0310: dt=11.200000, rms=0.551 (0.139%), neg=0, invalid=762
- 0311: dt=11.200000, rms=0.550 (0.136%), neg=0, invalid=762
- 0312: dt=11.200000, rms=0.549 (0.132%), neg=0, invalid=762
- 0313: dt=11.200000, rms=0.548 (0.131%), neg=0, invalid=762
- 0314: dt=11.200000, rms=0.548 (0.125%), neg=0, invalid=762
- 0315: dt=11.200000, rms=0.547 (0.117%), neg=0, invalid=762
- 0316: dt=11.200000, rms=0.547 (0.112%), neg=0, invalid=762
- 0317: dt=11.200000, rms=0.547 (0.006%), neg=0, invalid=762
- 0318: dt=11.200000, rms=0.546 (0.011%), neg=0, invalid=762
- 0319: dt=11.200000, rms=0.546 (0.014%), neg=0, invalid=762
- 0320: dt=11.200000, rms=0.546 (0.019%), neg=0, invalid=762
- 0321: dt=11.200000, rms=0.546 (0.024%), neg=0, invalid=762
- 0322: dt=11.200000, rms=0.546 (0.025%), neg=0, invalid=762
- 0323: dt=11.200000, rms=0.546 (0.029%), neg=0, invalid=762
- 0324: dt=11.200000, rms=0.546 (0.005%), neg=0, invalid=762
- 0325: dt=2.800000, rms=0.546 (0.002%), neg=0, invalid=762
- 0326: dt=0.700000, rms=0.546 (-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=0.564, neg=0, invalid=762
- 0327: dt=0.000000, rms=0.563 (0.156%), neg=0, invalid=762
- 0328: dt=0.000000, rms=0.563 (0.000%), neg=0, invalid=762
- 0329: dt=0.150000, rms=0.563 (-0.023%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.564, neg=0, invalid=762
- 0330: dt=0.000000, rms=0.563 (0.156%), neg=0, invalid=762
- 0331: dt=0.000000, rms=0.563 (0.000%), neg=0, invalid=762
- 0332: dt=0.150000, rms=0.563 (-0.025%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.599, neg=0, invalid=762
- 0333: dt=0.448000, rms=0.597 (0.216%), neg=0, invalid=762
- 0334: dt=0.096000, rms=0.597 (0.003%), neg=0, invalid=762
- 0335: dt=0.096000, rms=0.597 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.598, neg=0, invalid=762
- 0336: dt=0.448000, rms=0.597 (0.186%), neg=0, invalid=762
- 0337: dt=0.028000, rms=0.597 (-0.001%), neg=0, invalid=762
- 0338: dt=0.028000, rms=0.597 (0.000%), neg=0, invalid=762
- 0339: dt=0.028000, rms=0.597 (-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=0.548, neg=0, invalid=762
- 0340: dt=0.448000, rms=0.529 (3.450%), neg=0, invalid=762
- 0341: dt=0.448000, rms=0.525 (0.744%), neg=0, invalid=762
- 0342: dt=0.448000, rms=0.523 (0.368%), neg=0, invalid=762
- 0343: dt=0.448000, rms=0.522 (0.211%), neg=0, invalid=762
- 0344: dt=0.448000, rms=0.521 (0.143%), neg=0, invalid=762
- 0345: dt=0.448000, rms=0.521 (0.102%), neg=0, invalid=762
- 0346: dt=0.448000, rms=0.520 (0.080%), neg=0, invalid=762
- 0347: dt=0.448000, rms=0.520 (0.063%), neg=0, invalid=762
- 0348: dt=0.448000, rms=0.520 (0.051%), neg=0, invalid=762
- 0349: dt=0.448000, rms=0.519 (0.041%), neg=0, invalid=762
- 0350: dt=0.448000, rms=0.519 (0.035%), neg=0, invalid=762
- 0351: dt=0.448000, rms=0.519 (0.064%), neg=0, invalid=762
- 0352: dt=0.448000, rms=0.519 (0.071%), neg=0, invalid=762
- 0353: dt=0.448000, rms=0.518 (0.071%), neg=0, invalid=762
- 0354: dt=0.448000, rms=0.518 (0.065%), neg=0, invalid=762
- 0355: dt=0.448000, rms=0.518 (0.041%), neg=0, invalid=762
- 0356: dt=0.448000, rms=0.518 (-0.008%), neg=0, invalid=762
- 0357: dt=0.000078, rms=0.518 (0.000%), neg=0, invalid=762
- 0358: dt=0.000000, rms=0.518 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.519, neg=0, invalid=762
- 0359: dt=0.448000, rms=0.511 (1.445%), neg=0, invalid=762
- 0360: dt=0.448000, rms=0.510 (0.137%), neg=0, invalid=762
- 0361: dt=0.448000, rms=0.510 (0.052%), neg=0, invalid=762
- 0362: dt=0.448000, rms=0.510 (0.011%), neg=0, invalid=762
- 0363: dt=0.448000, rms=0.510 (0.003%), neg=0, invalid=762
- 0364: dt=0.448000, rms=0.510 (0.000%), neg=0, invalid=762
- 0365: dt=0.448000, rms=0.510 (-0.011%), 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=0.509, neg=0, invalid=762
- 0366: dt=0.000000, rms=0.508 (0.192%), neg=0, invalid=762
- 0367: dt=0.000000, rms=0.508 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.509, neg=0, invalid=762
- 0368: dt=129.472000, rms=0.508 (0.215%), neg=0, invalid=762
- 0369: dt=32.368000, rms=0.508 (0.005%), neg=0, invalid=762
- 0370: dt=32.368000, rms=0.508 (0.002%), neg=0, invalid=762
- 0371: dt=32.368000, rms=0.508 (0.002%), neg=0, invalid=762
- 0372: dt=32.368000, rms=0.508 (0.006%), neg=0, invalid=762
- 0373: dt=32.368000, rms=0.508 (0.005%), neg=0, invalid=762
- 0374: dt=32.368000, rms=0.508 (0.007%), neg=0, invalid=762
- 0375: dt=32.368000, rms=0.508 (0.009%), neg=0, invalid=762
- 0376: dt=32.368000, rms=0.508 (0.007%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.509, neg=0, invalid=762
- 0377: dt=9.072000, rms=0.508 (0.197%), neg=0, invalid=762
- 0378: dt=2.268000, rms=0.508 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.509, neg=0, invalid=762
- 0379: dt=145.152000, rms=0.506 (0.455%), neg=0, invalid=762
- 0380: dt=31.104000, rms=0.506 (0.046%), neg=0, invalid=762
- 0381: dt=31.104000, rms=0.506 (0.037%), neg=0, invalid=762
- 0382: dt=31.104000, rms=0.505 (0.061%), neg=0, invalid=762
- 0383: dt=31.104000, rms=0.505 (0.062%), neg=0, invalid=762
- 0384: dt=31.104000, rms=0.505 (0.068%), neg=0, invalid=762
- 0385: dt=31.104000, rms=0.504 (0.071%), neg=0, invalid=762
- 0386: dt=31.104000, rms=0.504 (0.074%), neg=0, invalid=762
- 0387: dt=31.104000, rms=0.504 (0.059%), neg=0, invalid=762
- 0388: dt=31.104000, rms=0.504 (0.051%), neg=0, invalid=762
- 0389: dt=145.152000, rms=0.503 (0.039%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.504, neg=0, invalid=762
- 0390: dt=11.200000, rms=0.503 (0.339%), neg=0, invalid=762
- 0391: dt=25.600000, rms=0.502 (0.143%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0392: dt=25.600000, rms=0.501 (0.122%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0393: dt=25.600000, rms=0.501 (0.070%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 2 iterations, nbhd size=0, neg = 0
- 0394: dt=25.600000, rms=0.501 (-0.076%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.502, neg=0, invalid=762
- 0395: dt=38.400000, rms=0.496 (1.218%), neg=0, invalid=762
- 0396: dt=11.200000, rms=0.495 (0.287%), neg=0, invalid=762
- 0397: dt=44.800000, rms=0.493 (0.323%), neg=0, invalid=762
- 0398: dt=32.000000, rms=0.492 (0.213%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0399: dt=32.000000, rms=0.492 (-0.085%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.494, neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0400: dt=12.663102, rms=0.490 (0.949%), neg=0, invalid=762
- iter 0, gcam->neg = 10
- after 1 iterations, nbhd size=0, neg = 0
- 0401: dt=24.235294, rms=0.485 (0.969%), neg=0, invalid=762
- 0402: dt=7.473054, rms=0.484 (0.226%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 3 iterations, nbhd size=0, neg = 0
- 0403: dt=7.473054, rms=0.483 (0.145%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 7 iterations, nbhd size=1, neg = 0
- 0404: dt=7.473054, rms=0.483 (0.119%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0405: dt=7.473054, rms=0.482 (0.221%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0406: dt=7.473054, rms=0.480 (0.279%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0407: dt=7.473054, rms=0.479 (0.248%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0408: dt=7.473054, rms=0.478 (0.166%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 12 iterations, nbhd size=1, neg = 0
- 0409: dt=7.473054, rms=0.478 (0.135%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0410: dt=7.473054, rms=0.477 (0.123%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 9 iterations, nbhd size=1, neg = 0
- 0411: dt=7.473054, rms=0.477 (0.101%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0412: dt=8.347826, rms=0.476 (0.023%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0413: dt=8.347826, rms=0.476 (-0.014%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.478, neg=0, invalid=762
- 0414: dt=12.952381, rms=0.473 (0.876%), neg=0, invalid=762
- 0415: dt=10.852174, rms=0.473 (0.161%), neg=0, invalid=762
- 0416: dt=10.852174, rms=0.472 (0.114%), neg=0, invalid=762
- 0417: dt=10.852174, rms=0.471 (0.140%), neg=0, invalid=762
- 0418: dt=10.852174, rms=0.471 (0.044%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0419: dt=10.852174, rms=0.471 (0.010%), neg=0, invalid=762
- 0420: dt=13.460317, rms=0.470 (0.154%), neg=0, invalid=762
- 0421: dt=6.666667, rms=0.470 (0.053%), neg=0, invalid=762
- 0422: dt=6.666667, rms=0.470 (0.029%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 8 iterations, nbhd size=1, neg = 0
- 0423: dt=6.666667, rms=0.470 (0.039%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0424: dt=6.666667, rms=0.470 (0.067%), neg=0, invalid=762
- 0425: dt=6.666667, rms=0.469 (0.060%), neg=0, invalid=762
- 0426: dt=6.666667, rms=0.469 (0.067%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0427: dt=6.666667, rms=0.469 (0.064%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.474, neg=0, invalid=762
- 0428: dt=0.000000, rms=0.473 (0.216%), neg=0, invalid=762
- 0429: dt=0.000000, rms=0.473 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.474, neg=0, invalid=762
- 0430: dt=0.000000, rms=0.473 (0.216%), neg=0, invalid=762
- 0431: dt=0.000000, rms=0.473 (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=0.467, neg=0, invalid=762
- iter 0, gcam->neg = 1211
- after 14 iterations, nbhd size=1, neg = 0
- 0432: dt=2.207689, rms=0.429 (8.058%), neg=0, invalid=762
- 0433: dt=0.064000, rms=0.429 (0.036%), neg=0, invalid=762
- 0434: dt=0.064000, rms=0.429 (-0.046%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.430, neg=0, invalid=762
- 0435: dt=0.080000, rms=0.429 (0.346%), neg=0, invalid=762
- 0436: dt=0.001500, rms=0.429 (0.001%), neg=0, invalid=762
- 0437: dt=0.001500, rms=0.429 (0.000%), neg=0, invalid=762
- 0438: dt=0.001500, rms=0.429 (-0.000%), 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=0.414, neg=0, invalid=762
- 0439: dt=0.000000, rms=0.414 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.414, neg=0, invalid=762
- 0440: dt=32.368000, rms=0.414 (0.004%), neg=0, invalid=762
- 0441: dt=0.013547, rms=0.414 (0.000%), neg=0, invalid=762
- 0442: dt=0.013547, rms=0.414 (-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=0.414, neg=0, invalid=762
- 0443: dt=0.000000, rms=0.414 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.414, neg=0, invalid=762
- 0444: dt=36.288000, rms=0.414 (0.020%), neg=0, invalid=762
- 0445: dt=82.944000, rms=0.414 (0.017%), neg=0, invalid=762
- 0446: dt=82.944000, rms=0.414 (0.021%), neg=0, invalid=762
- 0447: dt=82.944000, rms=0.414 (0.012%), neg=0, invalid=762
- 0448: dt=82.944000, rms=0.414 (-0.010%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.414, neg=0, invalid=762
- 0449: dt=2.800000, rms=0.414 (0.013%), neg=0, invalid=762
- 0450: dt=2.400000, rms=0.414 (0.004%), neg=0, invalid=762
- 0451: dt=2.400000, rms=0.414 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.414, neg=0, invalid=762
- 0452: dt=44.800000, rms=0.413 (0.374%), neg=0, invalid=762
- 0453: dt=32.000000, rms=0.412 (0.120%), neg=0, invalid=762
- 0454: dt=32.000000, rms=0.412 (0.109%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0455: dt=32.000000, rms=0.411 (0.201%), neg=0, invalid=762
- 0456: dt=32.000000, rms=0.411 (0.121%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 7 iterations, nbhd size=1, neg = 0
- 0457: dt=32.000000, rms=0.410 (0.204%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0458: dt=32.000000, rms=0.409 (0.101%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 3 iterations, nbhd size=0, neg = 0
- 0459: dt=32.000000, rms=0.409 (0.149%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 0 iterations, nbhd size=0, neg = 0
- 0460: dt=32.000000, rms=0.408 (0.094%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 1 iterations, nbhd size=0, neg = 0
- 0461: dt=32.000000, rms=0.408 (0.130%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0462: dt=32.000000, rms=0.407 (0.108%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 2 iterations, nbhd size=0, neg = 0
- 0463: dt=32.000000, rms=0.407 (0.072%), neg=0, invalid=762
- 0464: dt=11.200000, rms=0.407 (0.032%), neg=0, invalid=762
- 0465: dt=11.200000, rms=0.407 (0.008%), neg=0, invalid=762
- 0466: dt=11.200000, rms=0.407 (0.011%), neg=0, invalid=762
- 0467: dt=11.200000, rms=0.407 (0.013%), neg=0, invalid=762
- 0468: dt=11.200000, rms=0.407 (0.012%), neg=0, invalid=762
- 0469: dt=11.200000, rms=0.407 (0.011%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.410, neg=0, invalid=762
- 0470: dt=1.008000, rms=0.410 (0.006%), neg=0, invalid=762
- 0471: dt=0.252000, rms=0.410 (0.000%), neg=0, invalid=762
- 0472: dt=0.252000, rms=0.410 (0.000%), neg=0, invalid=762
- 0473: dt=0.252000, rms=0.410 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.410, neg=0, invalid=762
- 0474: dt=8.577320, rms=0.410 (0.101%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 4 iterations, nbhd size=0, neg = 0
- 0475: dt=11.520000, rms=0.410 (0.047%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0476: dt=11.520000, rms=0.410 (0.070%), neg=0, invalid=762
- iter 0, gcam->neg = 10
- after 3 iterations, nbhd size=0, neg = 0
- 0477: dt=11.520000, rms=0.409 (0.063%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 5 iterations, nbhd size=0, neg = 0
- 0478: dt=11.520000, rms=0.409 (0.082%), neg=0, invalid=762
- iter 0, gcam->neg = 13
- after 4 iterations, nbhd size=0, neg = 0
- 0479: dt=11.520000, rms=0.408 (0.138%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 5 iterations, nbhd size=0, neg = 0
- 0480: dt=11.520000, rms=0.408 (0.207%), neg=0, invalid=762
- iter 0, gcam->neg = 22
- after 5 iterations, nbhd size=0, neg = 0
- 0481: dt=11.520000, rms=0.407 (0.218%), neg=0, invalid=762
- iter 0, gcam->neg = 19
- after 6 iterations, nbhd size=0, neg = 0
- 0482: dt=11.520000, rms=0.406 (0.130%), neg=0, invalid=762
- iter 0, gcam->neg = 20
- after 12 iterations, nbhd size=1, neg = 0
- 0483: dt=11.520000, rms=0.406 (0.003%), neg=0, invalid=762
- iter 0, gcam->neg = 24
- after 6 iterations, nbhd size=0, neg = 0
- 0484: dt=11.520000, rms=0.406 (-0.007%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0485: dt=10.461538, rms=0.406 (0.014%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0486: dt=6.912000, rms=0.406 (0.006%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.412, neg=0, invalid=762
- 0487: dt=0.000050, rms=0.412 (0.000%), neg=0, invalid=762
- 0488: dt=0.000000, rms=0.412 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.412, neg=0, invalid=762
- 0489: dt=0.000000, rms=0.412 (0.000%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.402, neg=0, invalid=762
- iter 0, gcam->neg = 861
- after 16 iterations, nbhd size=1, neg = 0
- 0490: dt=1.485605, rms=0.390 (2.944%), neg=0, invalid=762
- 0491: dt=0.000013, rms=0.390 (0.000%), neg=0, invalid=762
- 0492: dt=0.000013, rms=0.390 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.390, neg=0, invalid=762
- 0493: dt=0.080000, rms=0.390 (0.045%), neg=0, invalid=762
- 0494: dt=0.024000, rms=0.390 (0.003%), neg=0, invalid=762
- 0495: dt=0.024000, rms=0.390 (-0.001%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 2 hours, 13 minutes and 14 seconds.
- mri_ca_register utimesec 8842.117793
- mri_ca_register stimesec 7.930794
- mri_ca_register ru_maxrss 1338720
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4558943
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 62896
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 3643
- mri_ca_register ru_nivcsw 15602
- FSRUNTIME@ mri_ca_register 2.2207 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 19:05:03 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-916
- 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-6.0.0/0050774/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 7.01
- 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 = 0.13091 ( 5)
- Left_Lateral_Ventricle (4): linear fit = 0.09 x + 0.0 (907 voxels, overlap=0.006)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (907 voxels, peak = 2), gca=8.0
- gca peak = 0.17677 (13)
- mri peak = 0.14270 ( 5)
- Right_Lateral_Ventricle (43): linear fit = 0.31 x + 0.0 (802 voxels, overlap=0.009)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (802 voxels, peak = 4), gca=5.2
- gca peak = 0.28129 (95)
- mri peak = 0.08760 (87)
- Right_Pallidum (52): linear fit = 0.90 x + 0.0 (611 voxels, overlap=0.303)
- Right_Pallidum (52): linear fit = 0.90 x + 0.0 (611 voxels, peak = 86), gca=86.0
- gca peak = 0.16930 (96)
- mri peak = 0.07170 (86)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (671 voxels, overlap=0.539)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (671 voxels, peak = 90), gca=89.8
- gca peak = 0.24553 (55)
- mri peak = 0.08757 (51)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (661 voxels, overlap=1.009)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (661 voxels, peak = 50), gca=50.3
- gca peak = 0.30264 (59)
- mri peak = 0.11492 (53)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (798 voxels, overlap=1.009)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (798 voxels, peak = 55), gca=55.2
- gca peak = 0.07580 (103)
- mri peak = 0.12140 (104)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (39431 voxels, overlap=0.641)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (39431 voxels, peak = 103), gca=103.0
- gca peak = 0.07714 (104)
- mri peak = 0.13887 (104)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (38551 voxels, overlap=0.659)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (38551 voxels, peak = 104), gca=104.0
- gca peak = 0.09712 (58)
- mri peak = 0.06599 (52)
- Left_Cerebral_Cortex (3): linear fit = 0.82 x + 0.0 (32184 voxels, overlap=0.359)
- Left_Cerebral_Cortex (3): linear fit = 0.82 x + 0.0 (32184 voxels, peak = 48), gca=47.8
- gca peak = 0.11620 (58)
- mri peak = 0.06713 (52)
- Right_Cerebral_Cortex (42): linear fit = 0.86 x + 0.0 (29460 voxels, overlap=0.452)
- Right_Cerebral_Cortex (42): linear fit = 0.86 x + 0.0 (29460 voxels, peak = 50), gca=49.6
- gca peak = 0.30970 (66)
- mri peak = 0.10079 (59)
- Right_Caudate (50): linear fit = 0.87 x + 0.0 (1392 voxels, overlap=0.425)
- Right_Caudate (50): linear fit = 0.87 x + 0.0 (1392 voxels, peak = 57), gca=57.1
- gca peak = 0.15280 (69)
- mri peak = 0.11368 (61)
- Left_Caudate (11): linear fit = 0.80 x + 0.0 (1172 voxels, overlap=0.021)
- Left_Caudate (11): linear fit = 0.80 x + 0.0 (1172 voxels, peak = 55), gca=54.9
- gca peak = 0.13902 (56)
- mri peak = 0.05684 (54)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12132 voxels, overlap=0.987)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12132 voxels, peak = 53), gca=52.9
- gca peak = 0.14777 (55)
- mri peak = 0.05319 (53)
- Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (11828 voxels, overlap=0.971)
- Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (11828 voxels, peak = 53), gca=53.1
- gca peak = 0.16765 (84)
- mri peak = 0.06743 (89)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4478 voxels, overlap=0.960)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4478 voxels, peak = 86), gca=86.1
- gca peak = 0.18739 (84)
- mri peak = 0.07046 (86)
- Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (4258 voxels, overlap=0.944)
- Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (4258 voxels, peak = 87), gca=86.9
- gca peak = 0.29869 (57)
- mri peak = 0.09804 (57)
- Left_Amygdala (18): linear fit = 0.96 x + 0.0 (429 voxels, overlap=1.024)
- Left_Amygdala (18): linear fit = 0.96 x + 0.0 (429 voxels, peak = 55), gca=55.0
- gca peak = 0.33601 (57)
- mri peak = 0.10876 (52)
- Right_Amygdala (54): linear fit = 0.92 x + 0.0 (388 voxels, overlap=1.014)
- Right_Amygdala (54): linear fit = 0.92 x + 0.0 (388 voxels, peak = 52), gca=52.2
- gca peak = 0.11131 (90)
- mri peak = 0.07185 (82)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (4100 voxels, overlap=0.972)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (4100 voxels, peak = 88), gca=87.8
- gca peak = 0.11793 (83)
- mri peak = 0.07861 (84)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4179 voxels, overlap=0.978)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4179 voxels, peak = 83), gca=82.6
- gca peak = 0.08324 (81)
- mri peak = 0.07459 (68)
- Left_Putamen (12): linear fit = 0.87 x + 0.0 (2082 voxels, overlap=0.300)
- Left_Putamen (12): linear fit = 0.87 x + 0.0 (2082 voxels, peak = 70), gca=70.1
- gca peak = 0.10360 (77)
- mri peak = 0.08521 (63)
- Right_Putamen (51): linear fit = 0.86 x + 0.0 (2270 voxels, overlap=0.311)
- Right_Putamen (51): linear fit = 0.86 x + 0.0 (2270 voxels, peak = 66), gca=65.8
- gca peak = 0.08424 (78)
- mri peak = 0.09791 (83)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (9882 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (9882 voxels, peak = 82), gca=82.3
- gca peak = 0.12631 (89)
- mri peak = 0.06969 (89)
- Right_VentralDC (60): linear fit = 1.05 x + 0.0 (1162 voxels, overlap=0.828)
- Right_VentralDC (60): linear fit = 1.05 x + 0.0 (1162 voxels, peak = 94), gca=93.9
- gca peak = 0.14500 (87)
- mri peak = 0.07252 (92)
- Left_VentralDC (28): linear fit = 1.04 x + 0.0 (1172 voxels, overlap=0.916)
- Left_VentralDC (28): linear fit = 1.04 x + 0.0 (1172 voxels, peak = 91), gca=90.9
- gca peak = 0.14975 (24)
- mri peak = 0.17021 ( 7)
- gca peak = 0.19357 (14)
- mri peak = 0.11732 (10)
- Fourth_Ventricle (15): linear fit = 0.43 x + 0.0 (174 voxels, overlap=0.258)
- Fourth_Ventricle (15): linear fit = 0.43 x + 0.0 (174 voxels, peak = 6), gca=6.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak Fourth_Ventricle = 0.19357 (14)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.90 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.40 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.30837 ( 7)
- mri peak = 0.13091 ( 5)
- Left_Lateral_Ventricle (4): linear fit = 0.54 x + 0.0 (907 voxels, overlap=0.718)
- Left_Lateral_Ventricle (4): linear fit = 0.54 x + 0.0 (907 voxels, peak = 4), gca=3.7
- gca peak = 0.30173 ( 5)
- mri peak = 0.14270 ( 5)
- Right_Lateral_Ventricle (43): linear fit = 0.79 x + 0.0 (802 voxels, overlap=0.977)
- Right_Lateral_Ventricle (43): linear fit = 0.79 x + 0.0 (802 voxels, peak = 4), gca=3.9
- gca peak = 0.30252 (86)
- mri peak = 0.08760 (87)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (611 voxels, overlap=1.011)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (611 voxels, peak = 86), gca=85.6
- gca peak = 0.16306 (90)
- mri peak = 0.07170 (86)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (671 voxels, overlap=1.013)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (671 voxels, peak = 90), gca=89.6
- gca peak = 0.33148 (51)
- mri peak = 0.08757 (51)
- Right_Hippocampus: unreasonable value (49.7/51.0), not in range [50, 90] - rejecting
- gca peak = 0.27810 (53)
- mri peak = 0.11492 (53)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (798 voxels, overlap=1.004)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (798 voxels, peak = 53), gca=53.0
- gca peak = 0.07580 (103)
- mri peak = 0.12140 (104)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (39431 voxels, overlap=0.641)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (39431 voxels, peak = 103), gca=103.0
- gca peak = 0.07714 (104)
- mri peak = 0.13887 (104)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (38551 voxels, overlap=0.659)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (38551 voxels, peak = 104), gca=104.0
- gca peak = 0.11693 (48)
- mri peak = 0.06599 (52)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (32184 voxels, overlap=0.999)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (32184 voxels, peak = 48), gca=48.0
- gca peak = 0.13635 (50)
- mri peak = 0.06713 (52)
- Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (29460 voxels, overlap=0.994)
- Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (29460 voxels, peak = 49), gca=48.8
- gca peak = 0.29496 (57)
- mri peak = 0.10079 (59)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (1392 voxels, overlap=1.005)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (1392 voxels, peak = 57), gca=57.0
- gca peak = 0.15291 (55)
- mri peak = 0.11368 (61)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (1172 voxels, overlap=0.988)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (1172 voxels, peak = 56), gca=56.4
- gca peak = 0.14776 (52)
- mri peak = 0.05684 (54)
- Left_Cerebellum_Cortex (8): linear fit = 1.01 x + 0.0 (12132 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.01 x + 0.0 (12132 voxels, peak = 53), gca=52.8
- gca peak = 0.15480 (53)
- mri peak = 0.05319 (53)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (11828 voxels, overlap=0.998)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (11828 voxels, peak = 52), gca=52.2
- gca peak = 0.15784 (86)
- mri peak = 0.06743 (89)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4478 voxels, overlap=0.985)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4478 voxels, peak = 86), gca=85.6
- gca peak = 0.18253 (87)
- mri peak = 0.07046 (86)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4258 voxels, overlap=0.988)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4258 voxels, peak = 87), gca=86.6
- gca peak = 0.29815 (55)
- mri peak = 0.09804 (57)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (429 voxels, overlap=1.020)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (429 voxels, peak = 55), gca=55.0
- gca peak = 0.35888 (52)
- mri peak = 0.10876 (52)
- Right_Amygdala (54): linear fit = 0.98 x + 0.0 (388 voxels, overlap=1.017)
- Right_Amygdala (54): linear fit = 0.98 x + 0.0 (388 voxels, peak = 51), gca=50.7
- gca peak = 0.11039 (86)
- mri peak = 0.07185 (82)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4100 voxels, overlap=0.996)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4100 voxels, peak = 86), gca=85.6
- gca peak = 0.10099 (80)
- mri peak = 0.07861 (84)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4179 voxels, overlap=0.972)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4179 voxels, peak = 81), gca=81.2
- gca peak = 0.09451 (70)
- mri peak = 0.07459 (68)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (2082 voxels, overlap=0.983)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (2082 voxels, peak = 68), gca=68.2
- gca peak = 0.10238 (68)
- mri peak = 0.08521 (63)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2270 voxels, overlap=0.984)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2270 voxels, peak = 68), gca=68.0
- gca peak = 0.07537 (83)
- mri peak = 0.09791 (83)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (9882 voxels, overlap=0.714)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (9882 voxels, peak = 83), gca=82.6
- gca peak = 0.13379 (94)
- mri peak = 0.06969 (89)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1162 voxels, overlap=0.882)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1162 voxels, peak = 94), gca=93.5
- gca peak = 0.16586 (89)
- mri peak = 0.07252 (92)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1172 voxels, overlap=0.953)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1172 voxels, peak = 89), gca=88.6
- gca peak = 0.33708 (10)
- mri peak = 0.17021 ( 7)
- gca peak = 0.45928 ( 6)
- mri peak = 0.11732 (10)
- Fourth_Ventricle (15): linear fit = 1.54 x + 0.0 (174 voxels, overlap=0.980)
- Fourth_Ventricle (15): linear fit = 1.54 x + 0.0 (174 voxels, peak = 9), gca=9.3
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.17854 (25)
- gca peak Left_Thalamus = 0.64095 (85)
- gca peak Third_Ventricle = 0.33708 (10)
- gca peak Fourth_Ventricle = 0.45928 ( 6)
- gca peak CSF = 0.26605 (13)
- gca peak Left_Accumbens_area = 0.53305 (49)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.67417 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.23494 (21)
- gca peak Right_Hippocampus = 0.33148 (51)
- gca peak Right_Accumbens_area = 0.32347 (56)
- gca peak Right_vessel = 0.77861 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65560 (13)
- gca peak WM_hypointensities = 0.07337 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.70846 (75)
- not using caudate to estimate GM means
- setting label Right_Hippocampus based on Left_Hippocampus = 1.00 x + 0: 53
- estimating mean gm scale to be 0.99 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.66 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
- 71861 voxels changed in iteration 0 of unlikely voxel relabeling
- 255 voxels changed in iteration 1 of unlikely voxel relabeling
- 6 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 25957 gm and wm labels changed (%28 to gray, %72 to white out of all changed labels)
- 342 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 76549 changed. image ll: -2.150, PF=0.500
- pass 2: 23352 changed. image ll: -2.150, PF=0.500
- pass 3: 7734 changed.
