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- Sat Oct 7 16:25:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0050776 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050776/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0050776
- 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-565 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- cputime unlimited
- filesize unlimited
- datasize unlimited
- stacksize 10240 kbytes
- coredumpsize 0 kbytes
- memoryuse 10485760 kbytes
- vmemoryuse unlimited
- descriptors 65536
- memorylocked 64 kbytes
- maxproc 1024
- total used free shared buffers cached
- Mem: 65993860 64081784 1912076 1748628 0 60604812
- -/+ buffers/cache: 3476972 62516888
- 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:00-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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: 2017/10/07-14:25:01-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-565 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-6.0.0/0050776
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050776/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050776/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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_4/0050776/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-6.0.0/0050776/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 16:25:04 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/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-6.0.0/0050776/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 16:25:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/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-565 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 16:25:15 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.22773
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.22773/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.22773/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.22773/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:25:18 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.22773/nu0.mnc ./tmp.mri_nu_correct.mni.22773/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.22773/0/ -iterations 1000 -distance 50
- [ntraut@tars-565:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/] [2017-10-07 16:25:18] 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.22773/0/ ./tmp.mri_nu_correct.mni.22773/nu0.mnc ./tmp.mri_nu_correct.mni.22773/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 24
- CV of field change: 0.000964878
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.22773/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.22773/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.22773/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 16:26:23 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 16:26:23 CEST 2017
- Ended at Sat Oct 7 16:27:30 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 16:27:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.8205, pval=0.8469 >= 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-6.0.0/0050776/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/transforms/talairach_avi.log
- TalAviQA: 0.97555
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 16:27:32 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-6.0.0/0050776/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-565 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 16:27:32 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.23364
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.23364/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.23364/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.23364/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:27:35 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.23364/nu0.mnc ./tmp.mri_nu_correct.mni.23364/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.23364/0/
- [ntraut@tars-565:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/] [2017-10-07 16:27:35] 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.23364/0/ ./tmp.mri_nu_correct.mni.23364/nu0.mnc ./tmp.mri_nu_correct.mni.23364/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 20
- CV of field change: 0.000957845
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 16:28:23 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.23364/nu1.mnc ./tmp.mri_nu_correct.mni.23364/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.23364/1/
- [ntraut@tars-565:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/] [2017-10-07 16:28:24] 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.23364/1/ ./tmp.mri_nu_correct.mni.23364/nu1.mnc ./tmp.mri_nu_correct.mni.23364/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: 0.000996984
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.23364/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.23364/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-6.0.0/0050776/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.23364/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.23364/ones.mgz
- sysname Linux
- hostname tars-565
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.23364/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.23364/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.23364/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.23364/sum.junk --avgwf ./tmp.mri_nu_correct.mni.23364/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.23364/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.23364/sum.junk --avgwf ./tmp.mri_nu_correct.mni.23364/input.mean.dat
- sysname Linux
- hostname tars-565
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.23364/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.23364/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.23364/ones.mgz --i ./tmp.mri_nu_correct.mni.23364/nu2.mnc --sum ./tmp.mri_nu_correct.mni.23364/sum.junk --avgwf ./tmp.mri_nu_correct.mni.23364/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.23364/ones.mgz --i ./tmp.mri_nu_correct.mni.23364/nu2.mnc --sum ./tmp.mri_nu_correct.mni.23364/sum.junk --avgwf ./tmp.mri_nu_correct.mni.23364/output.mean.dat
- sysname Linux
- hostname tars-565
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.23364/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.23364/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.23364/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.23364/nu2.mnc ./tmp.mri_nu_correct.mni.23364/nu2.mnc mul 1.03751424546438684870
- Saving result to './tmp.mri_nu_correct.mni.23364/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.23364/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.23364/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.23364/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 11 seconds.
- mapping ( 5, 116) to ( 3, 110)
-
-
- Sat Oct 7 16:30:22 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 16:30:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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
- 1.10411 0.02957 0.01999 1.31876;
- -0.01554 1.04636 0.21018 -25.87600;
- -0.04234 -0.11560 1.16807 4.78490;
- 0.00000 0.00000 0.00000 1.00000;
- processing without aseg, no1d=0
- MRInormInit():
- INFO: Modifying talairach volume c_(r,a,s) based on average_305
- MRInormalize():
- MRIsplineNormalize(): npeaks = 15
- Starting OpenSpline(): npoints = 15
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Iterating 2 times
- ---------------------------------
- 3d normalization pass 1 of 2
- white matter peak found at 110
- white matter peak found at 110
- gm peak at 52 (52), valley at 23 (23)
- 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 50 (50), valley at 24 (24)
- csf peak at 26, setting threshold to 42
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 4 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 16:32:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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=8.0
- skull bounding box = (49, 55, 29) --> (199, 200, 225)
- using (99, 103, 127) as brain centroid...