- pass 4: 3006 changed.
- 41791 voxels changed in iteration 0 of unlikely voxel relabeling
- 190 voxels changed in iteration 1 of unlikely voxel relabeling
- 7 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 6136 voxels changed in iteration 0 of unlikely voxel relabeling
- 92 voxels changed in iteration 1 of unlikely voxel relabeling
- 1 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 5685 voxels changed in iteration 0 of unlikely voxel relabeling
- 28 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 4144 voxels changed in iteration 0 of unlikely voxel relabeling
- 11 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 4078.273008
- mri_ca_label stimesec 1.415784
- mri_ca_label ru_maxrss 2118868
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 717960
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 62888
- mri_ca_label ru_oublock 536
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 260
- mri_ca_label ru_nivcsw 4782
- auto-labeling took 67 minutes and 16 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/transforms/cc_up.lta 0050774
- 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-6.0.0/0050774/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/norm.mgz
- 27362 voxels in left wm, 23785 in right wm, xrange [124, 130]
- searching rotation angles z=[-6 8], y=[-6 8]
-
searching scale 1 Z rot -5.8
searching scale 1 Z rot -5.5
searching scale 1 Z rot -5.3
searching scale 1 Z rot -5.0
searching scale 1 Z rot -4.8
searching scale 1 Z rot -4.5
searching scale 1 Z rot -4.3
searching scale 1 Z rot -4.0
searching scale 1 Z rot -3.8
searching scale 1 Z rot -3.5
searching scale 1 Z rot -3.3
searching scale 1 Z rot -3.0
searching scale 1 Z rot -2.8
searching scale 1 Z rot -2.5
searching scale 1 Z rot -2.3
searching scale 1 Z rot -2.0
searching scale 1 Z rot -1.8
searching scale 1 Z rot -1.5
searching scale 1 Z rot -1.3
searching scale 1 Z rot -1.0
searching scale 1 Z rot -0.8
searching scale 1 Z rot -0.5
searching scale 1 Z rot -0.3
searching scale 1 Z rot -0.0
searching scale 1 Z rot 0.2
searching scale 1 Z rot 0.5
searching scale 1 Z rot 0.7
searching scale 1 Z rot 1.0
searching scale 1 Z rot 1.2
searching scale 1 Z rot 1.5
searching scale 1 Z rot 1.7
searching scale 1 Z rot 2.0
searching scale 1 Z rot 2.2
searching scale 1 Z rot 2.5
searching scale 1 Z rot 2.7
searching scale 1 Z rot 3.0
searching scale 1 Z rot 3.2
searching scale 1 Z rot 3.5
searching scale 1 Z rot 3.7
searching scale 1 Z rot 4.0
searching scale 1 Z rot 4.2
searching scale 1 Z rot 4.5
searching scale 1 Z rot 4.7
searching scale 1 Z rot 5.0
searching scale 1 Z rot 5.2
searching scale 1 Z rot 5.5
searching scale 1 Z rot 5.7
searching scale 1 Z rot 6.0
searching scale 1 Z rot 6.2
searching scale 1 Z rot 6.5
searching scale 1 Z rot 6.7
searching scale 1 Z rot 7.0
searching scale 1 Z rot 7.2
searching scale 1 Z rot 7.5
searching scale 1 Z rot 7.7
searching scale 1 Z rot 8.0 global minimum found at slice 126.5, rotations (1.38, 1.21)
- final transformation (x=126.5, yr=1.377, zr=1.206):
- 0.99949 -0.02105 0.02403 0.71106;
- 0.02104 0.99978 0.00051 26.29851;
- -0.02403 0.00000 0.99971 10.07551;
- 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 99 121
- eigenvectors:
- 0.00070 -0.00469 0.99999;
- -0.01912 -0.99981 -0.00468;
- 0.99982 -0.01911 -0.00079;
- error in mid anterior detected - correcting...
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/aseg.auto.mgz...
- corpus callosum segmentation took 0.6 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 20:12:52 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 20:12:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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...
- 1127 control points removed
- Building bias image
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 0...
- Smoothing with sigma 8
- Applying bias correction
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Iterating 2 times
- ---------------------------------
- 3d normalization pass 1 of 2
- white matter peak found at 110
- white matter peak found at 109
- gm peak at 52 (52), valley at 20 (20)
- csf peak at 27, setting threshold to 43
- 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 51 (51), valley at 19 (19)
- csf peak at 26, setting threshold to 42
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 3 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 20:15:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1718083 voxels in mask (pct= 10.24)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 20:15:57 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 (108.0): 107.6 +- 4.7 [79.0 --> 125.0]
- GM (62.0) : 61.5 +- 10.7 [30.0 --> 95.0]
- setting bottom of white matter range to 72.3
- setting top of gray matter range to 83.0
- 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...
- 10864 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 7393 filled
- 2525 bright non-wm voxels segmented.
- 4665 diagonally connected voxels added...
- white matter segmentation took 1.4 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 0.54 minutes
- reading wm segmentation from wm.seg.mgz...
- 326 voxels added to wm to prevent paths from MTL structures to cortex
- 2408 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 48180 voxels turned on, 46030 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 95 new 95
- 115,126,128 old 95 new 95
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 29 found - 29 modified | TOTAL: 29
- pass 2 (xy+): 0 found - 29 modified | TOTAL: 29
- pass 1 (xy-): 33 found - 33 modified | TOTAL: 62
- pass 2 (xy-): 0 found - 33 modified | TOTAL: 62
- pass 1 (yz+): 32 found - 32 modified | TOTAL: 94
- pass 2 (yz+): 0 found - 32 modified | TOTAL: 94
- pass 1 (yz-): 34 found - 34 modified | TOTAL: 128
- pass 2 (yz-): 0 found - 34 modified | TOTAL: 128
- pass 1 (xz+): 28 found - 28 modified | TOTAL: 156
- pass 2 (xz+): 0 found - 28 modified | TOTAL: 156
- pass 1 (xz-): 26 found - 26 modified | TOTAL: 182
- pass 2 (xz-): 0 found - 26 modified | TOTAL: 182
- Iteration Number : 1
- pass 1 (+++): 23 found - 23 modified | TOTAL: 23
- pass 2 (+++): 0 found - 23 modified | TOTAL: 23
- pass 1 (+++): 48 found - 48 modified | TOTAL: 71
- pass 2 (+++): 0 found - 48 modified | TOTAL: 71
- pass 1 (+++): 21 found - 21 modified | TOTAL: 92
- pass 2 (+++): 0 found - 21 modified | TOTAL: 92
- pass 1 (+++): 30 found - 30 modified | TOTAL: 122
- pass 2 (+++): 0 found - 30 modified | TOTAL: 122
- Iteration Number : 1
- pass 1 (++): 271 found - 271 modified | TOTAL: 271
- pass 2 (++): 0 found - 271 modified | TOTAL: 271
- pass 1 (+-): 321 found - 321 modified | TOTAL: 592
- pass 2 (+-): 0 found - 321 modified | TOTAL: 592
- pass 1 (--): 256 found - 256 modified | TOTAL: 848
- pass 2 (--): 0 found - 256 modified | TOTAL: 848
- pass 1 (-+): 260 found - 260 modified | TOTAL: 1108
- pass 2 (-+): 0 found - 260 modified | TOTAL: 1108
- Iteration Number : 2
- pass 1 (xy+): 14 found - 14 modified | TOTAL: 14
- pass 2 (xy+): 0 found - 14 modified | TOTAL: 14
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 15
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 15
- pass 1 (yz+): 11 found - 11 modified | TOTAL: 26
- pass 2 (yz+): 0 found - 11 modified | TOTAL: 26
- pass 1 (yz-): 13 found - 13 modified | TOTAL: 39
- pass 2 (yz-): 0 found - 13 modified | TOTAL: 39
- pass 1 (xz+): 10 found - 10 modified | TOTAL: 49
- pass 2 (xz+): 0 found - 10 modified | TOTAL: 49
- pass 1 (xz-): 6 found - 6 modified | TOTAL: 55
- pass 2 (xz-): 0 found - 6 modified | TOTAL: 55
- 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 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (++): 5 found - 5 modified | TOTAL: 5
- pass 2 (++): 0 found - 5 modified | TOTAL: 5
- pass 1 (+-): 2 found - 2 modified | TOTAL: 7
- pass 2 (+-): 0 found - 2 modified | TOTAL: 7
- pass 1 (--): 4 found - 4 modified | TOTAL: 11
- pass 2 (--): 0 found - 4 modified | TOTAL: 11
- pass 1 (-+): 5 found - 5 modified | TOTAL: 16
- pass 2 (-+): 0 found - 5 modified | TOTAL: 16
- Iteration Number : 3
- pass 1 (xy+): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy+): 0 found - 2 modified | TOTAL: 2
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 3
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 3
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 3
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 3
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 3
- pass 1 (xz-): 2 found - 2 modified | TOTAL: 5
- pass 2 (xz-): 0 found - 2 modified | TOTAL: 5
- Iteration Number : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 1 found - 1 modified | TOTAL: 1
- pass 2 (-+): 0 found - 1 modified | TOTAL: 1
- Iteration Number : 4
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 4
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 5
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 1493 (out of 560904: 0.266177)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 20:18:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz
- logging cutting plane coordinates to ../scripts/ponscc.cut.log...
- INFO: Using transforms/talairach.lta and its offset for Talairach volume ...
- using segmentation aseg.auto_noCCseg.mgz...
- reading input volume...done.
- searching for cutting planes...voxel to talairach voxel transform
- 1.01920 -0.02020 0.02256 -3.78201;
- 0.01747 1.11138 0.14457 -23.33578;
- -0.02584 -0.16765 0.98440 9.49746;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.01920 -0.02020 0.02256 -3.78201;
- 0.01747 1.11138 0.14457 -23.33578;
- -0.02584 -0.16765 0.98440 9.49746;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 2385 (min = 350, max = 1400), aspect = 1.38 (min = 0.10, max = 0.75)
- need search nearby
- using seed (125, 121, 148), TAL = (3.0, 20.0, 7.0)
- talairach voxel to voxel transform
- 0.98030 0.01411 -0.02454 4.26988;
- -0.01835 0.88002 -0.12882 21.68990;
- 0.02261 0.15025 0.99326 -5.84187;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (125, 121, 148) --> (3.0, 20.0, 7.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (3.00, 20.00, 7.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(21.00, 20.00, 7.00) SRC: (107.24, 107.14, 161.76)
- search lh wm seed point around talairach space (-15.00, 20.00, 7.00), SRC: (142.53, 106.48, 162.57)
- compute mri_fill using aseg
- Erasing Brain Stem and Cerebellum ...
- Define left and right masks using aseg:
- Building Voronoi diagram ...
- Using the Voronoi diagram to separate WM into two hemispheres ...
- Find the largest connected component for each hemisphere ...
- #--------------------------------------------
- #@# Tessellate lh Sat Oct 7 20:18:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz+): 2 found - 2 modified | TOTAL: 3
- pass 2 (yz+): 0 found - 2 modified | TOTAL: 3
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 3
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 4
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 4
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 5
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 5
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 6 (out of 269813: 0.002224)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 50: 2249 vertices, 2421 faces
- slice 60: 9916 vertices, 10214 faces
- slice 70: 20673 vertices, 21042 faces
- slice 80: 32496 vertices, 32949 faces
- slice 90: 44833 vertices, 45262 faces
- slice 100: 57080 vertices, 57494 faces
- slice 110: 70630 vertices, 71106 faces
- slice 120: 83833 vertices, 84298 faces
- slice 130: 97072 vertices, 97562 faces
- slice 140: 109670 vertices, 110096 faces
- slice 150: 121617 vertices, 122046 faces
- slice 160: 132238 vertices, 132679 faces
- slice 170: 142081 vertices, 142435 faces
- slice 180: 150465 vertices, 150792 faces
- slice 190: 157685 vertices, 157973 faces
- slice 200: 163232 vertices, 163459 faces
- slice 210: 166561 vertices, 166676 faces
- slice 220: 166828 vertices, 166886 faces
- slice 230: 166828 vertices, 166886 faces
- slice 240: 166828 vertices, 166886 faces
- slice 250: 166828 vertices, 166886 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...
- 166828 voxel in cpt #1: X=-58 [v=166828,e=500658,f=333772] located at (-27.624836, -7.611768, 23.438097)
- For the whole surface: X=-58 [v=166828,e=500658,f=333772]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 20:18:47 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 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-): 3 found - 3 modified | TOTAL: 6
- pass 2 (yz-): 0 found - 3 modified | TOTAL: 6
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 7
- pass 2 (xz+): 0 found - 1 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 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 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 = 8 (out of 270096: 0.002962)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 50: 2338 vertices, 2514 faces
- slice 60: 10052 vertices, 10350 faces
- slice 70: 20930 vertices, 21355 faces
- slice 80: 34073 vertices, 34490 faces
- slice 90: 47632 vertices, 48057 faces
- slice 100: 60461 vertices, 60890 faces
- slice 110: 74269 vertices, 74719 faces
- slice 120: 87704 vertices, 88154 faces
- slice 130: 100581 vertices, 101037 faces
- slice 140: 113385 vertices, 113866 faces
- slice 150: 124868 vertices, 125264 faces
- slice 160: 135205 vertices, 135565 faces
- slice 170: 144258 vertices, 144600 faces
- slice 180: 152096 vertices, 152374 faces
- slice 190: 158948 vertices, 159228 faces
- slice 200: 164961 vertices, 165209 faces
- slice 210: 168084 vertices, 168171 faces
- slice 220: 168288 vertices, 168328 faces
- slice 230: 168288 vertices, 168328 faces
- slice 240: 168288 vertices, 168328 faces
- slice 250: 168288 vertices, 168328 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...
- 168288 voxel in cpt #1: X=-40 [v=168288,e=504984,f=336656] located at (29.926680, -9.081093, 23.646303)
- For the whole surface: X=-40 [v=168288,e=504984,f=336656]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 20:18:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 20:18:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 7101 of (7101 7104) to complete...
- Waiting for PID 7104 of (7101 7104) 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 (7101 7104) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 20:19:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 20:19:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 7148 of (7148 7151) to complete...
- Waiting for PID 7151 of (7148 7151) 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 = 48.5 mm, total surface area = 87606 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.9 minutes
-
step 000: RMS=0.155 (target=0.015)
step 005: RMS=0.118 (target=0.015)
step 010: RMS=0.087 (target=0.015)
step 015: RMS=0.073 (target=0.015)
step 020: RMS=0.063 (target=0.015)
step 025: RMS=0.056 (target=0.015)
step 030: RMS=0.049 (target=0.015)
step 035: RMS=0.044 (target=0.015)
step 040: RMS=0.041 (target=0.015)
step 045: RMS=0.039 (target=0.015)
step 050: RMS=0.037 (target=0.015)
step 055: RMS=0.037 (target=0.015)
step 060: RMS=0.037 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 51.842118
- mris_inflate stimesec 0.136979
- mris_inflate ru_maxrss 243268
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 35204
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11752
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2249
- mris_inflate ru_nivcsw 3774
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 48.5 mm, total surface area = 88433 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.9 minutes
-
step 000: RMS=0.156 (target=0.015)
step 005: RMS=0.118 (target=0.015)
step 010: RMS=0.088 (target=0.015)
step 015: RMS=0.074 (target=0.015)
step 020: RMS=0.064 (target=0.015)
step 025: RMS=0.056 (target=0.015)
step 030: RMS=0.050 (target=0.015)
step 035: RMS=0.046 (target=0.015)
step 040: RMS=0.043 (target=0.015)
step 045: RMS=0.041 (target=0.015)
step 050: RMS=0.040 (target=0.015)
step 055: RMS=0.040 (target=0.015)
step 060: RMS=0.040 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 52.381036
- mris_inflate stimesec 0.113982
- mris_inflate ru_maxrss 245156
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 35164
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11856
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2179
- mris_inflate ru_nivcsw 3718
- PIDs (7148 7151) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 20:19:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 20:19:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 7218 of (7218 7222) to complete...
- Waiting for PID 7222 of (7218 7222) 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 0.89 +- 0.56 (0.00-->9.22) (max @ vno 90287 --> 91571)
- face area 0.02 +- 0.03 (-0.22-->0.51)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.283...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=176.914, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.653, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.092, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.356, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.519, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.624, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.696, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.752, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.801, avgs=0
- 045/300: dt: 0.9000, rms radial error=169.853, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.906, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.961, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.020, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.083, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.150, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.223, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.300, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.383, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.470, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.563, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.661, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.763, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.870, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.982, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.099, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.221, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.348, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.479, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.615, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.756, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.902, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.052, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.207, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.366, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.530, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.699, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.872, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.050, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.232, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.419, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.611, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.807, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.007, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.212, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.421, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.635, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.853, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.075, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.302, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.533, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.768, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.008, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.252, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.500, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.752, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.009, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.270, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.534, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.803, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.076, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.353, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 20120.85
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00016
- epoch 2 (K=40.0), pass 1, starting sse = 3597.22
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00006
- epoch 3 (K=160.0), pass 1, starting sse = 410.18
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.05/11 = 0.00499
- epoch 4 (K=640.0), pass 1, starting sse = 27.33
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.02/10 = 0.00206
- final distance error %28.90
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 299.779426
- mris_sphere stimesec 0.189971
- mris_sphere ru_maxrss 243476
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 35256
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11784
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 7944
- mris_sphere ru_nivcsw 20976
- FSRUNTIME@ mris_sphere 0.0828 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 0.89 +- 0.57 (0.00-->7.42) (max @ vno 116807 --> 117955)
- face area 0.02 +- 0.03 (-0.13-->0.51)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.283...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=176.756, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.495, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.935, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.199, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.362, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.467, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.541, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.605, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.662, avgs=0
- 045/300: dt: 0.9000, rms radial error=169.717, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.774, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.834, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.897, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.965, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.037, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.113, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.195, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.281, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.372, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.468, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.569, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.675, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.786, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.901, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.021, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.146, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.276, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.411, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.550, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.693, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.842, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.995, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.152, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.315, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.482, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.653, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.829, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.009, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.194, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.384, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.578, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.776, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.979, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.187, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.398, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.615, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.835, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.060, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.289, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.522, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.760, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.001, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.247, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.498, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.752, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.010, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.273, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.540, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.811, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.086, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.365, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 20289.91
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00011
- epoch 2 (K=40.0), pass 1, starting sse = 3626.24
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00000
- epoch 3 (K=160.0), pass 1, starting sse = 406.88
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00391
- epoch 4 (K=640.0), pass 1, starting sse = 26.83
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.05/10 = 0.00543
- final distance error %28.75
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 294.395245
- mris_sphere stimesec 0.187971
- mris_sphere ru_maxrss 245360
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 35222
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 11840
- mris_sphere ru_oublock 11880
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 7863
- mris_sphere ru_nivcsw 21234
- FSRUNTIME@ mris_sphere 0.0818 hours 1 threads
- PIDs (7218 7222) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 20:24:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 20:24:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 20:24:51 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050774 lh
- #@# Fix Topology rh Sat Oct 7 20:24:51 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050774 rh
- Waiting for PID 7449 of (7449 7452) to complete...
- Waiting for PID 7452 of (7449 7452) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050774 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=-58 (nv=166828, nf=333772, ne=500658, g=30)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 7 iterations
- marking ambiguous vertices...
- 5472 ambiguous faces found in tessellation
- segmenting defects...