- mean wm in atlas = 108, using box (81,85,103) --> (117, 120,151) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 109 +- 5.4
- after smoothing, mri peak at 109, scaling input intensities by 0.991
- scaling channel 0 by 0.990826
- initial log_p = -4.588
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.470617 @ (9.091, -9.091, -9.091)
- max log p = -4.357450 @ (-4.545, -4.545, -4.545)
- max log p = -4.300016 @ (-2.273, 2.273, -6.818)
- max log p = -4.284934 @ (1.136, 1.136, -1.136)
- max log p = -4.267819 @ (-1.705, 1.705, 1.705)
- max log p = -4.267819 @ (0.000, 0.000, 0.000)
- Found translation: (1.7, -8.5, -19.9): log p = -4.268
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.892, old_max_log_p =-4.268 (thresh=-4.3)
- 1.15000 0.00000 0.00000 -16.77106;
- 0.00000 1.22567 0.16136 -56.13889;
- 0.00000 -0.15011 1.14016 -15.60046;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.841, old_max_log_p =-3.892 (thresh=-3.9)
- 1.06375 0.00000 0.00000 -6.14758;
- 0.00000 1.31760 0.17347 -71.01237;
- 0.00000 -0.15011 1.14016 -15.60046;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 2 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.841, old_max_log_p =-3.841 (thresh=-3.8)
- 1.06375 0.00000 0.00000 -6.14758;
- 0.00000 1.31760 0.17347 -71.01237;
- 0.00000 -0.15011 1.14016 -15.60046;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.756, old_max_log_p =-3.841 (thresh=-3.8)
- 1.10288 0.04727 0.01018 -19.12584;
- -0.03028 1.23865 0.19891 -59.28836;
- -0.00223 -0.18947 1.11180 -2.12479;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.751, old_max_log_p =-3.756 (thresh=-3.8)
- 1.10288 0.04727 0.01018 -19.12584;
- -0.03028 1.23865 0.19891 -59.28836;
- -0.00227 -0.19302 1.13265 -4.24443;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.751, old_max_log_p =-3.751 (thresh=-3.7)
- 1.10288 0.04727 0.01018 -19.12584;
- -0.03028 1.23865 0.19891 -59.28836;
- -0.00227 -0.19302 1.13265 -4.24443;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.731, old_max_log_p =-3.751 (thresh=-3.7)
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.731, old_max_log_p =-3.731 (thresh=-3.7)
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 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
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.731 (old=-4.588)
- transform before final EM align:
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 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
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 012: -log(p) = 4.2 tol 0.000000
- final transform:
- 1.10309 0.07776 0.01469 -23.68528;
- -0.05723 1.23575 0.18889 -53.80946;
- -0.00237 -0.18223 1.13025 -5.96660;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1836.153862
- mri_em_register stimesec 1.775730
- mri_em_register ru_maxrss 609824
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 157601
- 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 189
- mri_em_register ru_nivcsw 7061
- registration took 15 minutes and 46 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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=125 y=122 z=125 r=65
- first estimation of the main basin volume: 1195177 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 15 found in the rest of the brain
- global maximum in x=145, y=112, z=95, 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=8002782962 voxels, voxel volume =1.000
- = 8002782962 mmm3 = 8002782.720 cm3
- done.
- PostAnalyze...Basin Prior
- 233 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=124,y=129, z=118, r=9857 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=39 , nb = 45656
- RIGHT_CER CSF_MIN=0, CSF_intensity=9, CSF_MAX=36 , nb = -1033613787
- LEFT_CER CSF_MIN=0, CSF_intensity=7, CSF_MAX=37 , nb = 1062813685
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=40 , nb = -1074160110
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=37 , nb = 1074529820
- OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=26 , nb = 1074482941
- Problem with the least square interpolation in GM_MIN calculation.
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 39, 33, 31, 46
- after analyzing : 26, 33, 33, 36
- RIGHT_CER
- before analyzing : 36, 32, 29, 52
- after analyzing : 24, 32, 32, 37
- LEFT_CER
- before analyzing : 37, 32, 29, 52
- after analyzing : 25, 32, 32, 37
- RIGHT_BRAIN
- before analyzing : 40, 33, 30, 46
- after analyzing : 26, 33, 33, 36
- LEFT_BRAIN
- before analyzing : 37, 33, 31, 46
- after analyzing : 26, 33, 33, 36
- OTHER
- before analyzing : 26, 54, 73, 88
- after analyzing : 26, 66, 73, 71
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...69 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.012
- curvature mean = 68.056, std = 7.702
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 2.79, sigma = 4.15
- after rotation: sse = 2.79, sigma = 4.15
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 2.88, its var is 3.78
- before Erosion-Dilatation 0.52% 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...31 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1500927 voxels, voxel volume = 1.000 mm3
- = 1500927 mmm3 = 1500.927 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 35.124660
- mri_watershed stimesec 0.653900
- mri_watershed ru_maxrss 818060
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 211687
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 7552
- mri_watershed ru_oublock 2512
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 2822
- mri_watershed ru_nivcsw 113
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 16:48:47 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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=25.0
- skull bounding box = (57, 73, 43) --> (191, 191, 210)
- using (102, 112, 127) as brain centroid...