- 31 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 6 into 3
- 30 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.9781 (-4.9890)
- -vertex loglikelihood: -6.8035 (-3.4017)
- -normal dot loglikelihood: -3.6324 (-3.6324)
- -quad curv loglikelihood: -6.4049 (-3.2024)
- Total Loglikelihood : -26.8189
- CORRECTING DEFECT 0 (vertices=418, convex hull=205, v0=11396)
- After retessellation of defect 0 (v0=11396), euler #=-26 (163668,490029,326335) : difference with theory (-27) = -1
- CORRECTING DEFECT 1 (vertices=130, convex hull=95, v0=13421)
- After retessellation of defect 1 (v0=13421), euler #=-25 (163686,490124,326413) : difference with theory (-26) = -1
- CORRECTING DEFECT 2 (vertices=53, convex hull=72, v0=59332)
- After retessellation of defect 2 (v0=59332), euler #=-24 (163710,490226,326492) : difference with theory (-25) = -1
- CORRECTING DEFECT 3 (vertices=1068, convex hull=627, v0=59399)
- XL defect detected...
- After retessellation of defect 3 (v0=59399), euler #=-24 (164015,491480,327441) : difference with theory (-24) = 0
- CORRECTING DEFECT 4 (vertices=31, convex hull=44, v0=67282)
- After retessellation of defect 4 (v0=67282), euler #=-23 (164030,491541,327488) : difference with theory (-23) = 0
- CORRECTING DEFECT 5 (vertices=43, convex hull=28, v0=83814)
- After retessellation of defect 5 (v0=83814), euler #=-22 (164032,491554,327500) : difference with theory (-22) = 0
- CORRECTING DEFECT 6 (vertices=93, convex hull=56, v0=96409)
- After retessellation of defect 6 (v0=96409), euler #=-21 (164059,491656,327576) : difference with theory (-21) = 0
- CORRECTING DEFECT 7 (vertices=5, convex hull=29, v0=99163)
- After retessellation of defect 7 (v0=99163), euler #=-20 (164061,491673,327592) : difference with theory (-20) = 0
- CORRECTING DEFECT 8 (vertices=43, convex hull=30, v0=103328)
- After retessellation of defect 8 (v0=103328), euler #=-19 (164066,491694,327609) : difference with theory (-19) = 0
- CORRECTING DEFECT 9 (vertices=8, convex hull=24, v0=109293)
- After retessellation of defect 9 (v0=109293), euler #=-18 (164068,491706,327620) : difference with theory (-18) = 0
- CORRECTING DEFECT 10 (vertices=55, convex hull=42, v0=109294)
- After retessellation of defect 10 (v0=109294), euler #=-17 (164076,491746,327653) : difference with theory (-17) = 0
- CORRECTING DEFECT 11 (vertices=8, convex hull=18, v0=110401)
- After retessellation of defect 11 (v0=110401), euler #=-16 (164078,491756,327662) : difference with theory (-16) = 0
- CORRECTING DEFECT 12 (vertices=6, convex hull=34, v0=110467)
- After retessellation of defect 12 (v0=110467), euler #=-15 (164080,491771,327676) : difference with theory (-15) = 0
- CORRECTING DEFECT 13 (vertices=33, convex hull=39, v0=111505)
- After retessellation of defect 13 (v0=111505), euler #=-14 (164091,491818,327713) : difference with theory (-14) = 0
- CORRECTING DEFECT 14 (vertices=20, convex hull=47, v0=111529)
- After retessellation of defect 14 (v0=111529), euler #=-13 (164105,491877,327759) : difference with theory (-13) = 0
- CORRECTING DEFECT 15 (vertices=305, convex hull=82, v0=112704)
- After retessellation of defect 15 (v0=112704), euler #=-12 (164153,492059,327894) : difference with theory (-12) = 0
- CORRECTING DEFECT 16 (vertices=62, convex hull=81, v0=114982)
- After retessellation of defect 16 (v0=114982), euler #=-11 (164162,492125,327952) : difference with theory (-11) = 0
- CORRECTING DEFECT 17 (vertices=124, convex hull=102, v0=115448)
- After retessellation of defect 17 (v0=115448), euler #=-10 (164199,492282,328073) : difference with theory (-10) = 0
- CORRECTING DEFECT 18 (vertices=25, convex hull=48, v0=119047)
- After retessellation of defect 18 (v0=119047), euler #=-9 (164208,492324,328107) : difference with theory (-9) = 0
- CORRECTING DEFECT 19 (vertices=61, convex hull=76, v0=121222)
- After retessellation of defect 19 (v0=121222), euler #=-8 (164221,492398,328169) : difference with theory (-8) = 0
- CORRECTING DEFECT 20 (vertices=114, convex hull=57, v0=129545)
- After retessellation of defect 20 (v0=129545), euler #=-7 (164238,492474,328229) : difference with theory (-7) = 0
- CORRECTING DEFECT 21 (vertices=243, convex hull=197, v0=130895)
- After retessellation of defect 21 (v0=130895), euler #=-6 (164316,492802,328480) : difference with theory (-6) = 0
- CORRECTING DEFECT 22 (vertices=59, convex hull=41, v0=135161)
- After retessellation of defect 22 (v0=135161), euler #=-5 (164325,492844,328514) : difference with theory (-5) = 0
- CORRECTING DEFECT 23 (vertices=66, convex hull=46, v0=135806)
- After retessellation of defect 23 (v0=135806), euler #=-4 (164335,492895,328556) : difference with theory (-4) = 0
- CORRECTING DEFECT 24 (vertices=15, convex hull=36, v0=136094)
- After retessellation of defect 24 (v0=136094), euler #=-3 (164338,492916,328575) : difference with theory (-3) = 0
- CORRECTING DEFECT 25 (vertices=9, convex hull=23, v0=140713)
- After retessellation of defect 25 (v0=140713), euler #=-2 (164340,492929,328587) : difference with theory (-2) = 0
- CORRECTING DEFECT 26 (vertices=6, convex hull=24, v0=145610)
- After retessellation of defect 26 (v0=145610), euler #=-1 (164341,492941,328599) : difference with theory (-1) = 0
- CORRECTING DEFECT 27 (vertices=17, convex hull=56, v0=161496)
- After retessellation of defect 27 (v0=161496), euler #=0 (164349,492985,328636) : difference with theory (0) = 0
- CORRECTING DEFECT 28 (vertices=66, convex hull=79, v0=164100)
- After retessellation of defect 28 (v0=164100), euler #=1 (164366,493070,328705) : difference with theory (1) = 0
- CORRECTING DEFECT 29 (vertices=76, convex hull=57, v0=165577)
- After retessellation of defect 29 (v0=165577), euler #=2 (164375,493119,328746) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.22 (0.07-->8.76) (max @ vno 15560 --> 20942)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.22 (0.07-->8.76) (max @ vno 15560 --> 20942)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 110 mutations (34.6%), 208 crossovers (65.4%), 179 vertices were eliminated
- building final representation...
- 2453 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=164375, nf=328746, ne=493119, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 23.0 minutes
- 0 defective edges
- removing intersecting faces
- 000: 299 intersecting
- 001: 12 intersecting
- mris_fix_topology utimesec 1378.348459
- mris_fix_topology stimesec 0.173973
- mris_fix_topology ru_maxrss 519260
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56221
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 11520
- mris_fix_topology ru_oublock 15672
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 600
- mris_fix_topology ru_nivcsw 2528
- FSRUNTIME@ mris_fix_topology lh 0.3828 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050774 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=-40 (nv=168288, nf=336656, ne=504984, g=21)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 9 iterations
- marking ambiguous vertices...
- 5513 ambiguous faces found in tessellation
- segmenting defects...
- 32 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 20 into 19
- -merging segment 31 into 29
- 30 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.9928 (-4.9964)
- -vertex loglikelihood: -6.7622 (-3.3811)
- -normal dot loglikelihood: -3.6004 (-3.6004)
- -quad curv loglikelihood: -6.0300 (-3.0150)
- Total Loglikelihood : -26.3854
- CORRECTING DEFECT 0 (vertices=400, convex hull=180, v0=13785)
- After retessellation of defect 0 (v0=13785), euler #=-27 (165119,494431,329285) : difference with theory (-27) = 0
- CORRECTING DEFECT 1 (vertices=41, convex hull=52, v0=18019)
- After retessellation of defect 1 (v0=18019), euler #=-26 (165126,494468,329316) : difference with theory (-26) = 0
- CORRECTING DEFECT 2 (vertices=37, convex hull=55, v0=29624)
- After retessellation of defect 2 (v0=29624), euler #=-25 (165149,494562,329388) : difference with theory (-25) = 0
- CORRECTING DEFECT 3 (vertices=19, convex hull=61, v0=32378)
- After retessellation of defect 3 (v0=32378), euler #=-24 (165158,494611,329429) : difference with theory (-24) = 0
- CORRECTING DEFECT 4 (vertices=85, convex hull=77, v0=35060)
- normal vector of length zero at vertex 165560 with 4 faces
- normal vector of length zero at vertex 165560 with 4 faces
- normal vector of length zero at vertex 165557 with 4 faces
- normal vector of length zero at vertex 165560 with 4 faces
- normal vector of length zero at vertex 165560 with 4 faces
- normal vector of length zero at vertex 165560 with 4 faces
- normal vector of length zero at vertex 165560 with 4 faces
- After retessellation of defect 4 (v0=35060), euler #=-23 (165179,494702,329500) : difference with theory (-23) = 0
- CORRECTING DEFECT 5 (vertices=27, convex hull=51, v0=57385)
- After retessellation of defect 5 (v0=57385), euler #=-22 (165188,494746,329536) : difference with theory (-22) = 0
- CORRECTING DEFECT 6 (vertices=19, convex hull=46, v0=61464)
- After retessellation of defect 6 (v0=61464), euler #=-21 (165198,494792,329573) : difference with theory (-21) = 0
- CORRECTING DEFECT 7 (vertices=21, convex hull=42, v0=67071)
- After retessellation of defect 7 (v0=67071), euler #=-20 (165209,494840,329611) : difference with theory (-20) = 0
- CORRECTING DEFECT 8 (vertices=42, convex hull=36, v0=71531)
- After retessellation of defect 8 (v0=71531), euler #=-19 (165212,494861,329630) : difference with theory (-19) = 0
- CORRECTING DEFECT 9 (vertices=28, convex hull=25, v0=74239)
- After retessellation of defect 9 (v0=74239), euler #=-18 (165213,494873,329642) : difference with theory (-18) = 0
- CORRECTING DEFECT 10 (vertices=201, convex hull=221, v0=83559)
- After retessellation of defect 10 (v0=83559), euler #=-17 (165328,495324,329979) : difference with theory (-17) = 0
- CORRECTING DEFECT 11 (vertices=209, convex hull=93, v0=84681)
- After retessellation of defect 11 (v0=84681), euler #=-16 (165346,495428,330066) : difference with theory (-16) = 0
- CORRECTING DEFECT 12 (vertices=13, convex hull=30, v0=84746)
- After retessellation of defect 12 (v0=84746), euler #=-15 (165350,495448,330083) : difference with theory (-15) = 0
- CORRECTING DEFECT 13 (vertices=494, convex hull=143, v0=95511)
- After retessellation of defect 13 (v0=95511), euler #=-15 (165434,495776,330327) : difference with theory (-14) = 1
- CORRECTING DEFECT 14 (vertices=27, convex hull=57, v0=97638)
- After retessellation of defect 14 (v0=97638), euler #=-14 (165445,495834,330375) : difference with theory (-13) = 1
- CORRECTING DEFECT 15 (vertices=306, convex hull=117, v0=100569)
- After retessellation of defect 15 (v0=100569), euler #=-14 (165478,495997,330505) : difference with theory (-12) = 2
- CORRECTING DEFECT 16 (vertices=45, convex hull=45, v0=103947)
- After retessellation of defect 16 (v0=103947), euler #=-13 (165495,496063,330555) : difference with theory (-11) = 2
- CORRECTING DEFECT 17 (vertices=58, convex hull=32, v0=104023)
- After retessellation of defect 17 (v0=104023), euler #=-12 (165501,496091,330578) : difference with theory (-10) = 2
- CORRECTING DEFECT 18 (vertices=17, convex hull=17, v0=110012)
- After retessellation of defect 18 (v0=110012), euler #=-11 (165503,496100,330586) : difference with theory (-9) = 2
- CORRECTING DEFECT 19 (vertices=197, convex hull=191, v0=110289)
- After retessellation of defect 19 (v0=110289), euler #=-9 (165593,496470,330868) : difference with theory (-8) = 1
- CORRECTING DEFECT 20 (vertices=22, convex hull=30, v0=115398)
- After retessellation of defect 20 (v0=115398), euler #=-8 (165596,496487,330883) : difference with theory (-7) = 1
- CORRECTING DEFECT 21 (vertices=195, convex hull=58, v0=116792)
- After retessellation of defect 21 (v0=116792), euler #=-7 (165613,496566,330946) : difference with theory (-6) = 1
- CORRECTING DEFECT 22 (vertices=39, convex hull=79, v0=126863)
- After retessellation of defect 22 (v0=126863), euler #=-6 (165629,496648,331013) : difference with theory (-5) = 1
- CORRECTING DEFECT 23 (vertices=185, convex hull=106, v0=129936)
- After retessellation of defect 23 (v0=129936), euler #=-5 (165641,496736,331090) : difference with theory (-4) = 1
- CORRECTING DEFECT 24 (vertices=127, convex hull=70, v0=136057)
- After retessellation of defect 24 (v0=136057), euler #=-4 (165664,496835,331167) : difference with theory (-3) = 1
- CORRECTING DEFECT 25 (vertices=16, convex hull=37, v0=152094)
- After retessellation of defect 25 (v0=152094), euler #=-3 (165665,496854,331186) : difference with theory (-2) = 1
- CORRECTING DEFECT 26 (vertices=40, convex hull=57, v0=155685)
- After retessellation of defect 26 (v0=155685), euler #=-2 (165675,496910,331233) : difference with theory (-1) = 1
- CORRECTING DEFECT 27 (vertices=98, convex hull=34, v0=162728)
- After retessellation of defect 27 (v0=162728), euler #=-1 (165681,496937,331255) : difference with theory (0) = 1
- CORRECTING DEFECT 28 (vertices=140, convex hull=112, v0=165451)
- After retessellation of defect 28 (v0=165451), euler #=1 (165711,497082,331372) : difference with theory (1) = 0
- CORRECTING DEFECT 29 (vertices=87, convex hull=100, v0=165824)
- After retessellation of defect 29 (v0=165824), euler #=2 (165743,497223,331482) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.22 (0.02-->6.96) (max @ vno 163851 --> 164690)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.22 (0.02-->6.96) (max @ vno 163851 --> 164690)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 103 mutations (31.6%), 223 crossovers (68.4%), 109 vertices were eliminated
- building final representation...
- 2545 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=165743, nf=331482, ne=497223, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 22.9 minutes
- 0 defective edges
- removing intersecting faces
- 000: 195 intersecting
- 001: 5 intersecting
- mris_fix_topology utimesec 1376.027811
- mris_fix_topology stimesec 0.236963
- mris_fix_topology ru_maxrss 524304
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56971
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 23360
- mris_fix_topology ru_oublock 15816
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 498
- mris_fix_topology ru_nivcsw 3881
- FSRUNTIME@ mris_fix_topology rh 0.3823 hours 1 threads
- PIDs (7449 7452) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 164375 - 493119 + 328746 = 2 --> 0 holes
- F =2V-4: 328746 = 328750-4 (0)
- 2E=3F: 986238 = 986238 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 165743 - 497223 + 331482 = 2 --> 0 holes
- F =2V-4: 331482 = 331486-4 (0)
- 2E=3F: 994446 = 994446 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 91 intersecting
- 001: 13 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 24 intersecting
- 001: 2 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sat Oct 7 20:48:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050774 lh
- #--------------------------------------------
- #@# Make White Surf rh Sat Oct 7 20:48:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050774 rh
- Waiting for PID 8348 of (8348 8351) to complete...
- Waiting for PID 8351 of (8348 8351) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050774 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-6.0.0/0050774/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- 34913 bright wm thresholded.
- 2662 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.orig...
- computing class statistics...
- border white: 290813 voxels (1.73%)
- border gray 354311 voxels (2.11%)
- WM (99.0): 98.0 +- 10.5 [70.0 --> 110.0]
- GM (57.0) : 58.6 +- 11.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 40.9 (was 70)
- setting MAX_BORDER_WHITE to 115.5 (was 105)
- setting MIN_BORDER_WHITE to 52.0 (was 85)
- setting MAX_CSF to 29.8 (was 40)
- setting MAX_GRAY to 94.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 40.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 18.7 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.02-->4.27) (max @ vno 138933 --> 164266)
- face area 0.28 +- 0.12 (0.00-->3.38)
- mean absolute distance = 0.53 +- 0.55
- 5137 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=105+-5.2, GM=52+-8.7
- mean inside = 91.9, mean outside = 62.9
- 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 2 vertex label from ripped group
- mean border=69.8, 66 (66) missing vertices, mean dist 0.3 [0.4 (%35.3)->0.6 (%64.7))]
- %84 local maxima, %12 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 +- 0.24 (0.12-->4.52) (max @ vno 138933 --> 164266)
- face area 0.28 +- 0.12 (0.00-->2.95)
- mean absolute distance = 0.24 +- 0.33
- 2605 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=7415145.0, rms=14.577
- 001: dt: 0.5000, sse=3833540.5, rms=10.017 (31.277%)
- 002: dt: 0.5000, sse=2559332.8, rms=7.767 (22.460%)
- 003: dt: 0.5000, sse=1972830.5, rms=6.478 (16.602%)
- 004: dt: 0.5000, sse=1738941.4, rms=5.880 (9.224%)
- 005: dt: 0.5000, sse=1614794.9, rms=5.524 (6.062%)
- 006: dt: 0.5000, sse=1579871.1, rms=5.427 (1.756%)
- 007: dt: 0.5000, sse=1542696.5, rms=5.309 (2.168%)
- rms = 5.30, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1538550.0, rms=5.301 (0.148%)
- 009: dt: 0.2500, sse=1045081.1, rms=3.479 (34.371%)
- 010: dt: 0.2500, sse=954501.2, rms=3.036 (12.736%)
- rms = 3.03, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=955047.9, rms=3.034 (0.065%)
- 012: dt: 0.1250, sse=805012.2, rms=2.084 (31.327%)
- 013: dt: 0.1250, sse=789591.8, rms=1.961 (5.888%)
- rms = 1.94, time step reduction 3 of 3 to 0.062...
- 014: dt: 0.1250, sse=786574.4, rms=1.938 (1.173%)
- positioning took 1.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=74.7, 85 (34) missing vertices, mean dist -0.2 [0.2 (%81.7)->0.2 (%18.3))]
- %89 local maxima, % 7 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.24 (0.08-->4.31) (max @ vno 138933 --> 164266)
- face area 0.35 +- 0.15 (0.00-->3.39)
- mean absolute distance = 0.15 +- 0.24
- 2972 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2146563.5, rms=6.450
- 015: dt: 0.5000, sse=1521741.1, rms=4.682 (27.411%)
- rms = 5.41, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=1119880.5, rms=3.032 (35.232%)
- 017: dt: 0.2500, sse=1043508.1, rms=2.600 (14.262%)
- 018: dt: 0.2500, sse=1005934.8, rms=2.345 (9.816%)
- rms = 2.47, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.1250, sse=961982.4, rms=2.052 (12.494%)
- 020: dt: 0.1250, sse=914715.9, rms=1.612 (21.454%)
- 021: dt: 0.1250, sse=904143.6, rms=1.534 (4.809%)
- rms = 1.53, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=904026.1, rms=1.530 (0.239%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=77.2, 34 (0) missing vertices, mean dist -0.1 [0.2 (%70.3)->0.1 (%29.7))]
- %92 local maxima, % 5 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.90 +- 0.24 (0.05-->4.28) (max @ vno 138933 --> 164266)
- face area 0.34 +- 0.15 (0.00-->3.28)
- mean absolute distance = 0.14 +- 0.21
- 2470 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1183399.4, rms=3.421
- rms = 4.89, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=953898.2, rms=2.105 (38.482%)
- 024: dt: 0.2500, sse=908289.4, rms=1.718 (18.388%)
- rms = 1.75, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.1250, sse=893466.9, rms=1.578 (8.116%)
- 026: dt: 0.1250, sse=874872.4, rms=1.376 (12.807%)
- rms = 1.33, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=870994.8, rms=1.335 (3.015%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=77.9, 62 (0) missing vertices, mean dist -0.0 [0.1 (%55.1)->0.1 (%44.9))]
- %92 local maxima, % 4 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-6.0.0/0050774/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=892419.2, rms=1.635
- rms = 3.22, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=840649.5, rms=1.029 (37.063%)
- rms = 1.00, time step reduction 2 of 3 to 0.125...
- 029: dt: 0.2500, sse=838419.3, rms=1.002 (2.659%)
- rms = 0.95, time step reduction 3 of 3 to 0.062...
- 030: dt: 0.1250, sse=834087.1, rms=0.955 (4.647%)
- positioning took 0.5 minutes
- generating cortex label...
- 7 non-cortical segments detected
- only using segment with 7115 vertices
- erasing segment 1 (vno[0] = 73674)
- erasing segment 2 (vno[0] = 78651)
- erasing segment 3 (vno[0] = 82505)
- erasing segment 4 (vno[0] = 116573)
- erasing segment 5 (vno[0] = 163720)
- erasing segment 6 (vno[0] = 164114)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.area
- vertex spacing 0.90 +- 0.24 (0.04-->4.26) (max @ vno 138933 --> 164266)
- face area 0.34 +- 0.15 (0.00-->3.22)
- refinement took 6.4 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050774 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-6.0.0/0050774/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- 34913 bright wm thresholded.
- 2662 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.orig...
- computing class statistics...
- border white: 290813 voxels (1.73%)
- border gray 354311 voxels (2.11%)
- WM (99.0): 98.0 +- 10.5 [70.0 --> 110.0]
- GM (57.0) : 58.6 +- 11.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 41.9 (was 70)
- setting MAX_BORDER_WHITE to 115.5 (was 105)
- setting MIN_BORDER_WHITE to 53.0 (was 85)
- setting MAX_CSF to 30.8 (was 40)
- setting MAX_GRAY to 94.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 41.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 19.7 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.03-->3.11) (max @ vno 116897 --> 118032)
- face area 0.28 +- 0.12 (0.00-->1.73)
- mean absolute distance = 0.53 +- 0.57
- 4316 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=105+-5.2, GM=53+-7.8
- mean inside = 91.9, mean outside = 63.2
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- mean border=70.1, 66 (66) missing vertices, mean dist 0.3 [0.4 (%35.3)->0.6 (%64.7))]
- %83 local maxima, %13 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 +- 0.24 (0.04-->3.48) (max @ vno 106051 --> 101491)
- face area 0.28 +- 0.12 (0.00-->1.63)
- mean absolute distance = 0.24 +- 0.34
- 3123 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=7322459.0, rms=14.405
- 001: dt: 0.5000, sse=3811777.2, rms=9.931 (31.062%)
- 002: dt: 0.5000, sse=2575591.8, rms=7.761 (21.845%)
- 003: dt: 0.5000, sse=1987692.1, rms=6.471 (16.617%)
- 004: dt: 0.5000, sse=1756818.1, rms=5.888 (9.015%)
- 005: dt: 0.5000, sse=1618578.1, rms=5.502 (6.553%)
- 006: dt: 0.5000, sse=1588089.5, rms=5.414 (1.598%)
- 007: dt: 0.5000, sse=1538143.1, rms=5.262 (2.813%)
- rms = 5.27, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.2500, sse=1085660.1, rms=3.632 (30.980%)
- 009: dt: 0.2500, sse=965604.1, rms=3.056 (15.842%)
- 010: dt: 0.2500, sse=946609.4, rms=2.953 (3.379%)
- rms = 2.96, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.1250, sse=892229.9, rms=2.641 (10.579%)
- 012: dt: 0.1250, sse=819855.9, rms=2.153 (18.472%)
- 013: dt: 0.1250, sse=807963.1, rms=2.060 (4.298%)
- rms = 2.04, time step reduction 3 of 3 to 0.062...