- mean wm in atlas = 107, using box (86,98,106) --> (118, 126,147) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 109 +- 5.3
- after smoothing, mri peak at 109, scaling input intensities by 0.982
- scaling channel 0 by 0.981651
- initial log_p = -4.240
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.143552 @ (9.091, -9.091, -9.091)
- max log p = -3.872480 @ (-4.545, -4.545, -4.545)
- max log p = -3.819434 @ (-2.273, 2.273, 2.273)
- max log p = -3.793134 @ (-1.136, 1.136, -1.136)
- max log p = -3.779294 @ (0.568, -1.705, -0.568)
- max log p = -3.779294 @ (0.000, 0.000, 0.000)
- Found translation: (1.7, -11.9, -13.1): log p = -3.779
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.463, old_max_log_p =-3.779 (thresh=-3.8)
- 1.07500 0.00000 0.00000 -7.67291;
- 0.00000 1.14016 0.13053 -45.79308;
- 0.00000 -0.15011 0.99144 7.64278;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.463, old_max_log_p =-3.463 (thresh=-3.5)
- 1.07500 0.00000 0.00000 -7.67291;
- 0.00000 1.14016 0.13053 -45.79308;
- 0.00000 -0.15011 0.99144 7.64278;
- 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=-3.275, old_max_log_p =-3.463 (thresh=-3.5)
- 1.07467 0.00070 -0.03183 -2.32603;
- -0.00258 1.16517 0.09767 -41.18935;
- 0.03333 -0.11667 1.05158 -9.78712;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.275, old_max_log_p =-3.275 (thresh=-3.3)
- 1.07467 0.00070 -0.03183 -2.32603;
- -0.00258 1.16517 0.09767 -41.18935;
- 0.03333 -0.11667 1.05158 -9.78712;
- 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=-3.199, old_max_log_p =-3.275 (thresh=-3.3)
- 1.07714 0.01024 -0.03096 -4.43186;
- -0.01086 1.16715 0.11552 -43.02152;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.198, old_max_log_p =-3.199 (thresh=-3.2)
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 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
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 008: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.198 (old=-4.240)
- transform before final EM align:
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 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
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = 3.8 tol 0.000000
- final transform:
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1277.009864
- mri_em_register stimesec 1.439781
- mri_em_register ru_maxrss 600976
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 159433
- 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 77
- mri_em_register ru_nivcsw 3756
- registration took 10 minutes and 57 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 16:59:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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=25.0
- skull bounding box = (57, 73, 42) --> (191, 191, 210)
- using (102, 112, 126) as brain centroid...
- mean wm in atlas = 107, using box (86,98,105) --> (118, 126,146) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 109 +- 5.3
- 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
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40194;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- INFO: transform used
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 71, 45) --> (184, 171, 204)
- Left_Cerebral_White_Matter: limiting intensities to 97.0 --> 132.0
- 0 of 619 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (64, 72, 45) --> (126, 171, 205)
- Right_Cerebral_White_Matter: limiting intensities to 97.0 --> 132.0
- 0 of 438 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (124, 147, 69) --> (168, 184, 121)
- Left_Cerebellum_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 24 (0.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (81, 147, 68) --> (123, 182, 123)
- Right_Cerebellum_White_Matter: limiting intensities to 101.0 --> 132.0
- 0 of 14 (0.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (108, 138, 104) --> (140, 198, 133)
- Brain_Stem: limiting intensities to 96.0 --> 132.0
- 14 of 15 (93.3%) samples deleted
- using 1110 total control points for intensity normalization...
- bias field = 0.984 +- 0.047
- 9 of 1096 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 71, 45) --> (184, 171, 204)
- Left_Cerebral_White_Matter: limiting intensities to 93.0 --> 132.0
- 0 of 831 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (64, 72, 45) --> (126, 171, 205)
- Right_Cerebral_White_Matter: limiting intensities to 93.0 --> 132.0
- 0 of 665 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (124, 147, 69) --> (168, 184, 121)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 16 of 74 (21.6%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (81, 147, 68) --> (123, 182, 123)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 15 of 68 (22.1%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (108, 138, 104) --> (140, 198, 133)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 82 of 105 (78.1%) samples deleted
- using 1743 total control points for intensity normalization...
- bias field = 1.017 +- 0.048
- 5 of 1600 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 71, 45) --> (184, 171, 204)
- Left_Cerebral_White_Matter: limiting intensities to 89.0 --> 132.0
- 0 of 952 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (64, 72, 45) --> (126, 171, 205)
- Right_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0
- 0 of 755 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (124, 147, 69) --> (168, 184, 121)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 63 of 115 (54.8%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (81, 147, 68) --> (123, 182, 123)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 49 of 85 (57.6%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (108, 138, 104) --> (140, 198, 133)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 133 of 141 (94.3%) samples deleted
- using 2048 total control points for intensity normalization...