- 014: dt: 0.1250, sse=805232.8, rms=2.038 (1.099%)
- positioning took 1.9 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=75.1, 56 (10) missing vertices, mean dist -0.2 [0.2 (%81.7)->0.2 (%18.3))]
- %89 local maxima, % 7 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.24 (0.11-->3.68) (max @ vno 106051 --> 101491)
- face area 0.35 +- 0.15 (0.00-->2.44)
- mean absolute distance = 0.15 +- 0.24
- 3230 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2143517.0, rms=6.402
- 015: dt: 0.5000, sse=1524701.5, rms=4.653 (27.314%)
- rms = 5.34, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=1127649.6, rms=3.033 (34.810%)
- 017: dt: 0.2500, sse=1047529.0, rms=2.582 (14.887%)
- 018: dt: 0.2500, sse=1001856.4, rms=2.298 (11.005%)
- rms = 2.39, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.1250, sse=965184.3, rms=2.028 (11.733%)
- 020: dt: 0.1250, sse=918521.2, rms=1.619 (20.162%)
- 021: dt: 0.1250, sse=911434.9, rms=1.547 (4.473%)
- rms = 1.54, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=910915.0, rms=1.543 (0.273%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- mean border=77.4, 58 (7) missing vertices, mean dist -0.1 [0.2 (%70.1)->0.1 (%29.9))]
- %91 local maxima, % 5 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.90 +- 0.24 (0.10-->3.74) (max @ vno 106051 --> 101491)
- face area 0.34 +- 0.15 (0.00-->2.43)
- mean absolute distance = 0.14 +- 0.22
- 2571 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1178995.6, rms=3.362
- rms = 4.78, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=955845.6, rms=2.072 (38.382%)
- 024: dt: 0.2500, sse=908879.2, rms=1.666 (19.606%)
- rms = 1.68, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.1250, sse=895886.4, rms=1.542 (7.399%)
- 026: dt: 0.1250, sse=879232.9, rms=1.364 (11.545%)
- rms = 1.33, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=876055.9, rms=1.333 (2.312%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=78.1, 73 (4) missing vertices, mean dist -0.0 [0.1 (%54.7)->0.1 (%45.3))]
- %92 local maxima, % 4 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-6.0.0/0050774/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=895087.4, rms=1.606
- rms = 3.07, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=846858.6, rms=1.022 (36.347%)
- rms = 0.98, time step reduction 2 of 3 to 0.125...
- 029: dt: 0.2500, sse=842444.7, rms=0.984 (3.690%)
- rms = 0.95, time step reduction 3 of 3 to 0.062...
- 030: dt: 0.1250, sse=839699.4, rms=0.946 (3.922%)
- positioning took 0.5 minutes
- generating cortex label...
- 8 non-cortical segments detected
- only using segment with 7042 vertices
- erasing segment 1 (vno[0] = 109684)
- erasing segment 2 (vno[0] = 113316)
- erasing segment 3 (vno[0] = 113380)
- erasing segment 4 (vno[0] = 116728)
- erasing segment 5 (vno[0] = 116750)
- erasing segment 6 (vno[0] = 117785)
- erasing segment 7 (vno[0] = 127175)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.area
- vertex spacing 0.90 +- 0.24 (0.06-->3.78) (max @ vno 101491 --> 106051)
- face area 0.34 +- 0.15 (0.00-->2.63)
- refinement took 6.4 minutes
- PIDs (8348 8351) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sat Oct 7 20:54:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sat Oct 7 20:54:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 8614 of (8614 8617) to complete...
- Waiting for PID 8617 of (8614 8617) 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 (8614 8617) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sat Oct 7 20:54:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sat Oct 7 20:54:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 8662 of (8662 8665) to complete...
- Waiting for PID 8665 of (8662 8665) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 48.7 mm, total surface area = 100553 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.178 (target=0.015)
step 005: RMS=0.125 (target=0.015)
step 010: RMS=0.092 (target=0.015)
step 015: RMS=0.075 (target=0.015)
step 020: RMS=0.063 (target=0.015)
step 025: RMS=0.051 (target=0.015)
step 030: RMS=0.043 (target=0.015)
step 035: RMS=0.036 (target=0.015)
step 040: RMS=0.031 (target=0.015)
step 045: RMS=0.027 (target=0.015)
step 050: RMS=0.024 (target=0.015)
step 055: RMS=0.022 (target=0.015)
step 060: RMS=0.020 (target=0.015)
- inflation complete.
- inflation took 0.9 minutes
- mris_inflate utimesec 51.079234
- mris_inflate stimesec 0.121981
- mris_inflate ru_maxrss 239816
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 34468
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 12872
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2136
- mris_inflate ru_nivcsw 3670
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 48.6 mm, total surface area = 101323 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.179 (target=0.015)
step 005: RMS=0.125 (target=0.015)
step 010: RMS=0.093 (target=0.015)
step 015: RMS=0.077 (target=0.015)
step 020: RMS=0.064 (target=0.015)
step 025: RMS=0.053 (target=0.015)
step 030: RMS=0.045 (target=0.015)
step 035: RMS=0.036 (target=0.015)
step 040: RMS=0.031 (target=0.015)
step 045: RMS=0.027 (target=0.015)
step 050: RMS=0.025 (target=0.015)
step 055: RMS=0.023 (target=0.015)
step 060: RMS=0.022 (target=0.015)
- inflation complete.
- inflation took 0.9 minutes
- mris_inflate utimesec 51.616153
- mris_inflate stimesec 0.128980
- mris_inflate ru_maxrss 241552
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 34901
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 11664
- mris_inflate ru_oublock 12976
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2221
- mris_inflate ru_nivcsw 3785
- PIDs (8662 8665) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sat Oct 7 20:55:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 Sat Oct 7 20:55:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 8777 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8780 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8783 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8786 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8789 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8792 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8795 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8798 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8801 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8804 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8807 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- Waiting for PID 8811 of (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 6.431*4pi (80.815) --> -5 handles
- ICI = 172.2, FI = 2285.9, variation=34264.488
- 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
- 237 vertices thresholded to be in k1 ~ [-0.21 3.38], k2 ~ [-0.10 0.05]
- total integrated curvature = 0.522*4pi (6.564) --> 0 handles
- ICI = 1.6, FI = 11.4, variation=190.822
- 156 vertices thresholded to be in [-0.02 0.01]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 129 vertices thresholded to be in [-0.12 0.64]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.023
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 4.908*4pi (61.675) --> -4 handles
- ICI = 176.8, FI = 2311.9, variation=34764.110
- 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
- 237 vertices thresholded to be in k1 ~ [-0.29 0.41], k2 ~ [-0.08 0.06]
- total integrated curvature = 0.529*4pi (6.641) --> 0 handles
- ICI = 1.6, FI = 12.9, variation=209.029
- 152 vertices thresholded to be in [-0.01 0.01]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 181 vertices thresholded to be in [-0.14 0.19]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.015, std = 0.024
- done.
- PIDs (8777 8780 8783 8786 8789 8792 8795 8798 8801 8804 8807 8811) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sat Oct 7 20:57:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0050774 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 [ 0050774/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 [ 293 ]
- Gb_filter = 0
- WARN: S lookup min: -0.375524
- WARN: S explicit min: 0.000000 vertex = 426
- #-----------------------------------------
- #@# Curvature Stats rh Sat Oct 7 20:57:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0050774 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 [ 0050774/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 [ 276 ]
- Gb_filter = 0
- WARN: S lookup min: -0.236999
- WARN: S explicit min: 0.000000 vertex = 1115
- #--------------------------------------------
- #@# Sphere lh Sat Oct 7 20:57:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sat Oct 7 20:57:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 9071 of (9071 9075) to complete...
- Waiting for PID 9075 of (9071 9075) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0.262...
- 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
- singular matrix in quadratic form
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %21.51
- pass 1: epoch 2 of 3 starting distance error %21.50
- unfolding complete - removing small folds...
- starting distance error %21.39
- removing remaining folds...
- final distance error %21.40
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 75 negative triangles
- 190: dt=0.9900, 75 negative triangles
- 191: dt=0.9900, 23 negative triangles
- 192: dt=0.9900, 19 negative triangles
- 193: dt=0.9900, 8 negative triangles
- 194: dt=0.9900, 7 negative triangles
- 195: dt=0.9900, 8 negative triangles
- 196: dt=0.9900, 3 negative triangles
- 197: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.10 hours
- mris_sphere utimesec 3959.931998
- mris_sphere stimesec 2.037690
- mris_sphere ru_maxrss 337948
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 59144
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11600
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 141450
- mris_sphere ru_nivcsw 320611
- FSRUNTIME@ mris_sphere 1.1003 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0.262...
- 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 %22.02
- pass 1: epoch 2 of 3 starting distance error %21.98
- unfolding complete - removing small folds...
- starting distance error %21.87
- removing remaining folds...
- final distance error %21.89
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 139 negative triangles
- 194: dt=0.9900, 139 negative triangles
- 195: dt=0.9900, 63 negative triangles
- 196: dt=0.9900, 53 negative triangles
- 197: dt=0.9900, 47 negative triangles
- 198: dt=0.9900, 40 negative triangles
- 199: dt=0.9900, 29 negative triangles
- 200: dt=0.9900, 26 negative triangles
- 201: dt=0.9900, 21 negative triangles
- 202: dt=0.9900, 25 negative triangles
- 203: dt=0.9900, 23 negative triangles
- 204: dt=0.9900, 19 negative triangles
- 205: dt=0.9900, 22 negative triangles
- 206: dt=0.9900, 20 negative triangles
- 207: dt=0.9900, 20 negative triangles
- 208: dt=0.9900, 24 negative triangles
- 209: dt=0.9900, 25 negative triangles
- 210: dt=0.9900, 26 negative triangles
- 211: dt=0.9900, 25 negative triangles
- 212: dt=0.9900, 26 negative triangles
- 213: dt=0.9900, 24 negative triangles
- 214: dt=0.9405, 23 negative triangles
- 215: dt=0.9405, 25 negative triangles
- 216: dt=0.9405, 25 negative triangles
- 217: dt=0.9405, 24 negative triangles
- 218: dt=0.9405, 26 negative triangles
- 219: dt=0.9405, 26 negative triangles
- 220: dt=0.9405, 30 negative triangles
- 221: dt=0.9405, 28 negative triangles
- 222: dt=0.9405, 24 negative triangles
- 223: dt=0.9405, 26 negative triangles
- 224: dt=0.8935, 27 negative triangles
- 225: dt=0.8935, 26 negative triangles
- 226: dt=0.8935, 26 negative triangles
- 227: dt=0.8935, 28 negative triangles
- 228: dt=0.8935, 30 negative triangles
- 229: dt=0.8935, 27 negative triangles
- 230: dt=0.8935, 24 negative triangles
- 231: dt=0.8935, 27 negative triangles
- 232: dt=0.8935, 26 negative triangles
- 233: dt=0.8935, 25 negative triangles
- 234: dt=0.8488, 31 negative triangles
- 235: dt=0.8488, 28 negative triangles
- 236: dt=0.8488, 28 negative triangles
- 237: dt=0.8488, 28 negative triangles
- 238: dt=0.8488, 25 negative triangles
- 239: dt=0.8488, 25 negative triangles
- 240: dt=0.8488, 29 negative triangles
- 241: dt=0.8488, 28 negative triangles
- 242: dt=0.8488, 31 negative triangles
- 243: dt=0.8488, 30 negative triangles
- 244: dt=0.8064, 28 negative triangles
- 245: dt=0.8064, 29 negative triangles
- 246: dt=0.8064, 32 negative triangles
- 247: dt=0.8064, 29 negative triangles
- 248: dt=0.8064, 30 negative triangles
- 249: dt=0.8064, 26 negative triangles
- 250: dt=0.8064, 23 negative triangles
- 251: dt=0.8064, 25 negative triangles
- 252: dt=0.8064, 24 negative triangles
- 253: dt=0.8064, 22 negative triangles
- 254: dt=0.7660, 21 negative triangles
- expanding nbhd size to 1
- 255: dt=0.9900, 20 negative triangles
- 256: dt=0.9900, 22 negative triangles
- 257: dt=0.9900, 20 negative triangles
- 258: dt=0.9900, 20 negative triangles
- 259: dt=0.9900, 19 negative triangles
- 260: dt=0.9900, 17 negative triangles
- 261: dt=0.9900, 18 negative triangles
- 262: dt=0.9900, 18 negative triangles
- 263: dt=0.9900, 19 negative triangles
- 264: dt=0.9900, 18 negative triangles
- 265: dt=0.9900, 17 negative triangles
- 266: dt=0.9900, 17 negative triangles
- 267: dt=0.9900, 17 negative triangles
- 268: dt=0.9900, 19 negative triangles
- 269: dt=0.9900, 18 negative triangles
- 270: dt=0.9405, 18 negative triangles
- 271: dt=0.9405, 17 negative triangles
- 272: dt=0.9405, 15 negative triangles
- 273: dt=0.9405, 15 negative triangles
- 274: dt=0.9405, 16 negative triangles
- 275: dt=0.9405, 17 negative triangles
- 276: dt=0.9405, 17 negative triangles
- 277: dt=0.9405, 15 negative triangles
- 278: dt=0.9405, 15 negative triangles
- 279: dt=0.9405, 14 negative triangles
- 280: dt=0.9405, 15 negative triangles
- 281: dt=0.9405, 14 negative triangles
- 282: dt=0.9405, 17 negative triangles
- 283: dt=0.9405, 13 negative triangles
- 284: dt=0.9405, 13 negative triangles
- 285: dt=0.9405, 13 negative triangles
- 286: dt=0.9405, 13 negative triangles
- 287: dt=0.9405, 12 negative triangles
- 288: dt=0.9405, 12 negative triangles
- 289: dt=0.9405, 11 negative triangles
- 290: dt=0.9405, 12 negative triangles
- 291: dt=0.9405, 10 negative triangles
- 292: dt=0.9405, 10 negative triangles
- 293: dt=0.9405, 10 negative triangles
- 294: dt=0.9405, 10 negative triangles
- 295: dt=0.9405, 11 negative triangles
- 296: dt=0.9405, 10 negative triangles
- 297: dt=0.9405, 10 negative triangles
- 298: dt=0.9405, 10 negative triangles
- 299: dt=0.9405, 10 negative triangles
- 300: dt=0.9405, 11 negative triangles
- 301: dt=0.8935, 11 negative triangles
- 302: dt=0.8935, 10 negative triangles
- 303: dt=0.8935, 10 negative triangles
- 304: dt=0.8935, 9 negative triangles
- 305: dt=0.8935, 10 negative triangles
- 306: dt=0.8935, 9 negative triangles
- 307: dt=0.8935, 8 negative triangles
- 308: dt=0.8935, 8 negative triangles
- 309: dt=0.8935, 7 negative triangles
- 310: dt=0.8935, 8 negative triangles
- 311: dt=0.8935, 6 negative triangles
- 312: dt=0.8935, 6 negative triangles
- 313: dt=0.8935, 4 negative triangles
- 314: dt=0.8935, 4 negative triangles
- 315: dt=0.8935, 4 negative triangles
- 316: dt=0.8935, 4 negative triangles
- 317: dt=0.8935, 4 negative triangles
- 318: dt=0.8935, 4 negative triangles
- 319: dt=0.8935, 3 negative triangles
- 320: dt=0.8935, 3 negative triangles
- 321: dt=0.8935, 2 negative triangles
- 322: dt=0.8935, 2 negative triangles
- 323: dt=0.8935, 1 negative triangles
- 324: dt=0.8935, 1 negative triangles
- 325: dt=0.8935, 2 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.22 hours
- mris_sphere utimesec 4747.550262
- mris_sphere stimesec 1.899711
- mris_sphere ru_maxrss 340288
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 59724
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11744
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 125749
- mris_sphere ru_nivcsw 324775
- FSRUNTIME@ mris_sphere 1.2208 hours 1 threads
- PIDs (9071 9075) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sat Oct 7 22:10:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 Sat Oct 7 22:10:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 12386 of (12386 12389) to complete...
- Waiting for PID 12389 of (12386 12389) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 = 5.725
- curvature mean = 0.015, std = 0.812
- curvature mean = 0.017, std = 0.843
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 0.00) sse = 419141.4, tmin=1.2478
- d=32.00 min @ (-16.00, -8.00, 8.00) sse = 326734.3, tmin=2.5118
- d=16.00 min @ (4.00, 4.00, 0.00) sse = 280420.8, tmin=3.8095
- d=8.00 min @ (0.00, 0.00, -2.00) sse = 272488.8, tmin=5.1097
- d=4.00 min @ (1.00, 0.00, 0.00) sse = 272150.3, tmin=6.4183
- d=2.00 min @ (-0.50, 0.00, 0.00) sse = 271822.1, tmin=7.7316
- d=0.50 min @ (0.00, -0.12, -0.12) sse = 271782.9, tmin=10.3364
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 10.34 min
- curvature mean = -0.006, std = 0.820
- curvature mean = 0.008, std = 0.936
- curvature mean = -0.010, std = 0.829
- curvature mean = 0.004, std = 0.974
- curvature mean = -0.014, std = 0.828
- curvature mean = 0.001, std = 0.990
- 2 Reading smoothwm
- curvature mean = -0.025, std = 0.346
- curvature mean = 0.037, std = 0.244
- curvature mean = 0.056, std = 0.278
- curvature mean = 0.033, std = 0.302
- curvature mean = 0.033, std = 0.440
- curvature mean = 0.033, std = 0.328
- curvature mean = 0.019, std = 0.566
- curvature mean = 0.032, std = 0.340
- curvature mean = 0.007, std = 0.670
- MRISregister() return, current seed 0
- -01: dt=0.0000, 27 negative triangles
- 125: dt=0.9900, 27 negative triangles
- expanding nbhd size to 1
- 126: dt=0.9900, 41 negative triangles
- 127: dt=0.9900, 38 negative triangles
- 128: dt=0.9900, 37 negative triangles
- 129: dt=0.9900, 30 negative triangles
- 130: dt=0.9405, 27 negative triangles
- 131: dt=0.9405, 31 negative triangles
- 132: dt=0.9405, 22 negative triangles
- 133: dt=0.9405, 22 negative triangles
- 134: dt=0.9405, 22 negative triangles
- 135: dt=0.9405, 18 negative triangles
- 136: dt=0.9405, 21 negative triangles
- 137: dt=0.9405, 17 negative triangles
- 138: dt=0.9405, 20 negative triangles
- 139: dt=0.9405, 17 negative triangles
- 140: dt=0.9405, 16 negative triangles
- 141: dt=0.9405, 16 negative triangles
- 142: dt=0.9405, 16 negative triangles
- 143: dt=0.9405, 15 negative triangles
- 144: dt=0.9405, 14 negative triangles
- 145: dt=0.9405, 14 negative triangles
- 146: dt=0.9405, 13 negative triangles
- 147: dt=0.9405, 13 negative triangles
- 148: dt=0.9405, 15 negative triangles
- 149: dt=0.9405, 14 negative triangles
- 150: dt=0.9405, 14 negative triangles
- 151: dt=0.9405, 14 negative triangles
- 152: dt=0.9405, 13 negative triangles
- 153: dt=0.9405, 11 negative triangles
- 154: dt=0.9405, 11 negative triangles
- 155: dt=0.9405, 8 negative triangles
- 156: dt=0.9405, 12 negative triangles
- 157: dt=0.9405, 8 negative triangles
- 158: dt=0.9405, 11 negative triangles
- 159: dt=0.9405, 7 negative triangles
- 160: dt=0.9405, 12 negative triangles
- 161: dt=0.9405, 8 negative triangles
- 162: dt=0.9405, 9 negative triangles
- 163: dt=0.9405, 6 negative triangles
- 164: dt=0.9405, 7 negative triangles
- 165: dt=0.9405, 9 negative triangles
- 166: dt=0.9405, 5 negative triangles
- 167: dt=0.9405, 4 negative triangles
- 168: dt=0.9405, 5 negative triangles
- 169: dt=0.9405, 7 negative triangles
- 170: dt=0.9405, 9 negative triangles
- 171: dt=0.9405, 7 negative triangles
- 172: dt=0.9405, 3 negative triangles
- 173: dt=0.9405, 3 negative triangles
- 174: dt=0.9405, 7 negative triangles
- 175: dt=0.9405, 4 negative triangles
- 176: dt=0.9405, 4 negative triangles
- 177: dt=0.9405, 4 negative triangles
- 178: dt=0.9405, 3 negative triangles
- 179: dt=0.9405, 3 negative triangles
- 180: dt=0.9405, 3 negative triangles
- 181: dt=0.9405, 7 negative triangles
- 182: dt=0.9405, 2 negative triangles
- 183: dt=0.9405, 1 negative triangles
- 184: dt=0.9405, 1 negative triangles
- 185: dt=0.9405, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.60 hours
- mris_register utimesec 5770.955681
- mris_register stimesec 5.486165
- mris_register ru_maxrss 295620
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 42174
- mris_register ru_majflt 2
- mris_register ru_nswap 0
- mris_register ru_inblock 4640
- mris_register ru_oublock 11664
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 417599
- mris_register ru_nivcsw 274907
- FSRUNTIME@ mris_register 1.6043 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 = 5.740
- curvature mean = 0.019, std = 0.808
- curvature mean = 0.018, std = 0.839
- Starting MRISrigidBodyAlignGlobal()
- d=32.00 min @ (0.00, -8.00, 8.00) sse = 313837.1, tmin=2.5164
- d=16.00 min @ (4.00, 4.00, 0.00) sse = 307562.2, tmin=3.8173
- d=8.00 min @ (-2.00, -2.00, -2.00) sse = 297144.0, tmin=5.1323
- d=4.00 min @ (1.00, 0.00, 1.00) sse = 296251.0, tmin=6.4651
- d=2.00 min @ (0.00, 0.50, 0.00) sse = 295760.8, tmin=7.8027
- d=1.00 min @ (-0.25, -0.25, -0.25) sse = 295565.8, tmin=9.1268
- d=0.50 min @ (0.00, 0.12, 0.00) sse = 295524.2, tmin=10.4537
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 10.45 min
- curvature mean = -0.005, std = 0.809
- curvature mean = 0.008, std = 0.935
- curvature mean = -0.011, std = 0.814
- curvature mean = 0.003, std = 0.973
- curvature mean = -0.013, std = 0.813
- curvature mean = 0.001, std = 0.989
- 2 Reading smoothwm
- curvature mean = -0.025, std = 0.301
- curvature mean = 0.035, std = 0.236
- curvature mean = 0.066, std = 0.314
- curvature mean = 0.031, std = 0.295
- curvature mean = 0.041, std = 0.497
- curvature mean = 0.030, std = 0.322
- curvature mean = 0.024, std = 0.643
- curvature mean = 0.029, std = 0.334
- curvature mean = 0.008, std = 0.763
- MRISregister() return, current seed 0
- -01: dt=0.0000, 43 negative triangles
- 123: dt=0.9900, 43 negative triangles
- expanding nbhd size to 1
- 124: dt=0.9900, 48 negative triangles
- 125: dt=0.9900, 38 negative triangles
- 126: dt=0.9900, 35 negative triangles
- 127: dt=0.9900, 33 negative triangles
- 128: dt=0.9900, 36 negative triangles
- 129: dt=0.9900, 32 negative triangles
- 130: dt=0.9900, 27 negative triangles
- 131: dt=0.9900, 26 negative triangles
- 132: dt=0.9900, 24 negative triangles
- 133: dt=0.9900, 22 negative triangles
- 134: dt=0.9900, 19 negative triangles
- 135: dt=0.9900, 20 negative triangles
- 136: dt=0.9900, 18 negative triangles
- 137: dt=0.9900, 19 negative triangles
- 138: dt=0.9900, 18 negative triangles
- 139: dt=0.9900, 16 negative triangles
- 140: dt=0.9900, 13 negative triangles
- 141: dt=0.9900, 12 negative triangles
- 142: dt=0.9900, 10 negative triangles
- 143: dt=0.9900, 10 negative triangles
- 144: dt=0.9900, 11 negative triangles
- 145: dt=0.9900, 11 negative triangles
- 146: dt=0.9900, 10 negative triangles
- 147: dt=0.9900, 8 negative triangles
- 148: dt=0.9900, 8 negative triangles
- 149: dt=0.9900, 5 negative triangles
- 150: dt=0.9900, 3 negative triangles
- 151: dt=0.9900, 5 negative triangles
- 152: dt=0.9900, 4 negative triangles
- 153: dt=0.9900, 4 negative triangles
- 154: dt=0.9900, 2 negative triangles
- 155: dt=0.9900, 1 negative triangles
- 156: dt=0.9900, 1 negative triangles
- 157: dt=0.9900, 1 negative triangles
- 158: dt=0.9900, 2 negative triangles
- 159: dt=0.9900, 4 negative triangles
- 160: dt=0.9900, 2 negative triangles
- 161: dt=0.9900, 2 negative triangles
- 162: dt=0.9900, 1 negative triangles
- 163: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.69 hours
- mris_register utimesec 6281.378085
- mris_register stimesec 5.209208
- mris_register ru_maxrss 293796
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 41715
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 11752
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 379716
- mris_register ru_nivcsw 263230
- FSRUNTIME@ mris_register 1.6920 hours 1 threads
- PIDs (12386 12389) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sat Oct 7 23:52:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sat Oct 7 23:52:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 16112 of (16112 16117) to complete...
- Waiting for PID 16117 of (16112 16117) 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 (16112 16117) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sat Oct 7 23:52:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 Sat Oct 7 23:52:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 16160 of (16160 16163) to complete...
- Waiting for PID 16163 of (16160 16163) 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 (16160 16163) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sat Oct 7 23:52:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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 Sat Oct 7 23:52:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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 16206 of (16206 16209) to complete...