- bias field = 1.021 +- 0.039
- 2 of 1739 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 17:01:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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) = 1.34 (predicted orig area = 6.0)
- 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=0.832, neg=0, invalid=762
- 0001: dt=221.952000, rms=0.785 (5.576%), neg=0, invalid=762
- 0002: dt=242.066986, rms=0.771 (1.794%), neg=0, invalid=762
- 0003: dt=181.735849, rms=0.764 (0.993%), neg=0, invalid=762
- 0004: dt=221.952000, rms=0.759 (0.568%), neg=0, invalid=762
- 0005: dt=221.952000, rms=0.755 (0.570%), neg=0, invalid=762
- 0006: dt=129.472000, rms=0.752 (0.326%), neg=0, invalid=762
- 0007: dt=1183.744000, rms=0.744 (1.067%), neg=0, invalid=762
- 0008: dt=99.343284, rms=0.739 (0.797%), neg=0, invalid=762
- 0009: dt=2071.552000, rms=0.729 (1.280%), neg=0, invalid=762
- 0010: dt=129.472000, rms=0.727 (0.263%), neg=0, invalid=762
- 0011: dt=295.936000, rms=0.726 (0.125%), neg=0, invalid=762
- 0012: dt=295.936000, rms=0.726 (0.077%), neg=0, invalid=762
- 0013: dt=295.936000, rms=0.724 (0.223%), neg=0, invalid=762
- 0014: dt=295.936000, rms=0.721 (0.376%), neg=0, invalid=762
- 0015: dt=295.936000, rms=0.720 (0.250%), neg=0, invalid=762
- 0016: dt=295.936000, rms=0.718 (0.220%), neg=0, invalid=762
- 0017: dt=295.936000, rms=0.715 (0.396%), neg=0, invalid=762
- 0018: dt=295.936000, rms=0.713 (0.293%), neg=0, invalid=762
- 0019: dt=295.936000, rms=0.712 (0.201%), neg=0, invalid=762
- 0020: dt=295.936000, rms=0.710 (0.277%), neg=0, invalid=762
- 0021: dt=295.936000, rms=0.708 (0.258%), neg=0, invalid=762
- 0022: dt=295.936000, rms=0.707 (0.154%), neg=0, invalid=762
- 0023: dt=295.936000, rms=0.706 (0.146%), neg=0, invalid=762
- 0024: dt=295.936000, rms=0.705 (0.125%), neg=0, invalid=762
- 0025: dt=295.936000, rms=0.704 (0.105%), neg=0, invalid=762
- 0026: dt=295.936000, rms=0.703 (0.111%), neg=0, invalid=762
- 0027: dt=295.936000, rms=0.703 (0.082%), neg=0, invalid=762
- 0028: dt=110.976000, rms=0.702 (0.039%), neg=0, invalid=762
- 0029: dt=110.976000, rms=0.702 (0.004%), neg=0, invalid=762
- 0030: dt=110.976000, rms=0.702 (0.012%), neg=0, invalid=762
- 0031: dt=110.976000, rms=0.702 (0.020%), neg=0, invalid=762
- 0032: dt=110.976000, rms=0.702 (0.025%), neg=0, invalid=762
- 0033: dt=110.976000, rms=0.702 (0.022%), neg=0, invalid=762
- 0034: dt=110.976000, rms=0.702 (0.026%), neg=0, invalid=762
- 0035: dt=110.976000, rms=0.701 (0.021%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.703, neg=0, invalid=762
- 0036: dt=129.472000, rms=0.701 (0.185%), neg=0, invalid=762
- 0037: dt=369.920000, rms=0.701 (0.061%), neg=0, invalid=762
- 0038: dt=369.920000, rms=0.700 (0.078%), neg=0, invalid=762
- 0039: dt=369.920000, rms=0.700 (0.050%), neg=0, invalid=762
- 0040: dt=369.920000, rms=0.700 (0.005%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.706, neg=0, invalid=762
- 0041: dt=166.117647, rms=0.698 (1.138%), neg=0, invalid=762
- 0042: dt=168.072948, rms=0.690 (1.226%), neg=0, invalid=762
- 0043: dt=79.333333, rms=0.686 (0.503%), neg=0, invalid=762
- 0044: dt=103.680000, rms=0.682 (0.560%), neg=0, invalid=762
- 0045: dt=36.288000, rms=0.681 (0.254%), neg=0, invalid=762
- 0046: dt=497.664000, rms=0.675 (0.833%), neg=0, invalid=762
- 0047: dt=68.864000, rms=0.668 (1.074%), neg=0, invalid=762
- 0048: dt=36.288000, rms=0.667 (0.187%), neg=0, invalid=762
- 0049: dt=36.288000, rms=0.666 (0.069%), neg=0, invalid=762
- 0050: dt=36.288000, rms=0.665 (0.123%), neg=0, invalid=762
- 0051: dt=36.288000, rms=0.664 (0.200%), neg=0, invalid=762
- 0052: dt=36.288000, rms=0.662 (0.276%), neg=0, invalid=762
- 0053: dt=36.288000, rms=0.660 (0.308%), neg=0, invalid=762
- 0054: dt=36.288000, rms=0.658 (0.320%), neg=0, invalid=762
- 0055: dt=36.288000, rms=0.656 (0.316%), neg=0, invalid=762
- 0056: dt=36.288000, rms=0.654 (0.302%), neg=0, invalid=762
- 0057: dt=36.288000, rms=0.652 (0.302%), neg=0, invalid=762
- 0058: dt=36.288000, rms=0.650 (0.306%), neg=0, invalid=762
- 0059: dt=36.288000, rms=0.648 (0.282%), neg=0, invalid=762
- 0060: dt=36.288000, rms=0.646 (0.256%), neg=0, invalid=762
- 0061: dt=36.288000, rms=0.645 (0.230%), neg=0, invalid=762
- 0062: dt=36.288000, rms=0.644 (0.204%), neg=0, invalid=762
- 0063: dt=36.288000, rms=0.642 (0.193%), neg=0, invalid=762
- 0064: dt=36.288000, rms=0.641 (0.190%), neg=0, invalid=762
- 0065: dt=36.288000, rms=0.640 (0.168%), neg=0, invalid=762
- 0066: dt=36.288000, rms=0.639 (0.144%), neg=0, invalid=762
- 0067: dt=36.288000, rms=0.638 (0.122%), neg=0, invalid=762
- 0068: dt=36.288000, rms=0.638 (0.104%), neg=0, invalid=762
- 0069: dt=331.776000, rms=0.637 (0.057%), neg=0, invalid=762
- 0070: dt=331.776000, rms=0.637 (-1.287%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.638, neg=0, invalid=762
- 0071: dt=72.047904, rms=0.636 (0.308%), neg=0, invalid=762
- 0072: dt=62.208000, rms=0.636 (0.030%), neg=0, invalid=762
- 0073: dt=62.208000, rms=0.636 (-0.011%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.659, neg=0, invalid=762
- 0074: dt=0.400000, rms=0.658 (0.151%), neg=0, invalid=762
- 0075: dt=0.075000, rms=0.658 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.659, neg=0, invalid=762
- 0076: dt=0.000000, rms=0.658 (0.150%), neg=0, invalid=762
- 0077: dt=0.000000, rms=0.658 (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=0.726, neg=0, invalid=762
- 0078: dt=5.447059, rms=0.706 (2.768%), neg=0, invalid=762
- 0079: dt=2.880000, rms=0.705 (0.154%), neg=0, invalid=762
- 0080: dt=2.880000, rms=0.705 (-0.044%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.706, neg=0, invalid=762
- 0081: dt=0.000000, rms=0.705 (0.116%), neg=0, invalid=762
- 0082: dt=0.000000, rms=0.705 (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=0.769, neg=0, invalid=762
- 0083: dt=1.280000, rms=0.765 (0.481%), neg=0, invalid=762
- 0084: dt=2.266187, rms=0.759 (0.873%), neg=0, invalid=762
- 0085: dt=0.112000, rms=0.759 (0.004%), neg=0, invalid=762
- 0086: dt=0.112000, rms=0.759 (0.003%), neg=0, invalid=762
- 0087: dt=0.112000, rms=0.759 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.760, neg=0, invalid=762
- 0088: dt=0.768000, rms=0.758 (0.214%), neg=0, invalid=762
- 0089: dt=1.792000, rms=0.756 (0.229%), neg=0, invalid=762
- 0090: dt=1.024000, rms=0.756 (0.016%), neg=0, invalid=762
- 0091: dt=1.024000, rms=0.756 (0.051%), neg=0, invalid=762
- 0092: dt=1.024000, rms=0.756 (-0.002%), 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=0.718, neg=0, invalid=762
- 0093: dt=1.000282, rms=0.692 (3.698%), neg=0, invalid=762
- 0094: dt=0.096000, rms=0.690 (0.196%), neg=0, invalid=762
- 0095: dt=0.096000, rms=0.690 (-0.120%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.691, neg=0, invalid=762
- 0096: dt=0.028000, rms=0.690 (0.131%), neg=0, invalid=762
- 0097: dt=0.007000, rms=0.690 (0.001%), neg=0, invalid=762
- 0098: dt=0.007000, rms=0.690 (-0.000%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.14795 ( 7)
- Left_Lateral_Ventricle (4): linear fit = 0.28 x + 0.0 (375 voxels, overlap=0.019)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (375 voxels, peak = 6), gca=8.0
- gca peak = 0.15565 (16)
- mri peak = 0.11042 ( 7)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (269 voxels, overlap=0.111)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (269 voxels, peak = 6), gca=6.4
- gca peak = 0.26829 (96)
- mri peak = 0.09664 (82)
- Right_Pallidum (52): linear fit = 0.82 x + 0.0 (708 voxels, overlap=0.026)
- Right_Pallidum (52): linear fit = 0.82 x + 0.0 (708 voxels, peak = 79), gca=79.2
- gca peak = 0.20183 (93)
- mri peak = 0.08630 (80)
- Left_Pallidum (13): linear fit = 0.85 x + 0.0 (656 voxels, overlap=0.059)
- Left_Pallidum (13): linear fit = 0.85 x + 0.0 (656 voxels, peak = 79), gca=78.6
- gca peak = 0.21683 (55)
- mri peak = 0.12337 (52)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (659 voxels, overlap=0.862)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (659 voxels, peak = 50), gca=50.3
- gca peak = 0.30730 (58)
- mri peak = 0.13983 (50)
- Left_Hippocampus (17): linear fit = 0.88 x + 0.0 (700 voxels, overlap=0.827)
- Left_Hippocampus (17): linear fit = 0.88 x + 0.0 (700 voxels, peak = 51), gca=50.8
- gca peak = 0.11430 (101)
- mri peak = 0.11223 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (45418 voxels, overlap=0.619)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (45418 voxels, peak = 105), gca=104.5
- gca peak = 0.12076 (102)
- mri peak = 0.11266 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (46780 voxels, overlap=0.587)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (46780 voxels, peak = 106), gca=105.6
- gca peak = 0.14995 (59)