- Waiting for PID 16209 of (16206 16209) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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...
- 1335 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3633 changed, 164375 examined...
- 001: 908 changed, 15099 examined...
- 002: 208 changed, 4884 examined...
- 003: 74 changed, 1234 examined...
- 004: 32 changed, 431 examined...
- 005: 15 changed, 187 examined...
- 006: 5 changed, 71 examined...
- 007: 1 changed, 31 examined...
- 008: 2 changed, 7 examined...
- 009: 2 changed, 10 examined...
- 010: 2 changed, 10 examined...
- 011: 0 changed, 10 examined...
- 274 labels changed using aseg
- 000: 131 total segments, 90 labels (335 vertices) changed
- 001: 45 total segments, 5 labels (13 vertices) changed
- 002: 40 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 10 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2114 vertices marked for relabeling...
- 2114 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 17 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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...
- 1184 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3284 changed, 165743 examined...
- 001: 802 changed, 13979 examined...
- 002: 179 changed, 4476 examined...
- 003: 67 changed, 1067 examined...
- 004: 24 changed, 431 examined...
- 005: 7 changed, 157 examined...
- 006: 3 changed, 43 examined...
- 007: 4 changed, 16 examined...
- 008: 1 changed, 24 examined...
- 009: 0 changed, 7 examined...
- 154 labels changed using aseg
- 000: 101 total segments, 63 labels (246 vertices) changed
- 001: 38 total segments, 1 labels (2 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 9 filter iterations complete (10 requested, 0 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2124 vertices marked for relabeling...
- 2124 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 17 seconds.
- PIDs (16206 16209) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sat Oct 7 23:52:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050774 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sat Oct 7 23:52:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050774 rh
- Waiting for PID 16258 of (16258 16261) to complete...
- Waiting for PID 16261 of (16258 16261) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050774 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-6.0.0/0050774/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- 34913 bright wm thresholded.
- 2662 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.orig...
- computing class statistics...
- border white: 290813 voxels (1.73%)
- border gray 354311 voxels (2.11%)
- WM (99.0): 98.0 +- 10.5 [70.0 --> 110.0]
- GM (57.0) : 58.6 +- 11.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 40.9 (was 70)
- setting MAX_BORDER_WHITE to 115.5 (was 105)
- setting MIN_BORDER_WHITE to 52.0 (was 85)
- setting MAX_CSF to 29.8 (was 40)
- setting MAX_GRAY to 94.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 40.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 18.7 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=105+-5.2, GM=52+-8.7
- mean inside = 91.9, mean outside = 62.9
- 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 0.90 +- 0.24 (0.04-->4.26) (max @ vno 138933 --> 164266)
- face area 0.33 +- 0.15 (0.00-->3.20)
- mean absolute distance = 0.42 +- 0.52
- 3136 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 12 points - only 0.00% unknown
- deleting segment 1 with 35 points - only 0.00% unknown
- deleting segment 2 with 47 points - only 0.00% unknown
- deleting segment 4 with 5 points - only 0.00% unknown
- deleting segment 5 with 288 points - only 0.00% unknown
- deleting segment 8 with 26 points - only 0.00% unknown
- deleting segment 9 with 12 points - only 0.00% unknown
- deleting segment 10 with 5 points - only 0.00% unknown
- deleting segment 11 with 31 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 12 with 2 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 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 15 with 3 points - only 0.00% unknown
- mean border=69.0, 75 (75) missing vertices, mean dist 0.3 [0.3 (%12.9)->0.4 (%87.1))]
- %82 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.92 +- 0.25 (0.15-->4.43) (max @ vno 138933 --> 164266)
- face area 0.33 +- 0.15 (0.00-->3.23)
- mean absolute distance = 0.25 +- 0.34
- 2765 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4565047.0, rms=10.893
- 001: dt: 0.5000, sse=2031338.6, rms=6.230 (42.809%)
- 002: dt: 0.5000, sse=1698129.4, rms=5.345 (14.199%)
- 003: dt: 0.5000, sse=1628308.8, rms=5.133 (3.962%)
- 004: dt: 0.5000, sse=1607307.8, rms=5.076 (1.118%)
- rms = 5.06, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.5000, sse=1606400.8, rms=5.063 (0.262%)
- 006: dt: 0.2500, sse=1077367.2, rms=2.947 (41.782%)
- 007: dt: 0.2500, sse=1013334.2, rms=2.583 (12.352%)
- 008: dt: 0.2500, sse=999348.3, rms=2.493 (3.497%)
- rms = 2.51, time step reduction 2 of 3 to 0.125...
- 009: dt: 0.1250, sse=963793.1, rms=2.250 (9.749%)
- 010: dt: 0.1250, sse=917091.4, rms=1.881 (16.386%)
- 011: dt: 0.1250, sse=909793.7, rms=1.818 (3.367%)
- rms = 1.81, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=909291.4, rms=1.810 (0.413%)
- positioning took 1.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 10 points - only 0.00% unknown
- deleting segment 1 with 33 points - only 0.00% unknown
- deleting segment 2 with 46 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 3 with 4 points - only 0.00% unknown
- deleting segment 4 with 200 points - only 0.00% unknown
- deleting segment 5 with 26 points - only 0.00% unknown
- deleting segment 6 with 9 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 31 points - only 0.00% unknown
- deleting segment 9 with 7 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 10 with 4 points - only 0.00% unknown
- mean border=74.5, 38 (10) missing vertices, mean dist -0.2 [0.3 (%84.5)->0.2 (%15.5))]
- %89 local maxima, % 7 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.91 +- 0.25 (0.11-->4.25) (max @ vno 138933 --> 164266)
- face area 0.36 +- 0.16 (0.00-->3.53)
- mean absolute distance = 0.16 +- 0.24
- 3058 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2246987.2, rms=6.628
- 013: dt: 0.5000, sse=1512033.8, rms=4.556 (31.269%)
- rms = 5.32, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.2500, sse=1123731.9, rms=2.913 (36.053%)
- 015: dt: 0.2500, sse=1049168.6, rms=2.472 (15.131%)
- 016: dt: 0.2500, sse=1009067.6, rms=2.214 (10.468%)
- rms = 2.34, time step reduction 2 of 3 to 0.125...
- 017: dt: 0.1250, sse=971013.8, rms=1.919 (13.297%)
- 018: dt: 0.1250, sse=923474.6, rms=1.469 (23.454%)
- 019: dt: 0.1250, sse=916286.9, rms=1.393 (5.170%)
- rms = 1.39, time step reduction 3 of 3 to 0.062...
- 020: dt: 0.1250, sse=916167.9, rms=1.391 (0.147%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 10 points - only 0.00% unknown
- deleting segment 1 with 33 points - only 0.00% unknown
- deleting segment 2 with 44 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 3 with 4 points - only 0.00% unknown
- deleting segment 4 with 240 points - only 0.00% unknown
- deleting segment 5 with 25 points - only 0.00% unknown
- deleting segment 6 with 10 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 29 points - only 0.00% unknown
- deleting segment 9 with 7 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 10 with 4 points - only 0.00% unknown
- mean border=77.0, 37 (4) missing vertices, mean dist -0.1 [0.2 (%71.3)->0.1 (%28.7))]
- %92 local maxima, % 5 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.90 +- 0.25 (0.12-->4.29) (max @ vno 114145 --> 115377)
- face area 0.34 +- 0.16 (0.00-->3.46)
- mean absolute distance = 0.14 +- 0.22
- 2626 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1200229.1, rms=3.433
- rms = 4.87, time step reduction 1 of 3 to 0.250...
- 021: dt: 0.2500, sse=963501.2, rms=2.071 (39.684%)
- 022: dt: 0.2500, sse=915105.4, rms=1.646 (20.505%)
- rms = 1.66, time step reduction 2 of 3 to 0.125...
- 023: dt: 0.1250, sse=899990.4, rms=1.499 (8.959%)
- 024: dt: 0.1250, sse=881697.9, rms=1.281 (14.489%)
- rms = 1.23, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=878304.2, rms=1.234 (3.666%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 10 points - only 0.00% unknown
- deleting segment 1 with 33 points - only 0.00% unknown
- deleting segment 2 with 45 points - only 0.00% unknown
- deleting segment 3 with 5 points - only 0.00% unknown
- deleting segment 4 with 254 points - only 0.00% unknown
- deleting segment 5 with 25 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 11 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 8 with 3 points - only 0.00% unknown
- deleting segment 9 with 29 points - only 0.00% unknown
- deleting segment 10 with 7 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 11 with 4 points - only 0.00% unknown
- mean border=77.8, 44 (3) missing vertices, mean dist -0.0 [0.1 (%55.5)->0.1 (%44.5))]
- %93 local maxima, % 4 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-6.0.0/0050774/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=902690.4, rms=1.605
- rms = 3.20, time step reduction 1 of 3 to 0.250...
- 026: dt: 0.2500, sse=849019.1, rms=0.968 (39.670%)
- rms = 0.95, time step reduction 2 of 3 to 0.125...
- 027: dt: 0.2500, sse=848168.6, rms=0.949 (1.989%)
- rms = 0.90, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=842874.9, rms=0.900 (5.108%)
- positioning took 0.5 minutes
- generating cortex label...
- 9 non-cortical segments detected
- only using segment with 7125 vertices
- erasing segment 1 (vno[0] = 73674)
- erasing segment 2 (vno[0] = 78651)
- erasing segment 3 (vno[0] = 82505)
- erasing segment 4 (vno[0] = 88797)
- erasing segment 5 (vno[0] = 94846)
- erasing segment 6 (vno[0] = 109736)
- erasing segment 7 (vno[0] = 116573)
- erasing segment 8 (vno[0] = 164114)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.area
- vertex spacing 0.90 +- 0.25 (0.04-->4.31) (max @ vno 114145 --> 115377)
- face area 0.34 +- 0.16 (0.00-->3.18)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 1 with 1 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=40.6, 112 (112) missing vertices, mean dist 1.3 [0.0 (%0.0)->3.0 (%100.0))]
- % 7 local maxima, %37 large gradients and %53 min vals, 483 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=46429000.0, rms=37.885
- 001: dt: 0.0500, sse=39283328.0, rms=34.792 (8.165%)
- 002: dt: 0.0500, sse=34224648.0, rms=32.424 (6.806%)
- 003: dt: 0.0500, sse=30429088.0, rms=30.527 (5.851%)
- 004: dt: 0.0500, sse=27445028.0, rms=28.948 (5.172%)
- 005: dt: 0.0500, sse=25004846.0, rms=27.590 (4.692%)
- 006: dt: 0.0500, sse=22957156.0, rms=26.396 (4.326%)
- 007: dt: 0.0500, sse=21201304.0, rms=25.328 (4.047%)
- 008: dt: 0.0500, sse=19672692.0, rms=24.359 (3.823%)
- 009: dt: 0.0500, sse=18326894.0, rms=23.474 (3.636%)
- 010: dt: 0.0500, sse=17132158.0, rms=22.659 (3.473%)
- positioning took 1.1 minutes
- mean border=40.4, 70 (45) missing vertices, mean dist 1.1 [0.1 (%0.0)->2.5 (%100.0))]
- % 7 local maxima, %37 large gradients and %52 min vals, 445 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.05
- 000: dt: 0.0000, sse=18040648.0, rms=23.283
- 011: dt: 0.0500, sse=16966590.0, rms=22.545 (3.168%)
- 012: dt: 0.0500, sse=16002267.0, rms=21.862 (3.031%)
- 013: dt: 0.0500, sse=15133298.0, rms=21.227 (2.903%)
- 014: dt: 0.0500, sse=14348029.0, rms=20.637 (2.782%)
- 015: dt: 0.0500, sse=13637812.0, rms=20.088 (2.661%)
- 016: dt: 0.0500, sse=12994622.0, rms=19.577 (2.542%)
- 017: dt: 0.0500, sse=12410769.0, rms=19.102 (2.429%)
- 018: dt: 0.0500, sse=11880255.0, rms=18.659 (2.317%)
- 019: dt: 0.0500, sse=11397097.0, rms=18.246 (2.211%)
- 020: dt: 0.0500, sse=10956296.0, rms=17.862 (2.109%)
- positioning took 1.1 minutes
- mean border=40.3, 76 (35) missing vertices, mean dist 1.0 [0.1 (%0.7)->2.2 (%99.3))]
- % 7 local maxima, %37 large gradients and %52 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=11018568.0, rms=17.924
- 021: dt: 0.0500, sse=10611339.0, rms=17.562 (2.019%)
- 022: dt: 0.0500, sse=10238542.0, rms=17.224 (1.924%)
- 023: dt: 0.0500, sse=9894409.0, rms=16.906 (1.847%)
- 024: dt: 0.0500, sse=9577499.0, rms=16.608 (1.765%)
- 025: dt: 0.0500, sse=9285065.0, rms=16.327 (1.688%)
- 026: dt: 0.0500, sse=9014123.0, rms=16.063 (1.618%)
- 027: dt: 0.0500, sse=8761413.0, rms=15.813 (1.560%)
- 028: dt: 0.0500, sse=8523785.0, rms=15.573 (1.514%)
- 029: dt: 0.0500, sse=8299492.5, rms=15.344 (1.473%)
- 030: dt: 0.0500, sse=8087082.5, rms=15.123 (1.438%)
- positioning took 1.1 minutes
- mean border=40.3, 96 (31) missing vertices, mean dist 0.9 [0.1 (%5.4)->2.0 (%94.6))]
- % 8 local maxima, %37 large gradients and %52 min vals, 377 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=8150977.5, rms=15.192
- 031: dt: 0.5000, sse=6647647.5, rms=13.536 (10.902%)
- 032: dt: 0.5000, sse=5597763.0, rms=12.238 (9.585%)
- 033: dt: 0.5000, sse=4795646.5, rms=11.144 (8.940%)
- 034: dt: 0.5000, sse=4181082.0, rms=10.222 (8.277%)
- 035: dt: 0.5000, sse=3699454.8, rms=9.436 (7.683%)
- 036: dt: 0.5000, sse=3299948.0, rms=8.729 (7.497%)
- 037: dt: 0.5000, sse=2942066.0, rms=8.047 (7.816%)
- 038: dt: 0.5000, sse=2636123.2, rms=7.413 (7.873%)
- 039: dt: 0.5000, sse=2386317.8, rms=6.856 (7.509%)
- 040: dt: 0.5000, sse=2190927.8, rms=6.386 (6.856%)
- 041: dt: 0.5000, sse=2045047.6, rms=6.014 (5.833%)
- 042: dt: 0.5000, sse=1949990.2, rms=5.756 (4.290%)
- 043: dt: 0.5000, sse=1884576.2, rms=5.574 (3.158%)
- 044: dt: 0.5000, sse=1846890.2, rms=5.465 (1.950%)
- 045: dt: 0.5000, sse=1824238.2, rms=5.400 (1.196%)
- rms = 5.37, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1813365.9, rms=5.365 (0.639%)
- 047: dt: 0.2500, sse=1723035.5, rms=5.050 (5.880%)
- 048: dt: 0.2500, sse=1697339.6, rms=4.968 (1.628%)
- rms = 4.97, time step reduction 2 of 3 to 0.125...
- rms = 4.94, time step reduction 3 of 3 to 0.062...
- 049: dt: 0.1250, sse=1689825.6, rms=4.941 (0.538%)
- positioning took 3.3 minutes
- mean border=39.6, 3852 (3) missing vertices, mean dist 0.1 [0.2 (%51.0)->0.6 (%49.0))]
- %17 local maxima, %30 large gradients and %47 min vals, 199 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=1949120.4, rms=4.890
- 050: dt: 0.5000, sse=1865361.9, rms=4.617 (5.585%)
- rms = 4.59, time step reduction 1 of 3 to 0.250...
- 051: dt: 0.5000, sse=1845875.9, rms=4.586 (0.681%)
- 052: dt: 0.2500, sse=1758478.1, rms=4.205 (8.302%)
- 053: dt: 0.2500, sse=1731527.9, rms=4.103 (2.421%)
- rms = 4.11, time step reduction 2 of 3 to 0.125...
- rms = 4.06, time step reduction 3 of 3 to 0.062...
- 054: dt: 0.1250, sse=1721634.5, rms=4.060 (1.054%)
- positioning took 1.2 minutes
- mean border=38.9, 4163 (2) missing vertices, mean dist 0.1 [0.2 (%47.5)->0.4 (%52.5))]
- %30 local maxima, %18 large gradients and %46 min vals, 219 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=1791882.0, rms=4.304
- rms = 4.66, time step reduction 1 of 3 to 0.250...
- 055: dt: 0.2500, sse=1752204.1, rms=4.143 (3.743%)
- rms = 4.13, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=1748430.9, rms=4.127 (0.393%)
- 057: dt: 0.1250, sse=1734066.9, rms=4.066 (1.483%)
- rms = 4.05, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1729282.4, rms=4.050 (0.389%)
- positioning took 1.1 minutes
- mean border=38.3, 8165 (1) missing vertices, mean dist 0.1 [0.2 (%48.5)->0.3 (%51.5))]
- %33 local maxima, %14 large gradients and %44 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-6.0.0/0050774/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1763625.8, rms=4.186
- rms = 4.30, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.2500, sse=1736459.2, rms=4.080 (2.538%)
- 060: dt: 0.2500, sse=1705481.8, rms=3.975 (2.569%)
- 061: dt: 0.2500, sse=1690094.6, rms=3.923 (1.313%)
- 062: dt: 0.2500, sse=1668681.0, rms=3.848 (1.903%)
- rms = 3.83, time step reduction 2 of 3 to 0.125...
- 063: dt: 0.2500, sse=1663395.2, rms=3.830 (0.458%)
- 064: dt: 0.1250, sse=1635281.4, rms=3.706 (3.237%)
- rms = 3.68, time step reduction 3 of 3 to 0.062...
- 065: dt: 0.1250, sse=1627757.0, rms=3.678 (0.771%)
- positioning took 1.8 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.area.pial
- vertex spacing 1.05 +- 0.47 (0.05-->7.66) (max @ vno 106162 --> 104906)
- face area 0.43 +- 0.35 (0.00-->8.59)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 164375 vertices processed
- 25000 of 164375 vertices processed
- 50000 of 164375 vertices processed
- 75000 of 164375 vertices processed
- 100000 of 164375 vertices processed
- 125000 of 164375 vertices processed
- 150000 of 164375 vertices processed
- 0 of 164375 vertices processed
- 25000 of 164375 vertices processed
- 50000 of 164375 vertices processed
- 75000 of 164375 vertices processed
- 100000 of 164375 vertices processed
- 125000 of 164375 vertices processed
- 150000 of 164375 vertices processed
- thickness calculation complete, 509:1991 truncations.
- 32133 vertices at 0 distance
- 107393 vertices at 1 distance
- 104957 vertices at 2 distance
- 48479 vertices at 3 distance
- 16716 vertices at 4 distance
- 5215 vertices at 5 distance
- 1745 vertices at 6 distance
- 675 vertices at 7 distance
- 266 vertices at 8 distance
- 123 vertices at 9 distance
- 87 vertices at 10 distance
- 71 vertices at 11 distance
- 43 vertices at 12 distance
- 33 vertices at 13 distance
- 28 vertices at 14 distance
- 24 vertices at 15 distance
- 27 vertices at 16 distance
- 26 vertices at 17 distance
- 17 vertices at 18 distance
- 17 vertices at 19 distance
- 17 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.thickness
- positioning took 19.3 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050774 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-6.0.0/0050774/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- 34913 bright wm thresholded.
- 2662 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.orig...
- computing class statistics...
- border white: 290813 voxels (1.73%)
- border gray 354311 voxels (2.11%)
- WM (99.0): 98.0 +- 10.5 [70.0 --> 110.0]
- GM (57.0) : 58.6 +- 11.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 41.9 (was 70)
- setting MAX_BORDER_WHITE to 115.5 (was 105)
- setting MIN_BORDER_WHITE to 53.0 (was 85)
- setting MAX_CSF to 30.8 (was 40)
- setting MAX_GRAY to 94.5 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 41.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 19.7 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=105+-5.2, GM=53+-7.8
- mean inside = 91.9, mean outside = 63.2
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.90 +- 0.24 (0.06-->3.78) (max @ vno 101491 --> 106051)
- face area 0.33 +- 0.15 (0.00-->2.62)
- mean absolute distance = 0.42 +- 0.53
- 3779 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 5 points - only 0.00% unknown
- deleting segment 1 with 15 points - only 0.00% unknown
- deleting segment 2 with 10 points - only 0.00% unknown
- deleting segment 5 with 275 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 6 with 1 points - only 0.00% unknown
- deleting segment 7 with 19 points - only 0.00% unknown
- deleting segment 8 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 9 with 3 points - only 0.00% unknown
- deleting segment 10 with 8 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- deleting segment 12 with 36 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 5 points - only 0.00% unknown
- mean border=69.4, 74 (74) missing vertices, mean dist 0.3 [0.3 (%12.9)->0.4 (%87.1))]
- %81 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.92 +- 0.25 (0.12-->3.91) (max @ vno 106051 --> 101491)
- face area 0.33 +- 0.15 (0.00-->2.29)
- mean absolute distance = 0.25 +- 0.35
- 2591 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4488030.5, rms=10.724
- 001: dt: 0.5000, sse=2051723.4, rms=6.241 (41.799%)
- 002: dt: 0.5000, sse=1698763.0, rms=5.305 (14.996%)
- 003: dt: 0.5000, sse=1637855.8, rms=5.120 (3.491%)
- 004: dt: 0.5000, sse=1602499.2, rms=5.017 (2.008%)
- rms = 5.03, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.2500, sse=1160036.4, rms=3.333 (33.563%)
- 006: dt: 0.2500, sse=1051783.9, rms=2.762 (17.137%)
- 007: dt: 0.2500, sse=1004862.4, rms=2.472 (10.505%)
- rms = 2.49, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.1250, sse=972624.8, rms=2.262 (8.497%)
- 009: dt: 0.1250, sse=930989.4, rms=1.946 (13.986%)
- 010: dt: 0.1250, sse=923647.8, rms=1.884 (3.167%)
- rms = 1.88, time step reduction 3 of 3 to 0.062...
- 011: dt: 0.1250, sse=922887.6, rms=1.876 (0.440%)
- positioning took 1.5 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 24 points - only 0.00% unknown
- deleting segment 1 with 7 points - only 0.00% unknown
- deleting segment 2 with 179 points - only 0.00% unknown
- deleting segment 3 with 18 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- deleting segment 5 with 8 points - only 0.00% unknown
- deleting segment 6 with 28 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- mean border=74.8, 62 (21) missing vertices, mean dist -0.2 [0.3 (%84.3)->0.2 (%15.7))]
- %89 local maxima, % 7 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.91 +- 0.25 (0.07-->4.01) (max @ vno 106051 --> 101491)
- face area 0.35 +- 0.16 (0.00-->2.32)
- mean absolute distance = 0.16 +- 0.25
- 2396 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2233493.2, rms=6.555
- 012: dt: 0.5000, sse=1510304.1, rms=4.508 (31.228%)
- rms = 5.25, time step reduction 1 of 3 to 0.250...
- 013: dt: 0.2500, sse=1129348.4, rms=2.904 (35.588%)
- 014: dt: 0.2500, sse=1048951.9, rms=2.433 (16.198%)
- 015: dt: 0.2500, sse=1007741.1, rms=2.157 (11.344%)
- rms = 2.25, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.1250, sse=973724.4, rms=1.886 (12.555%)
- 017: dt: 0.1250, sse=929623.8, rms=1.471 (22.009%)
- 018: dt: 0.1250, sse=923204.2, rms=1.402 (4.681%)
- rms = 1.40, time step reduction 3 of 3 to 0.062...
- 019: dt: 0.1250, sse=923315.4, rms=1.402 (0.053%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 26 points - only 0.00% unknown
- deleting segment 1 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 212 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 4 with 1 points - only 0.00% unknown
- deleting segment 5 with 18 points - only 0.00% unknown
- deleting segment 6 with 5 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 13 points - only 0.00% unknown
- deleting segment 9 with 43 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 10 with 4 points - only 0.00% unknown
- mean border=77.3, 55 (17) missing vertices, mean dist -0.1 [0.2 (%70.9)->0.1 (%29.1))]
- %92 local maxima, % 5 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.90 +- 0.25 (0.10-->4.04) (max @ vno 106051 --> 101491)
- face area 0.34 +- 0.16 (0.00-->2.33)
- mean absolute distance = 0.14 +- 0.22
- 2644 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1192736.1, rms=3.360
- rms = 4.76, time step reduction 1 of 3 to 0.250...
- 020: dt: 0.2500, sse=965062.1, rms=2.036 (39.401%)
- 021: dt: 0.2500, sse=917454.1, rms=1.597 (21.569%)
- rms = 1.60, time step reduction 2 of 3 to 0.125...