- mri peak = 0.05889 (51)
- Left_Cerebral_Cortex (3): linear fit = 0.85 x + 0.0 (17296 voxels, overlap=0.434)
- Left_Cerebral_Cortex (3): linear fit = 0.85 x + 0.0 (17296 voxels, peak = 50), gca=49.9
- gca peak = 0.15082 (58)
- mri peak = 0.07334 (51)
- Right_Cerebral_Cortex (42): linear fit = 0.82 x + 0.0 (16771 voxels, overlap=0.222)
- Right_Cerebral_Cortex (42): linear fit = 0.82 x + 0.0 (16771 voxels, peak = 48), gca=47.8
- gca peak = 0.14161 (67)
- mri peak = 0.07891 (60)
- Right_Caudate (50): linear fit = 0.86 x + 0.0 (915 voxels, overlap=0.585)
- Right_Caudate (50): linear fit = 0.86 x + 0.0 (915 voxels, peak = 57), gca=57.3
- gca peak = 0.15243 (71)
- mri peak = 0.08991 (60)
- Left_Caudate (11): linear fit = 0.81 x + 0.0 (844 voxels, overlap=0.043)
- Left_Caudate (11): linear fit = 0.81 x + 0.0 (844 voxels, peak = 57), gca=57.2
- gca peak = 0.13336 (57)
- mri peak = 0.04554 (56)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12161 voxels, overlap=0.966)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12161 voxels, peak = 54), gca=53.9
- gca peak = 0.13252 (56)
- mri peak = 0.04574 (51)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (11687 voxels, overlap=0.963)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (11687 voxels, peak = 53), gca=52.9
- gca peak = 0.18181 (84)
- mri peak = 0.07098 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6010 voxels, overlap=0.893)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6010 voxels, peak = 88), gca=87.8
- gca peak = 0.20573 (83)
- mri peak = 0.07560 (88)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (5421 voxels, overlap=0.924)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (5421 voxels, peak = 88), gca=87.6
- gca peak = 0.21969 (57)
- mri peak = 0.19767 (50)
- Left_Amygdala (18): linear fit = 0.89 x + 0.0 (347 voxels, overlap=0.728)
- Left_Amygdala (18): linear fit = 0.89 x + 0.0 (347 voxels, peak = 51), gca=51.0
- gca peak = 0.39313 (56)
- mri peak = 0.16737 (51)
- Right_Amygdala: unreasonable value (49.6/51.0), not in range [50, 90] - rejecting
- gca peak = 0.14181 (85)
- mri peak = 0.06937 (81)
- Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (4686 voxels, overlap=0.881)
- Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (4686 voxels, peak = 81), gca=81.2
- gca peak = 0.11978 (83)
- mri peak = 0.07294 (79)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4155 voxels, overlap=0.902)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4155 voxels, peak = 84), gca=84.2
- gca peak = 0.13399 (79)
- mri peak = 0.07132 (66)
- Left_Putamen (12): linear fit = 0.82 x + 0.0 (2032 voxels, overlap=0.318)
- Left_Putamen (12): linear fit = 0.82 x + 0.0 (2032 voxels, peak = 65), gca=65.2
- gca peak = 0.14159 (79)
- mri peak = 0.09434 (62)
- Right_Putamen (51): linear fit = 0.82 x + 0.0 (2134 voxels, overlap=0.348)
- Right_Putamen (51): linear fit = 0.82 x + 0.0 (2134 voxels, peak = 65), gca=65.2
- gca peak = 0.10025 (80)
- mri peak = 0.12365 (80)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (8831 voxels, overlap=0.401)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (8831 voxels, peak = 85), gca=85.2
- gca peak = 0.13281 (86)
- mri peak = 0.11370 (88)
- Right_VentralDC (60): linear fit = 1.01 x + 0.0 (906 voxels, overlap=0.724)
- Right_VentralDC (60): linear fit = 1.01 x + 0.0 (906 voxels, peak = 87), gca=87.3
- gca peak = 0.12801 (89)
- mri peak = 0.10273 (88)
- Left_VentralDC (28): linear fit = 0.99 x + 0.0 (1009 voxels, overlap=0.802)
- Left_VentralDC (28): linear fit = 0.99 x + 0.0 (1009 voxels, peak = 88), gca=87.7
- gca peak = 0.20494 (23)
- mri peak = 0.31579 (10)
- gca peak = 0.15061 (21)
- mri peak = 0.18145 ( 6)
- Fourth_Ventricle (15): linear fit = 0.23 x + 0.0 (235 voxels, overlap=0.020)
- Fourth_Ventricle (15): linear fit = 0.23 x + 0.0 (235 voxels, peak = 5), gca=4.9
- 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_Amygdala = 0.39313 (56)
- 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
- setting label Right_Amygdala based on Left_Amygdala = 0.89 x + 0: 51
- estimating mean gm scale to be 0.88 x + 0.0
- estimating mean wm scale to be 1.03 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=0.714, neg=0, invalid=762
- 0099: dt=129.472000, rms=0.708 (0.864%), neg=0, invalid=762
- 0100: dt=221.952000, rms=0.705 (0.479%), neg=0, invalid=762