- 022: dt: 0.1250, sse=902913.9, rms=1.468 (8.105%)
- 023: dt: 0.1250, sse=886799.7, rms=1.275 (13.133%)
- rms = 1.24, time step reduction 3 of 3 to 0.062...
- 024: dt: 0.1250, sse=881978.6, rms=1.239 (2.833%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 26 points - only 0.00% unknown
- deleting segment 1 with 7 points - only 0.00% unknown
- deleting segment 2 with 228 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 points - only 0.00% unknown
- deleting segment 4 with 18 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- deleting segment 6 with 10 points - only 0.00% unknown
- deleting segment 7 with 44 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 8 with 4 points - only 0.00% unknown
- mean border=78.0, 58 (14) missing vertices, mean dist -0.0 [0.1 (%55.2)->0.1 (%44.8))]
- %92 local maxima, % 4 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-6.0.0/0050774/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=902672.7, rms=1.564
- rms = 3.06, time step reduction 1 of 3 to 0.250...
- 025: dt: 0.2500, sse=854222.1, rms=0.955 (38.902%)
- rms = 0.93, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=853098.2, rms=0.932 (2.400%)
- rms = 0.89, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=850071.9, rms=0.893 (4.198%)
- positioning took 0.5 minutes
- generating cortex label...
- 6 non-cortical segments detected
- only using segment with 7177 vertices
- erasing segment 1 (vno[0] = 110920)
- erasing segment 2 (vno[0] = 116728)
- erasing segment 3 (vno[0] = 116750)
- erasing segment 4 (vno[0] = 117785)
- erasing segment 5 (vno[0] = 127175)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.area
- vertex spacing 0.90 +- 0.25 (0.06-->4.07) (max @ vno 101491 --> 106051)
- face area 0.34 +- 0.16 (0.00-->2.39)
- 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 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- deleting segment 5 with 1 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=41.3, 100 (100) missing vertices, mean dist 1.3 [1.0 (%0.0)->2.9 (%100.0))]
- % 7 local maxima, %38 large gradients and %52 min vals, 532 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=45468100.0, rms=37.350
- 001: dt: 0.0500, sse=38472716.0, rms=34.300 (8.166%)
- 002: dt: 0.0500, sse=33537850.0, rms=31.974 (6.782%)
- 003: dt: 0.0500, sse=29840780.0, rms=30.113 (5.818%)
- 004: dt: 0.0500, sse=26928134.0, rms=28.562 (5.150%)
- 005: dt: 0.0500, sse=24543738.0, rms=27.227 (4.676%)
- 006: dt: 0.0500, sse=22539992.0, rms=26.052 (4.316%)
- 007: dt: 0.0500, sse=20822942.0, rms=25.001 (4.034%)
- 008: dt: 0.0500, sse=19328264.0, rms=24.048 (3.809%)
- 009: dt: 0.0500, sse=18012466.0, rms=23.178 (3.621%)
- 010: dt: 0.0500, sse=16844910.0, rms=22.376 (3.457%)
- positioning took 1.1 minutes
- mean border=41.1, 97 (56) missing vertices, mean dist 1.2 [0.2 (%0.0)->2.5 (%100.0))]
- % 7 local maxima, %38 large gradients and %51 min vals, 477 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=17705262.0, rms=22.973
- 011: dt: 0.0500, sse=16655621.0, rms=22.248 (3.158%)
- 012: dt: 0.0500, sse=15712582.0, rms=21.575 (3.023%)
- 013: dt: 0.0500, sse=14861958.0, rms=20.950 (2.898%)
- 014: dt: 0.0500, sse=14092713.0, rms=20.368 (2.778%)
- 015: dt: 0.0500, sse=13396198.0, rms=19.826 (2.660%)
- 016: dt: 0.0500, sse=12765200.0, rms=19.322 (2.543%)
- 017: dt: 0.0500, sse=12192287.0, rms=18.853 (2.430%)
- 018: dt: 0.0500, sse=11671726.0, rms=18.416 (2.318%)
- 019: dt: 0.0500, sse=11197539.0, rms=18.008 (2.212%)
- 020: dt: 0.0500, sse=10764760.0, rms=17.628 (2.111%)
- positioning took 1.1 minutes
- mean border=41.1, 104 (41) missing vertices, mean dist 1.0 [0.1 (%0.7)->2.2 (%99.3))]
- % 8 local maxima, %38 large gradients and %51 min vals, 515 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=10844214.0, rms=17.706
- 021: dt: 0.0500, sse=10445073.0, rms=17.350 (2.014%)
- 022: dt: 0.0500, sse=10079579.0, rms=17.017 (1.920%)
- 023: dt: 0.0500, sse=9743185.0, rms=16.704 (1.837%)
- 024: dt: 0.0500, sse=9433824.0, rms=16.411 (1.753%)
- 025: dt: 0.0500, sse=9148286.0, rms=16.136 (1.676%)
- 026: dt: 0.0500, sse=8883640.0, rms=15.877 (1.607%)
- 027: dt: 0.0500, sse=8636955.0, rms=15.631 (1.548%)
- 028: dt: 0.0500, sse=8405211.0, rms=15.397 (1.500%)
- 029: dt: 0.0500, sse=8186720.0, rms=15.172 (1.458%)
- 030: dt: 0.0500, sse=7979687.5, rms=14.956 (1.423%)
- positioning took 1.1 minutes
- mean border=41.0, 148 (31) missing vertices, mean dist 0.9 [0.1 (%5.1)->2.0 (%94.9))]
- % 8 local maxima, %38 large gradients and %51 min vals, 448 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=8051570.0, rms=15.033
- 031: dt: 0.5000, sse=6583047.0, rms=13.410 (10.796%)
- 032: dt: 0.5000, sse=5565899.5, rms=12.151 (9.385%)
- 033: dt: 0.5000, sse=4792883.5, rms=11.098 (8.669%)
- 034: dt: 0.5000, sse=4195760.0, rms=10.205 (8.046%)
- 035: dt: 0.5000, sse=3705773.5, rms=9.409 (7.798%)
- 036: dt: 0.5000, sse=3284319.2, rms=8.666 (7.900%)
- 037: dt: 0.5000, sse=2902388.2, rms=7.936 (8.419%)
- 038: dt: 0.5000, sse=2590339.2, rms=7.286 (8.192%)
- 039: dt: 0.5000, sse=2341005.2, rms=6.725 (7.708%)
- 040: dt: 0.5000, sse=2153446.2, rms=6.268 (6.789%)
- 041: dt: 0.5000, sse=2013262.4, rms=5.907 (5.756%)
- 042: dt: 0.5000, sse=1930530.4, rms=5.681 (3.829%)
- 043: dt: 0.5000, sse=1870028.5, rms=5.512 (2.981%)
- 044: dt: 0.5000, sse=1837993.6, rms=5.418 (1.700%)
- 045: dt: 0.5000, sse=1813006.0, rms=5.346 (1.332%)
- rms = 5.31, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1799871.1, rms=5.305 (0.761%)
- 047: dt: 0.2500, sse=1715011.0, rms=5.006 (5.647%)
- 048: dt: 0.2500, sse=1689637.0, rms=4.924 (1.629%)
- rms = 4.93, time step reduction 2 of 3 to 0.125...
- rms = 4.90, time step reduction 3 of 3 to 0.062...
- 049: dt: 0.1250, sse=1683509.0, rms=4.902 (0.452%)
- positioning took 3.2 minutes
- mean border=40.4, 3805 (4) missing vertices, mean dist 0.1 [0.2 (%51.9)->0.6 (%48.1))]
- %17 local maxima, %31 large gradients and %47 min vals, 167 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=1945048.0, rms=4.853
- 050: dt: 0.5000, sse=1853848.0, rms=4.553 (6.190%)
- rms = 4.53, time step reduction 1 of 3 to 0.250...
- 051: dt: 0.5000, sse=1834476.9, rms=4.526 (0.599%)
- 052: dt: 0.2500, sse=1753212.4, rms=4.166 (7.942%)
- 053: dt: 0.2500, sse=1727810.0, rms=4.071 (2.292%)
- rms = 4.08, time step reduction 2 of 3 to 0.125...
- rms = 4.04, time step reduction 3 of 3 to 0.062...
- 054: dt: 0.1250, sse=1719929.6, rms=4.036 (0.855%)
- positioning took 1.2 minutes
- mean border=39.7, 3970 (2) missing vertices, mean dist 0.1 [0.2 (%47.7)->0.4 (%52.3))]
- %31 local maxima, %18 large gradients and %46 min vals, 208 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=1793889.9, rms=4.288
- rms = 4.58, time step reduction 1 of 3 to 0.250...
- 055: dt: 0.2500, sse=1755815.1, rms=4.134 (3.572%)
- rms = 4.12, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=1752238.1, rms=4.120 (0.344%)
- 057: dt: 0.1250, sse=1740289.4, rms=4.070 (1.230%)
- rms = 4.05, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1735308.9, rms=4.053 (0.399%)
- positioning took 1.0 minutes
- mean border=39.1, 7640 (2) missing vertices, mean dist 0.1 [0.2 (%48.2)->0.3 (%51.8))]
- %33 local maxima, %14 large gradients and %44 min vals, 202 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-6.0.0/0050774/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1773270.4, rms=4.200
- rms = 4.24, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.2500, sse=1743519.1, rms=4.085 (2.733%)
- 060: dt: 0.2500, sse=1701757.9, rms=3.938 (3.588%)
- 061: dt: 0.2500, sse=1679403.1, rms=3.858 (2.035%)
- 062: dt: 0.2500, sse=1649710.6, rms=3.749 (2.830%)
- rms = 3.71, time step reduction 2 of 3 to 0.125...
- 063: dt: 0.2500, sse=1640192.9, rms=3.713 (0.948%)
- 064: dt: 0.1250, sse=1614001.6, rms=3.595 (3.199%)
- rms = 3.56, time step reduction 3 of 3 to 0.062...
- 065: dt: 0.1250, sse=1605396.2, rms=3.561 (0.930%)
- positioning took 1.8 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.area.pial
- vertex spacing 1.05 +- 0.47 (0.06-->7.25) (max @ vno 106051 --> 101491)
- face area 0.43 +- 0.34 (0.00-->6.64)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 165743 vertices processed
- 25000 of 165743 vertices processed
- 50000 of 165743 vertices processed
- 75000 of 165743 vertices processed
- 100000 of 165743 vertices processed
- 125000 of 165743 vertices processed
- 150000 of 165743 vertices processed
- 0 of 165743 vertices processed
- 25000 of 165743 vertices processed
- 50000 of 165743 vertices processed
- 75000 of 165743 vertices processed
- 100000 of 165743 vertices processed
- 125000 of 165743 vertices processed
- 150000 of 165743 vertices processed
- thickness calculation complete, 316:1669 truncations.
- 32863 vertices at 0 distance
- 108036 vertices at 1 distance
- 106024 vertices at 2 distance
- 48985 vertices at 3 distance
- 16518 vertices at 4 distance
- 5009 vertices at 5 distance
- 1576 vertices at 6 distance
- 541 vertices at 7 distance
- 243 vertices at 8 distance
- 112 vertices at 9 distance
- 93 vertices at 10 distance
- 73 vertices at 11 distance
- 62 vertices at 12 distance
- 42 vertices at 13 distance
- 27 vertices at 14 distance
- 31 vertices at 15 distance
- 24 vertices at 16 distance
- 20 vertices at 17 distance
- 15 vertices at 18 distance
- 20 vertices at 19 distance
- 18 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.thickness
- positioning took 19.2 minutes
- PIDs (16258 16261) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 00:11:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.cortex.label
- Total face volume 345839
- Total vertex volume 341154 (mask=0)
- #@# 0050774 lh 341154
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 00:11:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.cortex.label
- Total face volume 345516
- Total vertex volume 341459 (mask=0)
- #@# 0050774 rh 341459
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 00:11:47 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774
- 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 = 684
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/ribbon.mgz
- mris_volmask took 21.76 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 00:33:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 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 0050774 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 00:33:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 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 0050774 rh pial
- Waiting for PID 18389 of (18389 18392 18395 18398) to complete...
- Waiting for PID 18392 of (18389 18392 18395 18398) to complete...
- Waiting for PID 18395 of (18389 18392 18395 18398) to complete...
- Waiting for PID 18398 of (18389 18392 18395 18398) 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 0050774 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345839
- Total vertex volume 341154 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 2209 1529 4108 2.850 0.484 0.108 0.020 18 1.6 bankssts
- 950 640 1968 2.647 0.797 0.128 0.019 14 0.7 caudalanteriorcingulate
- 4042 2766 8667 2.729 0.564 0.115 0.021 40 3.4 caudalmiddlefrontal
- 2382 1675 3590 2.010 0.402 0.144 0.028 36 2.9 cuneus
- 815 572 2227 3.278 0.684 0.110 0.023 7 0.8 entorhinal
- 6515 4400 15207 2.976 0.531 0.120 0.023 87 6.0 fusiform
- 7682 5182 16925 2.857 0.610 0.116 0.021 94 6.8 inferiorparietal
- 6114 4099 15214 3.014 0.675 0.116 0.024 78 5.5 inferiortemporal
- 2176 1431 4582 2.645 1.003 0.138 0.033 40 2.7 isthmuscingulate
- 7689 5085 14090 2.415 0.605 0.137 0.029 112 9.1 lateraloccipital
- 5446 3666 12501 3.066 0.799 0.135 0.034 82 7.8 lateralorbitofrontal
- 4695 3261 8614 2.382 0.613 0.138 0.031 75 6.0 lingual
- 3388 2329 7104 2.711 0.669 0.129 0.030 59 4.2 medialorbitofrontal
- 6611 4380 17929 3.177 0.688 0.117 0.023 93 6.2 middletemporal
- 1352 888 3066 3.017 0.704 0.091 0.021 14 1.0 parahippocampal
- 2107 1378 4513 2.851 0.620 0.105 0.017 17 1.5 paracentral
- 2492 1696 5573 2.771 0.601 0.107 0.022 31 2.2 parsopercularis
- 1493 1005 4348 3.237 0.562 0.128 0.032 23 1.9 parsorbitalis
- 2389 1588 4749 2.686 0.460 0.114 0.020 26 1.8 parstriangularis
- 1963 1412 2628 2.065 0.449 0.139 0.029 26 2.2 pericalcarine
- 7236 4797 12417 2.234 0.687 0.112 0.021 81 5.7 postcentral
- 2070 1403 4328 2.691 0.960 0.135 0.024 38 2.0 posteriorcingulate
- 8178 5481 17347 2.799 0.544 0.113 0.020 89 6.7 precentral
- 7802 5418 16211 2.723 0.522 0.126 0.023 111 7.4 precuneus
- 1422 983 3555 3.140 0.735 0.149 0.039 30 2.4 rostralanteriorcingulate
- 12502 8668 26964 2.694 0.525 0.132 0.027 202 13.8 rostralmiddlefrontal
- 12153 8369 29237 3.016 0.574 0.124 0.025 155 12.1 superiorfrontal
- 10810 7110 20891 2.566 0.491 0.123 0.022 141 9.5 superiorparietal
- 8125 5341 20965 3.236 0.605 0.103 0.019 83 6.4 superiortemporal
- 7805 5372 17623 2.899 0.574 0.123 0.023 105 7.5 supramarginal
- 521 341 1270 2.708 0.501 0.159 0.040 13 0.9 frontalpole
- 790 529 2525 3.429 0.581 0.123 0.036 12 1.0 temporalpole
- 786 491 1656 3.055 0.431 0.127 0.019 10 0.6 transversetemporal
- 3965 2668 8516 3.195 0.685 0.121 0.031 49 5.0 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 0050774 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345839
- Total vertex volume 341154 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 2209 1404 4108 2.850 0.484 0.138 0.039 41 3.9 bankssts
- 950 808 1968 2.647 0.797 0.163 0.041 23 1.7 caudalanteriorcingulate
- 4042 3355 8667 2.729 0.564 0.151 0.036 55 6.6 caudalmiddlefrontal
- 2382 2009 3590 2.010 0.402 0.154 0.036 33 3.9 cuneus
- 815 807 2227 3.278 0.684 0.188 0.047 20 1.8 entorhinal
- 6515 5855 15207 2.976 0.531 0.161 0.039 108 12.2 fusiform
- 7682 6581 16925 2.857 0.610 0.144 0.033 103 11.7 inferiorparietal
- 6114 5666 15214 3.014 0.675 0.163 0.038 109 10.7 inferiortemporal
- 2176 1925 4582 2.645 1.003 0.174 0.048 49 4.9 isthmuscingulate
- 7689 6494 14090 2.415 0.605 0.150 0.038 138 12.7 lateraloccipital
- 5446 4448 12501 3.066 0.799 0.155 0.041 106 10.3 lateralorbitofrontal
- 4695 4167 8614 2.382 0.613 0.165 0.041 87 9.0 lingual
- 3388 2899 7104 2.711 0.669 0.172 0.044 62 7.0 medialorbitofrontal
- 6611 6417 17929 3.177 0.688 0.156 0.036 87 11.1 middletemporal
- 1352 1179 3066 3.017 0.704 0.167 0.196 114 17.8 parahippocampal
- 2107 1747 4513 2.851 0.620 0.133 0.032 24 2.9 paracentral
- 2492 2261 5573 2.771 0.601 0.176 0.041 38 4.9 parsopercularis
- 1493 1651 4348 3.237 0.562 0.183 0.042 23 2.9 parsorbitalis
- 2389 1924 4749 2.686 0.460 0.152 0.036 38 3.9 parstriangularis
- 1963 1194 2628 2.065 0.449 0.124 0.032 38 2.6 pericalcarine
- 7236 6237 12417 2.234 0.687 0.148 0.031 88 10.2 postcentral
- 2070 1764 4328 2.691 0.960 0.159 0.041 41 4.0 posteriorcingulate
- 8178 6734 17347 2.799 0.544 0.137 0.029 111 11.0 precentral
- 7802 6347 16211 2.723 0.522 0.148 0.037 124 12.5 precuneus
- 1422 1401 3555 3.140 0.735 0.200 0.055 30 3.9 rostralanteriorcingulate
- 12502 11304 26964 2.694 0.525 0.167 0.038 209 21.4 rostralmiddlefrontal
- 12153 10672 29237 3.016 0.574 0.160 0.039 206 21.1 superiorfrontal
- 10810 8981 20891 2.566 0.491 0.150 0.035 158 16.8 superiorparietal
- 8125 7381 20965 3.236 0.605 0.163 0.041 121 16.0 superiortemporal
- 7805 6773 17623 2.899 0.574 0.152 0.037 116 12.8 supramarginal
- 521 603 1270 2.708 0.501 0.204 0.043 7 1.1 frontalpole
- 790 984 2525 3.429 0.581 0.208 0.048 11 1.9 temporalpole
- 786 666 1656 3.055 0.431 0.171 0.055 13 1.9 transversetemporal
- 3965 2644 8516 3.195 0.685 0.165 0.053 110 9.7 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 0050774 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345516
- Total vertex volume 341459 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 1674 1179 3352 2.862 0.491 0.112 0.019 15 1.4 bankssts
- 921 591 1459 2.169 0.714 0.124 0.017 14 0.6 caudalanteriorcingulate
- 4210 2831 9227 2.848 0.529 0.112 0.022 55 3.5 caudalmiddlefrontal
- 2656 1755 4577 2.211 0.463 0.134 0.029 36 3.3 cuneus
- 576 407 1699 3.374 0.644 0.115 0.025 6 0.6 entorhinal
- 5604 3805 12865 2.938 0.609 0.124 0.028 74 6.3 fusiform
- 10135 6815 21908 2.792 0.559 0.122 0.023 133 9.3 inferiorparietal
- 5760 3821 12822 2.921 0.721 0.130 0.031 90 7.3 inferiortemporal
- 1717 1152 3841 2.536 0.963 0.125 0.029 30 1.7 isthmuscingulate
- 8293 5518 15878 2.475 0.579 0.136 0.029 123 9.4 lateraloccipital
- 4812 3287 10635 2.944 0.637 0.136 0.033 79 6.2 lateralorbitofrontal
- 5293 3615 10255 2.468 0.664 0.146 0.033 93 7.2 lingual
- 3026 2122 6796 2.741 0.704 0.138 0.034 52 4.9 medialorbitofrontal
- 6897 4698 20105 3.330 0.668 0.117 0.023 97 6.9 middletemporal
- 1046 678 2297 2.882 0.675 0.088 0.019 7 0.7 parahippocampal
- 2359 1558 4487 2.647 0.540 0.114 0.021 22 1.9 paracentral
- 2176 1459 4552 2.862 0.473 0.108 0.022 24 1.8 parsopercularis
- 1613 1050 4015 2.950 0.568 0.120 0.027 25 1.4 parsorbitalis
- 2653 1821 6109 2.804 0.543 0.122 0.022 42 2.4 parstriangularis
- 2379 1667 2954 1.972 0.436 0.138 0.031 34 2.9 pericalcarine
- 6699 4422 11138 2.258 0.676 0.114 0.023 79 5.6 postcentral
- 2108 1428 4065 2.517 0.863 0.130 0.025 38 2.4 posteriorcingulate
- 7322 4888 15982 2.852 0.575 0.108 0.018 65 5.4 precentral
- 8243 5583 15969 2.669 0.571 0.128 0.025 113 8.9 precuneus
- 1089 729 2444 2.927 0.592 0.149 0.037 23 2.1 rostralanteriorcingulate
- 12943 8938 28434 2.708 0.543 0.136 0.032 223 17.0 rostralmiddlefrontal
- 13524 9369 32052 2.946 0.564 0.122 0.025 176 13.3 superiorfrontal
- 11290 7547 21117 2.442 0.509 0.121 0.021 146 9.5 superiorparietal
- 7793 5205 19402 3.191 0.651 0.105 0.020 82 6.1 superiortemporal
- 6891 4694 15596 2.963 0.573 0.114 0.022 83 6.2 supramarginal
- 584 402 1438 2.665 0.569 0.141 0.034 14 0.8 frontalpole
- 850 580 3384 4.037 0.695 0.137 0.036 12 1.3 temporalpole
- 659 418 1378 2.929 0.441 0.129 0.023 10 0.6 transversetemporal
- 4501 2948 9213 3.123 0.783 0.117 0.034 63 5.9 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 0050774 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345516
- Total vertex volume 341459 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 1674 1135 3352 2.862 0.491 0.134 0.037 26 2.7 bankssts
- 921 766 1459 2.169 0.714 0.169 0.045 24 1.8 caudalanteriorcingulate
- 4210 3554 9227 2.848 0.529 0.143 0.033 54 6.3 caudalmiddlefrontal
- 2656 2423 4577 2.211 0.463 0.161 0.038 39 4.6 cuneus
- 576 619 1699 3.374 0.644 0.194 0.058 15 1.6 entorhinal
- 5604 4867 12865 2.938 0.609 0.160 0.041 140 10.2 fusiform
- 10135 8324 21908 2.792 0.559 0.148 0.034 150 15.5 inferiorparietal
- 5760 4819 12822 2.921 0.721 0.152 0.039 100 10.5 inferiortemporal
- 1717 1736 3841 2.536 0.963 0.192 0.050 38 3.8 isthmuscingulate
- 8293 7208 15878 2.475 0.579 0.154 0.037 137 14.3 lateraloccipital
- 4812 3959 10635 2.944 0.637 0.162 0.045 88 9.7 lateralorbitofrontal
- 5293 4742 10255 2.468 0.664 0.165 0.042 85 10.4 lingual
- 3026 2896 6796 2.741 0.704 0.178 0.044 56 6.4 medialorbitofrontal
- 6897 7256 20105 3.330 0.668 0.166 0.037 87 12.1 middletemporal
- 1046 897 2297 2.882 0.675 0.148 0.038 16 1.8 parahippocampal
- 2359 1806 4487 2.647 0.540 0.140 0.034 37 3.8 paracentral
- 2176 1741 4552 2.862 0.473 0.154 0.039 38 4.0 parsopercularis
- 1613 1650 4015 2.950 0.568 0.172 0.038 22 2.8 parsorbitalis
- 2653 2549 6109 2.804 0.543 0.177 0.039 45 5.0 parstriangularis
- 2379 1455 2954 1.972 0.436 0.131 0.037 41 3.6 pericalcarine
- 6699 5441 11138 2.258 0.676 0.144 0.031 90 9.5 postcentral
- 2108 1737 4065 2.517 0.863 0.160 0.042 39 3.9 posteriorcingulate
- 7322 6031 15982 2.852 0.575 0.133 0.030 93 10.3 precentral
- 8243 6384 15969 2.669 0.571 0.150 0.039 132 14.5 precuneus
- 1089 996 2444 2.927 0.592 0.206 0.057 31 3.1 rostralanteriorcingulate
- 12943 12016 28434 2.708 0.543 0.176 0.040 255 24.9 rostralmiddlefrontal
- 13524 12018 32052 2.946 0.564 0.156 0.037 197 22.4 superiorfrontal
- 11290 9545 21117 2.442 0.509 0.147 0.033 158 16.4 superiorparietal
- 7793 6949 19402 3.191 0.651 0.164 0.042 117 15.3 superiortemporal
- 6891 5828 15596 2.963 0.573 0.156 0.036 111 11.5 supramarginal
- 584 682 1438 2.665 0.569 0.191 0.042 6 1.2 frontalpole
- 850 1100 3384 4.037 0.695 0.209 0.050 12 2.1 temporalpole
- 659 562 1378 2.929 0.441 0.168 0.053 8 1.7 transversetemporal
- 4501 3115 9213 3.123 0.783 0.166 0.066 147 12.5 insula
- PIDs (18389 18392 18395 18398) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 00:35:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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 00:35:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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 18482 of (18482 18485) to complete...