- 0101: dt=129.472000, rms=0.703 (0.278%), neg=0, invalid=762
- 0102: dt=129.472000, rms=0.702 (0.123%), neg=0, invalid=762
- 0103: dt=129.472000, rms=0.701 (0.170%), neg=0, invalid=762
- 0104: dt=129.472000, rms=0.700 (0.087%), neg=0, invalid=762
- 0105: dt=369.920000, rms=0.699 (0.196%), neg=0, invalid=762
- 0106: dt=73.984000, rms=0.698 (0.109%), neg=0, invalid=762
- 0107: dt=2071.552000, rms=0.694 (0.569%), neg=0, invalid=762
- 0108: dt=92.480000, rms=0.693 (0.140%), neg=0, invalid=762
- 0109: dt=295.936000, rms=0.693 (0.048%), neg=0, invalid=762
- 0110: dt=295.936000, rms=0.693 (-0.119%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.694, neg=0, invalid=762
- 0111: dt=129.472000, rms=0.692 (0.297%), neg=0, invalid=762
- 0112: dt=221.952000, rms=0.691 (0.099%), neg=0, invalid=762
- 0113: dt=110.976000, rms=0.690 (0.059%), neg=0, invalid=762
- 0114: dt=295.936000, rms=0.690 (0.060%), neg=0, invalid=762
- 0115: dt=92.480000, rms=0.690 (0.047%), neg=0, invalid=762
- 0116: dt=92.480000, rms=0.690 (0.018%), neg=0, invalid=762
- 0117: dt=92.480000, rms=0.689 (0.036%), neg=0, invalid=762
- 0118: dt=92.480000, rms=0.689 (0.046%), neg=0, invalid=762
- 0119: dt=92.480000, rms=0.689 (0.049%), neg=0, invalid=762
- 0120: dt=92.480000, rms=0.688 (0.048%), neg=0, invalid=762
- 0121: dt=92.480000, rms=0.688 (0.048%), neg=0, invalid=762
- 0122: dt=92.480000, rms=0.688 (0.048%), neg=0, invalid=762
- 0123: dt=92.480000, rms=0.687 (0.049%), neg=0, invalid=762
- 0124: dt=92.480000, rms=0.687 (0.048%), neg=0, invalid=762
- 0125: dt=92.480000, rms=0.687 (0.046%), neg=0, invalid=762
- 0126: dt=92.480000, rms=0.686 (0.043%), neg=0, invalid=762
- 0127: dt=92.480000, rms=0.686 (0.042%), neg=0, invalid=762
- 0128: dt=92.480000, rms=0.686 (0.041%), neg=0, invalid=762
- 0129: dt=92.480000, rms=0.686 (0.039%), neg=0, invalid=762
- 0130: dt=92.480000, rms=0.685 (0.040%), neg=0, invalid=762
- 0131: dt=92.480000, rms=0.685 (0.040%), neg=0, invalid=762
- 0132: dt=92.480000, rms=0.685 (0.038%), neg=0, invalid=762
- 0133: dt=92.480000, rms=0.685 (0.035%), neg=0, invalid=762
- 0134: dt=92.480000, rms=0.684 (0.028%), neg=0, invalid=762
- 0135: dt=92.480000, rms=0.684 (0.028%), neg=0, invalid=762
- 0136: dt=92.480000, rms=0.684 (0.025%), neg=0, invalid=762
- 0137: dt=92.480000, rms=0.684 (0.028%), neg=0, invalid=762
- 0138: dt=92.480000, rms=0.684 (0.030%), neg=0, invalid=762
- 0139: dt=92.480000, rms=0.683 (0.030%), neg=0, invalid=762
- 0140: dt=92.480000, rms=0.683 (0.027%), neg=0, invalid=762
- 0141: dt=92.480000, rms=0.683 (0.026%), neg=0, invalid=762
- 0142: dt=92.480000, rms=0.683 (0.027%), neg=0, invalid=762
- 0143: dt=92.480000, rms=0.683 (0.028%), neg=0, invalid=762
- 0144: dt=92.480000, rms=0.682 (0.028%), neg=0, invalid=762
- 0145: dt=92.480000, rms=0.682 (0.027%), neg=0, invalid=762
- 0146: dt=92.480000, rms=0.682 (0.024%), neg=0, invalid=762
- 0147: dt=92.480000, rms=0.682 (0.023%), neg=0, invalid=762
- 0148: dt=2071.552000, rms=0.682 (0.032%), neg=0, invalid=762
- 0149: dt=73.984000, rms=0.682 (0.010%), neg=0, invalid=762
- 0150: dt=73.984000, rms=0.682 (0.003%), neg=0, invalid=762
- 0151: dt=73.984000, rms=0.682 (0.007%), neg=0, invalid=762
- 0152: dt=73.984000, rms=0.682 (0.005%), neg=0, invalid=762
- 0153: dt=73.984000, rms=0.681 (0.007%), neg=0, invalid=762
- 0154: dt=73.984000, rms=0.681 (0.008%), neg=0, invalid=762
- 0155: dt=73.984000, rms=0.681 (0.008%), neg=0, invalid=762
- 0156: dt=73.984000, rms=0.681 (0.008%), neg=0, invalid=762
- 0157: dt=73.984000, rms=0.681 (0.009%), neg=0, invalid=762
- 0158: dt=73.984000, rms=0.681 (0.010%), neg=0, invalid=762
- 0159: dt=73.984000, rms=0.681 (0.011%), neg=0, invalid=762
- 0160: dt=73.984000, rms=0.681 (0.011%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.682, neg=0, invalid=762
- 0161: dt=100.131646, rms=0.677 (0.778%), neg=0, invalid=762
- 0162: dt=101.942857, rms=0.671 (0.827%), neg=0, invalid=762
- 0163: dt=51.830986, rms=0.669 (0.404%), neg=0, invalid=762
- 0164: dt=145.152000, rms=0.664 (0.640%), neg=0, invalid=762
- 0165: dt=46.027397, rms=0.662 (0.345%), neg=0, invalid=762
- 0166: dt=248.832000, rms=0.657 (0.750%), neg=0, invalid=762
- 0167: dt=36.288000, rms=0.655 (0.332%), neg=0, invalid=762
- 0168: dt=414.720000, rms=0.652 (0.452%), neg=0, invalid=762
- 0169: dt=36.288000, rms=0.648 (0.539%), neg=0, invalid=762