- Waiting for PID 18485 of (18482 18485) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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...
- 59 labels changed using aseg
- relabeling using gibbs priors...
- 000: 11063 changed, 164375 examined...
- 001: 2664 changed, 42695 examined...
- 002: 844 changed, 13731 examined...
- 003: 334 changed, 4713 examined...
- 004: 152 changed, 1929 examined...
- 005: 81 changed, 862 examined...
- 006: 36 changed, 453 examined...
- 007: 23 changed, 221 examined...
- 008: 6 changed, 103 examined...
- 009: 1 changed, 30 examined...
- 010: 0 changed, 6 examined...
- 1 labels changed using aseg
- 000: 290 total segments, 206 labels (3846 vertices) changed
- 001: 107 total segments, 23 labels (203 vertices) changed
- 002: 85 total segments, 1 labels (2 vertices) changed
- 003: 84 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 49 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1232 vertices marked for relabeling...
- 1232 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 22 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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...
- 15 labels changed using aseg
- relabeling using gibbs priors...
- 000: 11194 changed, 165743 examined...
- 001: 2601 changed, 43564 examined...
- 002: 783 changed, 13460 examined...
- 003: 359 changed, 4355 examined...
- 004: 152 changed, 2031 examined...
- 005: 81 changed, 894 examined...
- 006: 48 changed, 439 examined...
- 007: 22 changed, 289 examined...
- 008: 16 changed, 123 examined...
- 009: 5 changed, 83 examined...
- 010: 1 changed, 36 examined...
- 011: 2 changed, 6 examined...
- 012: 2 changed, 13 examined...
- 013: 1 changed, 10 examined...
- 014: 1 changed, 7 examined...
- 015: 2 changed, 7 examined...
- 016: 2 changed, 10 examined...
- 017: 1 changed, 10 examined...
- 018: 0 changed, 7 examined...
- 0 labels changed using aseg
- 000: 336 total segments, 244 labels (3267 vertices) changed
- 001: 107 total segments, 14 labels (66 vertices) changed
- 002: 93 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 54 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1440 vertices marked for relabeling...
- 1440 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 22 seconds.
- PIDs (18482 18485) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 00:35:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 00:35:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 rh white
- Waiting for PID 18546 of (18546 18549) to complete...
- Waiting for PID 18549 of (18546 18549) 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 0050774 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345839
- Total vertex volume 341154 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 1827 1292 3986 2.820 0.529 0.140 0.031 28 2.3 G&S_frontomargin
- 1990 1319 4606 2.746 0.695 0.134 0.026 28 2.0 G&S_occipital_inf
- 1800 1136 3707 2.529 0.688 0.113 0.021 21 1.4 G&S_paracentral
- 2150 1473 5121 2.821 0.651 0.130 0.029 32 2.6 G&S_subcentral
- 1034 726 2497 2.694 0.488 0.157 0.037 24 1.6 G&S_transv_frontopol
- 2434 1725 5584 3.107 0.562 0.138 0.032 38 3.3 G&S_cingul-Ant
- 1318 915 2759 2.963 0.488 0.098 0.016 9 0.9 G&S_cingul-Mid-Ant
- 1565 1070 3251 3.009 0.599 0.132 0.025 22 1.7 G&S_cingul-Mid-Post
- 1000 674 3142 3.325 0.760 0.167 0.037 25 1.6 G_cingul-Post-dorsal
- 369 249 935 2.896 0.878 0.140 0.030 6 0.3 G_cingul-Post-ventral
- 2243 1537 3784 2.062 0.478 0.149 0.031 39 3.0 G_cuneus
- 1491 1005 4130 3.038 0.491 0.117 0.031 24 1.7 G_front_inf-Opercular
- 604 396 2116 3.474 0.548 0.132 0.028 11 0.6 G_front_inf-Orbital
- 1408 935 3693 2.822 0.589 0.137 0.030 27 1.6 G_front_inf-Triangul
- 6191 4204 15161 2.779 0.525 0.134 0.029 115 7.6 G_front_middle
- 8284 5651 23559 3.167 0.578 0.135 0.029 136 9.5 G_front_sup
- 792 556 1807 3.159 0.890 0.146 0.046 15 1.6 G_Ins_lg&S_cent_ins
- 990 636 3081 3.466 0.712 0.124 0.039 21 1.3 G_insular_short
- 1743 1124 4702 2.978 0.685 0.141 0.030 38 1.9 G_occipital_middle
- 1765 1145 3501 2.422 0.574 0.144 0.031 25 2.1 G_occipital_sup
- 3105 2000 7878 3.101 0.476 0.132 0.028 57 3.3 G_oc-temp_lat-fusifor
- 3082 2127 6158 2.371 0.678 0.152 0.038 63 4.8 G_oc-temp_med-Lingual
- 1655 1144 4999 3.295 0.733 0.114 0.025 21 1.5 G_oc-temp_med-Parahip
- 3315 2213 8962 2.997 0.870 0.146 0.043 64 6.0 G_orbital
- 3204 2106 8583 3.060 0.656 0.127 0.025 51 3.2 G_pariet_inf-Angular
- 4260 2894 11306 3.037 0.612 0.133 0.027 77 4.6 G_pariet_inf-Supramar
- 3851 2525 9137 2.679 0.530 0.131 0.026 72 3.8 G_parietal_sup
- 2842 1847 5140 2.279 0.555 0.119 0.022 36 2.5 G_postcentral
- 2977 1958 7853 3.003 0.507 0.122 0.020 42 2.4 G_precentral
- 4002 2794 10672 2.891 0.539 0.138 0.026 78 4.3 G_precuneus
- 992 646 2202 2.375 0.775 0.146 0.050 23 2.1 G_rectus
- 718 437 1480 2.987 0.779 0.108 0.030 9 0.9 G_subcallosal
- 604 359 1392 2.999 0.437 0.119 0.019 9 0.4 G_temp_sup-G_T_transv
- 2968 1894 10195 3.532 0.627 0.133 0.028 54 3.3 G_temp_sup-Lateral
- 983 670 2776 3.372 0.626 0.103 0.025 9 1.0 G_temp_sup-Plan_polar
- 1331 923 3067 2.910 0.482 0.076 0.011 6 0.5 G_temp_sup-Plan_tempo
- 3164 2072 8876 3.076 0.730 0.124 0.030 53 3.4 G_temporal_inf
- 3856 2541 12788 3.357 0.788 0.131 0.029 72 4.7 G_temporal_middle
- 429 292 670 2.568 0.264 0.092 0.011 2 0.2 Lat_Fis-ant-Horizont
- 386 284 640 2.527 0.540 0.097 0.012 2 0.2 Lat_Fis-ant-Vertical
- 1447 958 2177 3.026 0.481 0.110 0.018 9 1.1 Lat_Fis-post
- 2094 1394 3365 2.071 0.497 0.145 0.036 34 3.2 Pole_occipital
- 2169 1493 7308 3.393 0.681 0.142 0.037 41 3.1 Pole_temporal
- 2394 1703 3219 2.228 0.603 0.128 0.026 27 2.5 S_calcarine
- 2985 2021 3675 2.012 0.563 0.099 0.016 18 1.9 S_central
- 1188 821 1913 2.558 0.361 0.087 0.010 6 0.5 S_cingul-Marginalis
- 673 456 1242 3.336 0.522 0.093 0.015 3 0.4 S_circular_insula_ant
- 1748 1139 3074 3.133 0.609 0.088 0.016 8 1.2 S_circular_insula_inf
- 1958 1311 3040 2.964 0.374 0.097 0.015 8 1.4 S_circular_insula_sup
- 1131 791 1874 2.764 0.335 0.099 0.014 6 0.7 S_collat_transv_ant
- 694 483 872 2.203 0.350 0.139 0.026 7 0.8 S_collat_transv_post
- 3077 2113 5771 2.501 0.509 0.122 0.022 42 2.6 S_front_inf
- 2132 1505 3798 2.685 0.419 0.118 0.020 21 1.7 S_front_middle
- 3977 2799 7436 2.608 0.489 0.104 0.018 33 2.8 S_front_sup
- 338 232 596 2.845 0.621 0.117 0.023 2 0.3 S_interm_prim-Jensen
- 4191 2835 6306 2.511 0.401 0.108 0.018 34 3.1 S_intrapariet&P_trans
- 946 638 1368 2.307 0.408 0.139 0.024 12 1.0 S_oc_middle&Lunatus
- 1577 1058 2244 2.437 0.369 0.117 0.020 13 1.3 S_oc_sup&transversal
- 1009 679 1515 2.537 0.348 0.104 0.020 5 0.8 S_occipital_ant
- 1264 868 1983 2.618 0.338 0.085 0.008 5 0.5 S_oc-temp_lat
- 2664 1840 4406 2.650 0.400 0.099 0.015 17 1.7 S_oc-temp_med&Lingual
- 615 428 883 2.547 0.373 0.105 0.019 4 0.5 S_orbital_lateral
- 861 635 1285 2.513 0.402 0.110 0.017 6 0.6 S_orbital_med-olfact
- 2178 1485 4828 3.270 0.610 0.133 0.028 30 2.4 S_orbital-H_Shaped
- 2827 1917 4298 2.434 0.505 0.123 0.021 32 2.6 S_parieto_occipital
- 1597 958 1402 1.716 0.739 0.125 0.022 32 1.1 S_pericallosal
- 3540 2411 5456 2.396 0.487 0.105 0.017 29 2.5 S_postcentral
- 1899 1297 2955 2.508 0.489 0.099 0.016 13 1.1 S_precentral-inf-part
- 1463 1024 2519 2.761 0.484 0.102 0.016 10 1.0 S_precentral-sup-part
- 1134 819 2300 2.806 0.507 0.129 0.021 20 1.0 S_suborbital
- 1755 1208 2886 2.724 0.412 0.111 0.019 13 1.5 S_subparietal
- 2000 1358 3402 2.854 0.428 0.093 0.012 10 1.0 S_temporal_inf
- 7921 5428 14961 2.866 0.458 0.100 0.016 59 5.4 S_temporal_sup
- 512 365 900 2.970 0.395 0.106 0.011 3 0.3 S_temporal_transverse
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 0050774 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345516
- Total vertex volume 341459 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 1262 903 2437 2.548 0.511 0.142 0.036 20 2.0 G&S_frontomargin
- 1668 1136 3680 2.668 0.541 0.119 0.023 23 1.4 G&S_occipital_inf
- 1688 1056 2998 2.352 0.449 0.118 0.025 20 1.7 G&S_paracentral
- 2072 1437 4475 2.857 0.566 0.133 0.024 31 2.0 G&S_subcentral
- 1621 1137 3652 2.577 0.443 0.145 0.029 35 2.0 G&S_transv_frontopol
- 3215 2263 7107 3.001 0.516 0.126 0.027 41 3.9 G&S_cingul-Ant
- 1673 1138 3107 2.584 0.493 0.118 0.022 25 1.5 G&S_cingul-Mid-Ant
- 1613 1147 3519 2.776 0.546 0.120 0.021 18 1.4 G&S_cingul-Mid-Post
- 826 538 2419 3.148 0.545 0.165 0.039 23 1.4 G_cingul-Post-dorsal
- 439 283 1387 3.145 0.780 0.125 0.030 7 0.4 G_cingul-Post-ventral
- 2505 1654 4318 2.143 0.514 0.151 0.037 45 3.8 G_cuneus
- 1840 1243 4941 3.066 0.539 0.124 0.025 29 2.0 G_front_inf-Opercular
- 543 353 1419 2.894 0.436 0.157 0.035 18 0.7 G_front_inf-Orbital
- 962 672 2927 3.063 0.585 0.141 0.030 20 1.0 G_front_inf-Triangul
- 5958 4021 16685 2.951 0.573 0.149 0.038 144 9.2 G_front_middle
- 8325 5717 23644 3.127 0.545 0.138 0.031 146 10.1 G_front_sup
- 784 526 1939 3.260 0.716 0.129 0.031 12 0.9 G_Ins_lg&S_cent_ins
- 796 503 2295 3.210 1.072 0.138 0.040 19 1.2 G_insular_short
- 2561 1635 6664 2.936 0.598 0.141 0.032 48 3.3 G_occipital_middle
- 2294 1438 4520 2.523 0.550 0.141 0.028 38 2.3 G_occipital_sup
- 2714 1758 7358 3.097 0.680 0.131 0.031 48 3.2 G_oc-temp_lat-fusifor
- 3317 2218 7183 2.535 0.708 0.158 0.040 66 5.3 G_oc-temp_med-Lingual
- 1231 813 3434 3.241 0.745 0.104 0.026 12 1.1 G_oc-temp_med-Parahip
- 3490 2384 10151 3.053 0.657 0.145 0.041 80 5.3 G_orbital
- 4371 2897 12579 3.150 0.637 0.139 0.030 81 5.1 G_pariet_inf-Angular
- 3496 2406 9571 3.080 0.538 0.124 0.025 58 3.4 G_pariet_inf-Supramar
- 3337 2204 7567 2.589 0.504 0.125 0.025 55 3.0 G_parietal_sup
- 2251 1421 3890 2.161 0.605 0.120 0.029 32 2.3 G_postcentral
- 2665 1748 7727 3.105 0.504 0.118 0.021 33 2.1 G_precentral
- 3592 2397 8673 2.727 0.525 0.135 0.027 72 4.2 G_precuneus
- 962 675 2071 2.388 0.835 0.178 0.059 25 2.9 G_rectus
- 660 424 1374 3.198 0.953 0.120 0.059 18 1.7 G_subcallosal
- 612 386 1362 2.795 0.372 0.114 0.021 9 0.5 G_temp_sup-G_T_transv
- 2632 1735 8398 3.491 0.634 0.126 0.027 41 2.6 G_temp_sup-Lateral
- 1506 974 3584 3.327 0.900 0.083 0.028 11 1.5 G_temp_sup-Plan_polar
- 1346 923 2959 2.947 0.404 0.105 0.016 15 0.9 G_temp_sup-Plan_tempo
- 2984 1972 8294 2.992 0.818 0.140 0.037 64 4.4 G_temporal_inf
- 3794 2584 13236 3.520 0.650 0.133 0.030 75 4.9 G_temporal_middle
- 390 269 598 2.527 0.451 0.089 0.008 2 0.1 Lat_Fis-ant-Horizont
- 204 156 376 2.588 0.301 0.121 0.017 1 0.2 Lat_Fis-ant-Vertical
- 1870 1247 3070 3.034 0.458 0.104 0.019 11 1.5 Lat_Fis-post
- 3665 2496 6284 2.164 0.535 0.155 0.034 68 5.1 Pole_occipital
- 2301 1580 7692 3.469 0.825 0.145 0.042 41 4.1 Pole_temporal
- 2695 1908 3657 2.328 0.723 0.133 0.026 34 3.1 S_calcarine
- 2550 1738 3045 2.002 0.585 0.098 0.014 14 1.5 S_central
- 1384 959 2229 2.446 0.422 0.103 0.020 11 1.3 S_cingul-Marginalis
- 806 556 1313 2.946 0.590 0.098 0.016 4 0.5 S_circular_insula_ant
- 1087 702 1640 2.861 0.575 0.084 0.014 4 0.6 S_circular_insula_inf
- 1604 1077 2785 3.040 0.498 0.094 0.015 7 1.0 S_circular_insula_sup
- 1103 793 2043 2.827 0.552 0.109 0.018 8 0.7 S_collat_transv_ant
- 571 381 796 2.616 0.398 0.125 0.029 4 0.8 S_collat_transv_post
- 2471 1696 4082 2.527 0.469 0.112 0.019 21 2.0 S_front_inf
- 4240 2932 7893 2.629 0.517 0.122 0.027 52 4.4 S_front_middle
- 4132 2855 7336 2.673 0.467 0.092 0.014 25 2.5 S_front_sup
- 279 194 623 3.153 0.700 0.106 0.020 2 0.2 S_interm_prim-Jensen
- 4846 3344 7205 2.306 0.464 0.106 0.016 43 3.5 S_intrapariet&P_trans
- 717 482 1080 2.340 0.441 0.113 0.020 6 0.5 S_oc_middle&Lunatus
- 1758 1158 2548 2.404 0.315 0.114 0.021 18 1.5 S_oc_sup&transversal
- 946 658 1716 2.644 0.464 0.124 0.022 10 0.9 S_occipital_ant
- 1096 760 1822 2.731 0.472 0.114 0.018 6 1.1 S_oc-temp_lat
- 2529 1746 4238 2.674 0.422 0.096 0.016 15 1.7 S_oc-temp_med&Lingual
- 645 428 944 2.576 0.356 0.087 0.014 3 0.4 S_orbital_lateral
- 898 636 1457 2.662 0.504 0.107 0.014 6 0.5 S_orbital_med-olfact
- 1928 1287 3647 2.928 0.522 0.128 0.027 21 2.2 S_orbital-H_Shaped
- 3040 2062 4715 2.450 0.556 0.114 0.018 27 2.2 S_parieto_occipital
- 1726 1068 1412 1.627 0.596 0.108 0.016 24 1.0 S_pericallosal
- 3208 2130 4564 2.344 0.387 0.096 0.014 23 1.8 S_postcentral
- 1622 1085 2602 2.664 0.424 0.091 0.014 8 1.0 S_precentral-inf-part
- 1674 1138 2651 2.783 0.394 0.092 0.013 6 1.0 S_precentral-sup-part
- 237 162 485 2.774 0.695 0.083 0.013 1 0.1 S_suborbital
- 1936 1360 3443 2.725 0.481 0.129 0.025 20 2.1 S_subparietal
- 2039 1377 3123 2.739 0.441 0.100 0.015 11 1.3 S_temporal_inf
- 7935 5452 14193 2.811 0.473 0.103 0.017 59 5.6 S_temporal_sup
- 377 273 610 2.743 0.605 0.116 0.013 3 0.3 S_temporal_transverse
- PIDs (18546 18549) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 00:36:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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 00:36:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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 18608 of (18608 18611) to complete...
- Waiting for PID 18611 of (18608 18611) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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...
- 1230 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2303 changed, 164375 examined...
- 001: 540 changed, 10573 examined...
- 002: 157 changed, 3127 examined...
- 003: 62 changed, 925 examined...
- 004: 35 changed, 404 examined...
- 005: 17 changed, 189 examined...
- 006: 11 changed, 91 examined...
- 007: 8 changed, 72 examined...
- 008: 2 changed, 45 examined...
- 009: 1 changed, 9 examined...
- 010: 1 changed, 7 examined...
- 011: 2 changed, 7 examined...
- 012: 2 changed, 10 examined...
- 013: 2 changed, 14 examined...
- 014: 3 changed, 16 examined...
- 015: 2 changed, 19 examined...
- 016: 1 changed, 13 examined...
- 017: 1 changed, 8 examined...
- 018: 0 changed, 7 examined...
- 196 labels changed using aseg
- 000: 56 total segments, 23 labels (122 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 7 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 778 vertices marked for relabeling...
- 778 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 17 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050774 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...
- 1084 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2375 changed, 165743 examined...
- 001: 555 changed, 10891 examined...
- 002: 144 changed, 3136 examined...
- 003: 54 changed, 858 examined...
- 004: 23 changed, 338 examined...
- 005: 13 changed, 151 examined...
- 006: 6 changed, 75 examined...
- 007: 7 changed, 38 examined...
- 008: 4 changed, 36 examined...
- 009: 0 changed, 20 examined...
- 101 labels changed using aseg
- 000: 64 total segments, 31 labels (283 vertices) changed
- 001: 34 total segments, 1 labels (2 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 7 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1201 vertices marked for relabeling...
- 1201 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 18 seconds.
- PIDs (18608 18611) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 00:36:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 00:36:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 rh white
- Waiting for PID 18675 of (18675 18678) to complete...
- Waiting for PID 18678 of (18675 18678) 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 0050774 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345839
- Total vertex volume 341154 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 1668 1120 3502 2.842 0.756 0.124 0.021 22 1.3 caudalanteriorcingulate
- 4268 2929 8995 2.711 0.566 0.115 0.021 41 3.6 caudalmiddlefrontal
- 3476 2376 5530 2.124 0.455 0.135 0.026 49 3.8 cuneus
- 680 491 1951 3.267 0.665 0.111 0.022 6 0.6 entorhinal
- 6006 4037 13593 2.928 0.518 0.117 0.022 78 5.2 fusiform
- 7667 5154 16573 2.861 0.599 0.117 0.022 93 6.8 inferiorparietal
- 6116 4118 15576 3.052 0.686 0.122 0.026 85 6.0 inferiortemporal
- 2154 1417 4541 2.657 0.985 0.139 0.033 40 2.8 isthmuscingulate
- 7606 5039 14027 2.421 0.607 0.138 0.029 110 9.0 lateraloccipital
- 5985 4035 13767 3.023 0.789 0.142 0.037 101 9.3 lateralorbitofrontal
- 4829 3344 8757 2.369 0.611 0.139 0.031 79 6.3 lingual
- 2812 1919 6184 2.712 0.701 0.132 0.033 55 4.0 medialorbitofrontal
- 8849 5936 22959 3.127 0.656 0.115 0.022 113 8.1 middletemporal
- 1404 928 3194 3.029 0.690 0.092 0.019 13 0.9 parahippocampal
- 2538 1665 5478 2.856 0.612 0.107 0.018 22 1.8 paracentral
- 2298 1561 4949 2.755 0.566 0.107 0.022 27 2.0 parsopercularis
- 1361 919 3668 3.176 0.610 0.119 0.023 17 1.1 parsorbitalis
- 3083 2046 6777 2.744 0.551 0.121 0.023 42 2.8 parstriangularis
- 1939 1387 2551 2.058 0.447 0.137 0.029 24 2.2 pericalcarine
- 8177 5445 14029 2.265 0.666 0.111 0.021 88 6.5 postcentral
- 2241 1504 4565 2.715 0.935 0.134 0.024 40 2.2 posteriorcingulate
- 8128 5452 17261 2.802 0.545 0.113 0.020 90 6.7 precentral
- 7745 5366 16437 2.754 0.515 0.129 0.023 113 7.7 precuneus
- 1907 1319 4270 3.074 0.680 0.143 0.034 33 2.7 rostralanteriorcingulate
- 9167 6319 19798 2.678 0.530 0.129 0.027 151 10.0 rostralmiddlefrontal
- 13958 9678 33365 2.953 0.570 0.126 0.026 188 14.6 superiorfrontal
- 8860 5837 17171 2.568 0.491 0.120 0.021 117 7.3 superiorparietal
- 10417 6903 26020 3.164 0.634 0.105 0.022 109 9.0 superiortemporal
- 7140 4919 16221 2.925 0.577 0.125 0.023 98 7.0 supramarginal
- 787 490 1653 3.049 0.435 0.127 0.019 10 0.6 transversetemporal
- 3414 2307 7790 3.304 0.633 0.114 0.026 39 3.5 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 0050774 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 345516
- Total vertex volume 341459 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 981 634 1522 2.150 0.719 0.124 0.017 15 0.6 caudalanteriorcingulate
- 4348 2933 9626 2.851 0.527 0.112 0.021 57 3.7 caudalmiddlefrontal
- 3333 2218 5559 2.179 0.480 0.135 0.029 46 4.0 cuneus
- 483 340 1421 3.379 0.645 0.106 0.022 3 0.4 entorhinal
- 5164 3479 11800 2.956 0.596 0.120 0.026 66 5.0 fusiform
- 9964 6675 21660 2.814 0.564 0.122 0.024 131 9.3 inferiorparietal
- 6161 4148 13945 2.913 0.721 0.131 0.032 94 8.5 inferiortemporal
- 1709 1159 3815 2.535 0.956 0.124 0.029 28 1.7 isthmuscingulate
- 8497 5629 15857 2.440 0.572 0.137 0.029 128 9.7 lateraloccipital
- 5642 3865 12697 2.887 0.682 0.145 0.042 119 9.7 lateralorbitofrontal
- 5245 3577 10210 2.477 0.663 0.147 0.034 93 7.3 lingual
- 2569 1765 5752 2.764 0.791 0.132 0.035 43 4.1 medialorbitofrontal
- 8199 5606 22590 3.235 0.677 0.115 0.023 109 8.0 middletemporal
- 1129 734 2530 2.928 0.690 0.088 0.019 7 0.7 parahippocampal
- 2473 1639 4804 2.654 0.541 0.114 0.021 23 1.9 paracentral
- 2516 1698 5324 2.832 0.473 0.113 0.022 30 2.3 parsopercularis
- 1299 858 2955 2.890 0.537 0.116 0.025 19 1.0 parsorbitalis
- 2537 1736 5558 2.764 0.582 0.119 0.022 35 2.1 parstriangularis
- 2303 1618 2885 1.982 0.433 0.134 0.028 30 2.6 pericalcarine
- 7447 4952 12360 2.269 0.650 0.114 0.022 85 6.2 postcentral
- 2262 1539 4590 2.567 0.844 0.133 0.025 43 2.5 posteriorcingulate
- 7040 4673 15345 2.852 0.578 0.107 0.018 62 5.0 precentral
- 8468 5741 16767 2.677 0.559 0.129 0.025 119 9.5 precuneus
- 1373 933 3087 2.960 0.620 0.143 0.035 25 2.4 rostralanteriorcingulate
- 9429 6409 20931 2.726 0.554 0.132 0.031 157 11.9 rostralmiddlefrontal
- 17495 12147 40706 2.897 0.560 0.126 0.026 248 18.4 superiorfrontal
- 9472 6309 17932 2.460 0.513 0.120 0.021 126 7.8 superiorparietal
- 9651 6490 24517 3.221 0.708 0.109 0.023 105 8.4 superiortemporal
- 6751 4600 15496 2.974 0.567 0.114 0.021 83 5.9 supramarginal
- 666 420 1384 2.923 0.428 0.129 0.023 10 0.6 transversetemporal
- 3508 2336 7834 3.245 0.632 0.111 0.023 33 3.0 insula
- PIDs (18675 18678) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 00:37:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- pctsurfcon --s 0050774 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 00:37:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts
- pctsurfcon --s 0050774 --rh-only
- Waiting for PID 18729 of (18729 18739) to complete...
- Waiting for PID 18739 of (18729 18739) to complete...
- pctsurfcon --s 0050774 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts/pctsurfcon.log
- Sun Oct 8 00:37:23 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-6.0.0/0050774/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-916 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-6.0.0/0050774/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18729/lh.wm.mgh --regheader 0050774 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00001;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 = 88795
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18729/lh.wm.mgh
- Dim: 164375 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18729/lh.gm.mgh --projfrac 0.3 --regheader 0050774 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00001;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 = 110092
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18729/lh.gm.mgh
- Dim: 164375 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18729/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18729/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.w-g.pct.mgh --annot 0050774 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/lh.w-g.pct.mgh --annot 0050774 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-916
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/lh.w-g.pct.mgh
- Vertex Area is 0.674921 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 0050774 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/scripts/pctsurfcon.log
- Sun Oct 8 00:37:23 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-6.0.0/0050774/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-916 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-6.0.0/0050774/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18739/rh.wm.mgh --regheader 0050774 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00001;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 = 89547
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18739/rh.wm.mgh
- Dim: 165743 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18739/rh.gm.mgh --projfrac 0.3 --regheader 0050774 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00001;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 = 111831
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18739/rh.gm.mgh
- Dim: 165743 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18739/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/tmp.pctsurfcon.18739/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.w-g.pct.mgh --annot 0050774 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/rh.w-g.pct.mgh --annot 0050774 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-916
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/rh.w-g.pct.mgh
- Vertex Area is 0.674766 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 (18729 18739) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 00:37:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 454 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 395 voxels changed to hypointensity...
- 884 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 00:37:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774
- mri_aparc2aseg --s 0050774 --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 00:37:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774
- mri_aparc2aseg --s 0050774 --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 00:37:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774
- mri_aparc2aseg --s 0050774 --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 18907 of (18907 18910 18913) to complete...
- Waiting for PID 18910 of (18907 18910 18913) to complete...
- Waiting for PID 18913 of (18907 18910 18913) to complete...
- mri_aparc2aseg --s 0050774 --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 0050774
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/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-6.0.0/0050774/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 7.01
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 104
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 4
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 53
- rescaling Left_Thalamus from 94 --> 84
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 56
- rescaling Left_Putamen from 80 --> 68
- rescaling Left_Pallidum from 98 --> 90
- rescaling Third_Ventricle from 25 --> 7
- rescaling Fourth_Ventricle from 22 --> 4
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 53
- rescaling Left_Amygdala from 56 --> 55
- rescaling CSF from 32 --> 9
- rescaling Left_Accumbens_area from 62 --> 50
- rescaling Left_VentralDC from 87 --> 89
- rescaling Right_Cerebral_White_Matter from 105 --> 103
- rescaling Right_Cerebral_Cortex from 58 --> 49
- rescaling Right_Lateral_Ventricle from 13 --> 4
- rescaling Right_Inf_Lat_Vent from 25 --> 21
- rescaling Right_Cerebellum_White_Matter from 87 --> 87
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 81
- rescaling Right_Caudate from 62 --> 57
- rescaling Right_Putamen from 80 --> 68
- rescaling Right_Pallidum from 97 --> 86
- rescaling Right_Hippocampus from 53 --> 53
- rescaling Right_Amygdala from 55 --> 51
- rescaling Right_Accumbens_area from 65 --> 56
- rescaling Right_VentralDC from 86 --> 94
- rescaling Fifth_Ventricle from 40 --> 9
- rescaling WM_hypointensities from 78 --> 76
- rescaling non_WM_hypointensities from 40 --> 43
- 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 = 677480
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 104 changed.
- pass 2: 5 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0050774 --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 0050774
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/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-6.0.0/0050774/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 7.01
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 104
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 4
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 53
- rescaling Left_Thalamus from 94 --> 84
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 56
- rescaling Left_Putamen from 80 --> 68
- rescaling Left_Pallidum from 98 --> 90
- rescaling Third_Ventricle from 25 --> 7
- rescaling Fourth_Ventricle from 22 --> 4
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 53
- rescaling Left_Amygdala from 56 --> 55
- rescaling CSF from 32 --> 9
- rescaling Left_Accumbens_area from 62 --> 50
- rescaling Left_VentralDC from 87 --> 89
- rescaling Right_Cerebral_White_Matter from 105 --> 103
- rescaling Right_Cerebral_Cortex from 58 --> 49
- rescaling Right_Lateral_Ventricle from 13 --> 4
- rescaling Right_Inf_Lat_Vent from 25 --> 21
- rescaling Right_Cerebellum_White_Matter from 87 --> 87
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 81
- rescaling Right_Caudate from 62 --> 57
- rescaling Right_Putamen from 80 --> 68
- rescaling Right_Pallidum from 97 --> 86
- rescaling Right_Hippocampus from 53 --> 53
- rescaling Right_Amygdala from 55 --> 51
- rescaling Right_Accumbens_area from 65 --> 56
- rescaling Right_VentralDC from 86 --> 94
- rescaling Fifth_Ventricle from 40 --> 9
- rescaling WM_hypointensities from 78 --> 76
- rescaling non_WM_hypointensities from 40 --> 43
- 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 = 677158
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 104 changed.
- pass 2: 5 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0050774 --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 0050774
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/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-6.0.0/0050774/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 7.01
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 104
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 4
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 53
- rescaling Left_Thalamus from 94 --> 84
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 56
- rescaling Left_Putamen from 80 --> 68
- rescaling Left_Pallidum from 98 --> 90
- rescaling Third_Ventricle from 25 --> 7
- rescaling Fourth_Ventricle from 22 --> 4
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 53
- rescaling Left_Amygdala from 56 --> 55
- rescaling CSF from 32 --> 9
- rescaling Left_Accumbens_area from 62 --> 50
- rescaling Left_VentralDC from 87 --> 89
- rescaling Right_Cerebral_White_Matter from 105 --> 103
- rescaling Right_Cerebral_Cortex from 58 --> 49
- rescaling Right_Lateral_Ventricle from 13 --> 4
- rescaling Right_Inf_Lat_Vent from 25 --> 21
- rescaling Right_Cerebellum_White_Matter from 87 --> 87
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 81
- rescaling Right_Caudate from 62 --> 57
- rescaling Right_Putamen from 80 --> 68
- rescaling Right_Pallidum from 97 --> 86
- rescaling Right_Hippocampus from 53 --> 53
- rescaling Right_Amygdala from 55 --> 51
- rescaling Right_Accumbens_area from 65 --> 56
- rescaling Right_VentralDC from 86 --> 94
- rescaling Fifth_Ventricle from 40 --> 9
- rescaling WM_hypointensities from 78 --> 76
- rescaling non_WM_hypointensities from 40 --> 43
- 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 = 677158
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 104 changed.
- pass 2: 5 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (18907 18910 18913) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 00:46:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 00:46:10 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-6.0.0/0050774/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-916 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-6.0.0/0050774/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-916
- 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 00:46:10 CEST 2017
- Ended at Sun Oct 8 00:46:17 CEST 2017
- Apas2aseg-Run-Time-Sec 7
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 00:46:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774
- 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 0050774
- $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 0050774
- sysname Linux
- hostname tars-916
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1679663 mm^3 (det: 1.159819 )
- Computing euler number
- orig.nofix lheno = -58, rheno = -40
- orig.nofix lhholes = 30, rhholes = 21
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 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 00:47:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774
- mri_aparc2aseg --s 0050774 --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 0050774
- 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-6.0.0/0050774/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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-6.0.0/0050774/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 7700 vertices from left hemi
- Ripped 7447 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-6.0.0/0050774/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 = 1152404
- Used brute-force search on 86 voxels
- Fixing Parahip LH WM
- Found 14 clusters
- 0 k 8.000000
- 1 k 7.000000
- 2 k 1.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 2.000000
- 6 k 13.000000
- 7 k 1.000000
- 8 k 2.000000
- 9 k 1653.000000
- 10 k 1.000000
- 11 k 1.000000
- 12 k 1.000000
- 13 k 1.000000
- Fixing Parahip RH WM
- Found 9 clusters
- 0 k 1483.000000
- 1 k 1.000000
- 2 k 3.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 1.000000
- 6 k 1.000000
- 7 k 1.000000
- 8 k 1.000000
- 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 0050774 --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 0050774 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-916
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1679663 mm^3 (det: 1.159819 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 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-6.0.0/0050774/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 00:57:34 CEST 2017
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA1_exvivo.label --trgsubject 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 20129 of (20129 20135 20141 20147 20151) to complete...
- Waiting for PID 20135 of (20129 20135 20141 20147 20151) to complete...
- Waiting for PID 20141 of (20129 20135 20141 20147 20151) to complete...
- Waiting for PID 20147 of (20129 20135 20141 20147 20151) to complete...
- Waiting for PID 20151 of (20129 20135 20141 20147 20151) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 581
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4710
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 1160
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 9069
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 140
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4217
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 580
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6563
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 317
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6101
- mri_label2label: Done
- PIDs (20129 20135 20141 20147 20151) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 20200 of (20200 20206 20212 20218) to complete...
- Waiting for PID 20206 of (20200 20206 20212 20218) to complete...
- Waiting for PID 20212 of (20200 20206 20212 20218) to complete...
- Waiting for PID 20218 of (20200 20206 20212 20218) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 147
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4217
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 1272
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 14861
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 443
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4624
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 1330
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4752
- mri_label2label: Done
- PIDs (20200 20206 20212 20218) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 20257 of (20257 20263 20269 20275 20279) to complete...
- Waiting for PID 20263 of (20257 20263 20269 20275 20279) to complete...
- Waiting for PID 20269 of (20257 20263 20269 20275 20279) to complete...
- Waiting for PID 20275 of (20257 20263 20269 20275 20279) to complete...
- Waiting for PID 20279 of (20257 20263 20269 20275 20279) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 1202
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5843
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 2854
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 10968
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 610
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2628
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 223
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1513
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 263
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1462
- mri_label2label: Done
- PIDs (20257 20263 20269 20275 20279) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 20342 of (20342 20348 20354 20358 20366) to complete...
- Waiting for PID 20348 of (20342 20348 20354 20358 20366) to complete...
- Waiting for PID 20354 of (20342 20348 20354 20358 20366) to complete...
- Waiting for PID 20358 of (20342 20348 20354 20358 20366) to complete...
- Waiting for PID 20366 of (20342 20348 20354 20358 20366) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 113
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1127
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 367
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2459
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 34
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1538
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 80
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2076
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 107
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2426
- mri_label2label: Done
- PIDs (20342 20348 20354 20358 20366) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 20412 of (20412 20418 20424 20429) to complete...
- Waiting for PID 20418 of (20412 20418 20424 20429) to complete...
- Waiting for PID 20424 of (20412 20418 20424 20429) to complete...
- Waiting for PID 20429 of (20412 20418 20424 20429) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 40
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1589
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 522
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7557
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 179
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2091
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 464
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1615
- mri_label2label: Done
- PIDs (20412 20418 20424 20429) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 20489 of (20489 20495 20501 20507 20512) to complete...
- Waiting for PID 20495 of (20489 20495 20501 20507 20512) to complete...
- Waiting for PID 20501 of (20489 20495 20501 20507 20512) to complete...
- Waiting for PID 20507 of (20489 20495 20501 20507 20512) to complete...
- Waiting for PID 20512 of (20489 20495 20501 20507 20512) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 839
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4244
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 1203
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4537
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 122
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 635
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 75
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 545
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 164375
- Number of reverse mapping hits = 129
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 579
- mri_label2label: Done
- PIDs (20489 20495 20501 20507 20512) completed and logs appended.
- mris_label2annot --s 0050774 --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-6.0.0/0050774/label
- cmdline mris_label2annot --s 0050774 --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-916
- machine x86_64
- user ntraut
- subject 0050774
- 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-6.0.0/0050774/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 118650 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/lh.BA_exvivo.annot
- mris_label2annot --s 0050774 --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-6.0.0/0050774/label
- cmdline mris_label2annot --s 0050774 --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-916
- machine x86_64
- user ntraut
- subject 0050774
- 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-6.0.0/0050774/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 138780 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 345839
- Total vertex volume 341154 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 1312 833 2523 2.250 0.619 0.128 0.026 19 1.2 BA1_exvivo
- 5297 3518 9110 2.461 0.482 0.110 0.019 56 4.2 BA2_exvivo
- 1041 673 1099 2.024 0.475 0.127 0.028 9 1.0 BA3a_exvivo
- 2585 1787 4310 2.011 0.722 0.116 0.025 34 2.7 BA3b_exvivo
- 1643 1057 4057 3.011 0.523 0.107 0.017 15 1.1 BA4a_exvivo
- 1252 840 2236 2.568 0.431 0.101 0.015 9 0.8 BA4p_exvivo
- 10231 7062 25485 2.973 0.556 0.117 0.021 114 8.5 BA6_exvivo
- 2585 1759 5859 2.796 0.534 0.110 0.024 33 2.5 BA44_exvivo
- 3887 2613 8639 2.707 0.566 0.127 0.026 57 3.7 BA45_exvivo
- 3478 2509 5389 2.049 0.475 0.132 0.029 43 4.3 V1_exvivo
- 8435 5742 14037 2.224 0.560 0.154 0.035 153 12.2 V2_exvivo
- 2352 1561 5010 2.789 0.570 0.118 0.021 26 2.0 MT_exvivo
- 677 486 2043 3.435 0.676 0.106 0.021 6 0.5 perirhinal_exvivo
- 950 670 2451 3.247 0.704 0.133 0.030 17 1.1 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 0050774 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 345839
- Total vertex volume 341154 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 831 510 1617 2.267 0.459 0.139 0.030 13 1.0 BA1_exvivo
- 2050 1351 3405 2.342 0.520 0.101 0.015 18 1.3 BA2_exvivo
- 868 567 848 1.984 0.417 0.132 0.028 7 1.0 BA3a_exvivo
- 1338 948 1570 1.549 0.411 0.089 0.013 8 0.7 BA3b_exvivo
- 1537 1001 3764 2.990 0.513 0.103 0.015 13 1.0 BA4a_exvivo
- 1012 682 1658 2.489 0.386 0.105 0.015 7 0.6 BA4p_exvivo
- 5635 3847 14074 2.994 0.555 0.117 0.021 61 4.6 BA6_exvivo
- 1594 1094 3635 2.711 0.493 0.114 0.029 25 1.8 BA44_exvivo
- 1500 1019 3906 2.804 0.629 0.137 0.029 25 1.7 BA45_exvivo
- 3681 2649 5805 2.062 0.481 0.132 0.029 49 4.6 V1_exvivo
- 4113 2855 6326 2.067 0.491 0.163 0.039 84 6.5 V2_exvivo
- 563 396 972 2.513 0.392 0.094 0.016 3 0.3 MT_exvivo
- 353 257 1190 3.533 0.626 0.084 0.010 2 0.2 perirhinal_exvivo
- 520 377 1215 3.218 0.660 0.139 0.026 10 0.6 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 01:00:57 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 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 20640 of (20640 20646 20652 20658 20664) to complete...
- Waiting for PID 20646 of (20640 20646 20652 20658 20664) to complete...
- Waiting for PID 20652 of (20640 20646 20652 20658 20664) to complete...
- Waiting for PID 20658 of (20640 20646 20652 20658 20664) to complete...
- Waiting for PID 20664 of (20640 20646 20652 20658 20664) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 346
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4308
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 622
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7309
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 79
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4059
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 269
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4791
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 262
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6009
- mri_label2label: Done
- PIDs (20640 20646 20652 20658 20664) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 20723 of (20723 20729 20735 20740) to complete...
- Waiting for PID 20729 of (20723 20729 20735 20740) to complete...
- Waiting for PID 20735 of (20723 20729 20735 20740) to complete...
- Waiting for PID 20740 of (20723 20729 20735 20740) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 90
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4563
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 1470
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13726
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 902
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7814
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 1421
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6776
- mri_label2label: Done
- PIDs (20723 20729 20735 20740) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 20800 of (20800 20806 20812 20817 20823) to complete...
- Waiting for PID 20806 of (20800 20806 20812 20817 20823) to complete...
- Waiting for PID 20812 of (20800 20806 20812 20817 20823) to complete...
- Waiting for PID 20817 of (20800 20806 20812 20817 20823) to complete...
- Waiting for PID 20823 of (20800 20806 20812 20817 20823) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 1737
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 6464
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 3408
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 11424
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 803
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2735
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 150
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1188
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 130
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 882
- mri_label2label: Done
- PIDs (20800 20806 20812 20817 20823) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 20918 of (20918 20924 20930 20935 20942) to complete...
- Waiting for PID 20924 of (20918 20924 20930 20935 20942) to complete...
- Waiting for PID 20930 of (20918 20924 20930 20935 20942) to complete...
- Waiting for PID 20935 of (20918 20924 20930 20935 20942) to complete...
- Waiting for PID 20942 of (20918 20924 20930 20935 20942) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 133
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 1009
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 164
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 2852
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 26
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1724
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 53
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2236
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 72
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1460
- mri_label2label: Done
- PIDs (20918 20924 20930 20935 20942) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 21044 of (21044 21050 21056 21061) to complete...
- Waiting for PID 21050 of (21044 21050 21056 21061) to complete...
- Waiting for PID 21056 of (21044 21050 21056 21061) to complete...
- Waiting for PID 21061 of (21044 21050 21056 21061) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 15
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1504
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 623
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7582
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 158
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1170
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 197
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1375
- mri_label2label: Done
- PIDs (21044 21050 21056 21061) 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 0050774 --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 0050774 --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 0050774 --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 0050774 --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 0050774 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 21109 of (21109 21115 21121 21127 21132) to complete...
- Waiting for PID 21115 of (21109 21115 21121 21127 21132) to complete...
- Waiting for PID 21121 of (21109 21115 21121 21127 21132) to complete...
- Waiting for PID 21127 of (21109 21115 21121 21127 21132) to complete...
- Waiting for PID 21132 of (21109 21115 21121 21127 21132) 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 1136
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4368
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 1587
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 5024
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 112
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 380
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 94
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 788
- 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 0050774 --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 = 0050774
- 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-6.0.0/0050774/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 165743
- Number of reverse mapping hits = 67
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 358
- mri_label2label: Done
- PIDs (21109 21115 21121 21127 21132) completed and logs appended.
- mris_label2annot --s 0050774 --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-6.0.0/0050774/label
- cmdline mris_label2annot --s 0050774 --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-916
- machine x86_64
- user ntraut
- subject 0050774
- 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-6.0.0/0050774/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 120490 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/label/rh.BA_exvivo.annot
- mris_label2annot --s 0050774 --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-6.0.0/0050774/label
- cmdline mris_label2annot --s 0050774 --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-916
- machine x86_64
- user ntraut
- subject 0050774
- 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-6.0.0/0050774/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 141693 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/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 0050774 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 345516
- Total vertex volume 341459 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 1105 648 2146 2.314 0.623 0.130 0.038 20 1.3 BA1_exvivo
- 3727 2480 6174 2.390 0.447 0.108 0.018 35 2.7 BA2_exvivo
- 1015 662 954 1.877 0.450 0.129 0.026 9 1.0 BA3a_exvivo
- 1885 1267 2471 1.750 0.505 0.104 0.020 18 1.5 BA3b_exvivo
- 1440 956 3265 2.811 0.409 0.112 0.019 14 1.0 BA4a_exvivo
- 1061 701 1839 2.624 0.354 0.097 0.015 8 0.6 BA4p_exvivo
- 9232 6302 22307 2.989 0.558 0.119 0.022 103 8.1 BA6_exvivo
- 3994 2665 8548 2.885 0.503 0.112 0.022 45 3.4 BA44_exvivo
- 4948 3391 11483 2.781 0.560 0.124 0.024 76 4.7 BA45_exvivo
- 4233 2994 6862 2.101 0.515 0.154 0.038 84 6.6 V1_exvivo
- 9047 5988 15512 2.332 0.604 0.146 0.032 142 11.6 V2_exvivo
- 2499 1665 5014 2.666 0.531 0.133 0.030 37 3.1 MT_exvivo
- 608 420 1939 3.513 0.667 0.101 0.024 5 0.6 perirhinal_exvivo
- 459 308 1052 3.138 0.488 0.124 0.027 6 0.5 entorhinal_exvivo
- mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0050774 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050774/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 345516
- Total vertex volume 341459 (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) = 1679663 mm^3 (det: 1.159819 )
- lhCtxGM: 340607.034 339692.000 diff= 915.0 pctdiff= 0.269
- rhCtxGM: 340349.521 339294.000 diff= 1055.5 pctdiff= 0.310
- lhCtxWM: 237570.817 237573.500 diff= -2.7 pctdiff=-0.001
- rhCtxWM: 237919.703 238623.500 diff= -703.8 pctdiff=-0.296
- SubCortGMVol 61640.000
- SupraTentVol 1233407.076 (1229943.000) diff=3464.076 pctdiff=0.281
- SupraTentVolNotVent 1220323.076 (1216859.000) diff=3464.076 pctdiff=0.284
- BrainSegVol 1382817.000 (1380790.000) diff=2027.000 pctdiff=0.147
- BrainSegVolNotVent 1367028.000 (1368130.076) diff=-1102.076 pctdiff=-0.081
- BrainSegVolNotVent 1367028.000
- CerebellumVol 150007.000
- VentChorVol 13084.000
- 3rd4th5thCSF 2705.000
- CSFVol 678.000, OptChiasmVol 162.000
- MaskVol 1745392.000
- 755 421 1284 2.191 0.627 0.122 0.040 14 1.0 BA1_exvivo
- 1930 1289 3330 2.387 0.464 0.102 0.018 17 1.2 BA2_exvivo
- 888 578 738 1.849 0.416 0.127 0.023 7 0.8 BA3a_exvivo
- 1339 940 1505 1.550 0.339 0.088 0.012 8 0.6 BA3b_exvivo
- 961 632 2157 2.875 0.478 0.130 0.023 11 0.9 BA4a_exvivo
- 843 579 1475 2.658 0.345 0.086 0.012 4 0.3 BA4p_exvivo
- 5439 3754 13769 3.002 0.582 0.120 0.023 62 4.8 BA6_exvivo
- 987 664 2530 3.051 0.499 0.125 0.029 16 1.1 BA44_exvivo
- 1106 794 3355 3.059 0.555 0.140 0.026 22 1.1 BA45_exvivo
- 4002 2851 6383 2.077 0.518 0.154 0.037 79 6.1 V1_exvivo
- 4760 3221 8170 2.238 0.544 0.153 0.036 81 7.1 V2_exvivo
- 365 257 619 2.520 0.416 0.148 0.031 6 0.4 MT_exvivo
- 361 245 1333 3.679 0.584 0.089 0.022 3 0.3 perirhinal_exvivo
- 314 211 734 3.261 0.543 0.122 0.026 3 0.4 entorhinal_exvivo
- Started at Sat Oct 7 16:24:22 CEST 2017
- Ended at Sun Oct 8 01:04:19 CEST 2017
- #@#%# recon-all-run-time-hours 8.666
- recon-all -s 0050774 finished without error at Sun Oct 8 01:04:20 CEST 2017
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