- 0170: dt=331.776000, rms=0.646 (0.456%), neg=0, invalid=762
- 0171: dt=36.288000, rms=0.644 (0.212%), neg=0, invalid=762
- 0172: dt=82.944000, rms=0.644 (0.058%), neg=0, invalid=762
- 0173: dt=248.832000, rms=0.642 (0.326%), neg=0, invalid=762
- 0174: dt=31.104000, rms=0.641 (0.101%), neg=0, invalid=762
- 0175: dt=62.208000, rms=0.641 (0.033%), neg=0, invalid=762
- 0176: dt=62.208000, rms=0.640 (0.100%), neg=0, invalid=762
- 0177: dt=62.208000, rms=0.639 (0.136%), neg=0, invalid=762
- 0178: dt=62.208000, rms=0.638 (0.166%), neg=0, invalid=762
- 0179: dt=62.208000, rms=0.637 (0.204%), neg=0, invalid=762
- 0180: dt=62.208000, rms=0.635 (0.261%), neg=0, invalid=762
- 0181: dt=62.208000, rms=0.634 (0.270%), neg=0, invalid=762
- 0182: dt=62.208000, rms=0.632 (0.264%), neg=0, invalid=762
- 0183: dt=62.208000, rms=0.630 (0.248%), neg=0, invalid=762
- 0184: dt=62.208000, rms=0.629 (0.267%), neg=0, invalid=762
- 0185: dt=62.208000, rms=0.627 (0.257%), neg=0, invalid=762
- 0186: dt=62.208000, rms=0.627 (0.017%), neg=0, invalid=762
- 0187: dt=62.208000, rms=0.627 (0.047%), neg=0, invalid=762
- 0188: dt=62.208000, rms=0.626 (0.087%), neg=0, invalid=762
- 0189: dt=62.208000, rms=0.625 (0.100%), neg=0, invalid=762
- 0190: dt=62.208000, rms=0.625 (0.105%), neg=0, invalid=762
- 0191: dt=62.208000, rms=0.624 (0.109%), neg=0, invalid=762
- 0192: dt=62.208000, rms=0.624 (0.033%), neg=0, invalid=762
- 0193: dt=62.208000, rms=0.624 (0.018%), neg=0, invalid=762
- 0194: dt=15.552000, rms=0.624 (0.007%), neg=0, invalid=762
- 0195: dt=7.776000, rms=0.624 (0.003%), neg=0, invalid=762
- 0196: dt=0.121500, rms=0.624 (0.000%), neg=0, invalid=762
- 0197: dt=0.007594, rms=0.624 (0.000%), neg=0, invalid=762
- 0198: dt=0.003797, rms=0.624 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.625, neg=0, invalid=762
- 0199: dt=90.352941, rms=0.622 (0.527%), neg=0, invalid=762
- 0200: dt=73.056604, rms=0.620 (0.201%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.620 (0.078%), neg=0, invalid=762
- 0202: dt=497.664000, rms=0.618 (0.328%), neg=0, invalid=762
- 0203: dt=82.944000, rms=0.617 (0.121%), neg=0, invalid=762
- 0204: dt=31.104000, rms=0.617 (0.024%), neg=0, invalid=762
- 0205: dt=31.104000, rms=0.617 (0.017%), neg=0, invalid=762
- 0206: dt=31.104000, rms=0.617 (0.029%), neg=0, invalid=762
- 0207: dt=31.104000, rms=0.616 (0.041%), neg=0, invalid=762
- 0208: dt=31.104000, rms=0.616 (0.053%), neg=0, invalid=762
- 0209: dt=31.104000, rms=0.616 (0.058%), neg=0, invalid=762
- 0210: dt=31.104000, rms=0.615 (0.061%), neg=0, invalid=762
- 0211: dt=31.104000, rms=0.615 (0.062%), neg=0, invalid=762
- 0212: dt=31.104000, rms=0.615 (0.064%), neg=0, invalid=762
- 0213: dt=31.104000, rms=0.614 (0.070%), neg=0, invalid=762
- 0214: dt=31.104000, rms=0.614 (0.082%), neg=0, invalid=762
- 0215: dt=31.104000, rms=0.613 (0.080%), neg=0, invalid=762
- 0216: dt=31.104000, rms=0.613 (0.079%), neg=0, invalid=762
- 0217: dt=31.104000, rms=0.612 (0.075%), neg=0, invalid=762
- 0218: dt=31.104000, rms=0.612 (0.074%), neg=0, invalid=762
- 0219: dt=31.104000, rms=0.611 (0.073%), neg=0, invalid=762
- 0220: dt=31.104000, rms=0.611 (0.074%), neg=0, invalid=762
- 0221: dt=31.104000, rms=0.610 (0.073%), neg=0, invalid=762
- 0222: dt=31.104000, rms=0.610 (0.074%), neg=0, invalid=762
- 0223: dt=31.104000, rms=0.610 (0.072%), neg=0, invalid=762
- 0224: dt=31.104000, rms=0.609 (0.070%), neg=0, invalid=762
- 0225: dt=31.104000, rms=0.609 (0.075%), neg=0, invalid=762
- 0226: dt=31.104000, rms=0.608 (0.078%), neg=0, invalid=762
- 0227: dt=31.104000, rms=0.608 (0.075%), neg=0, invalid=762
- 0228: dt=31.104000, rms=0.607 (0.074%), neg=0, invalid=762
- 0229: dt=31.104000, rms=0.607 (0.074%), neg=0, invalid=762
- 0230: dt=31.104000, rms=0.606 (0.071%), neg=0, invalid=762
- 0231: dt=31.104000, rms=0.606 (0.067%), neg=0, invalid=762
- 0232: dt=31.104000, rms=0.606 (0.070%), neg=0, invalid=762
- 0233: dt=31.104000, rms=0.605 (0.063%), neg=0, invalid=762
- 0234: dt=31.104000, rms=0.605 (0.057%), neg=0, invalid=762
- 0235: dt=31.104000, rms=0.604 (0.062%), neg=0, invalid=762
- 0236: dt=31.104000, rms=0.604 (0.058%), neg=0, invalid=762
- 0237: dt=31.104000, rms=0.604 (0.058%), neg=0, invalid=762
- 0238: dt=31.104000, rms=0.603 (0.061%), neg=0, invalid=762
- 0239: dt=31.104000, rms=0.603 (0.060%), neg=0, invalid=762
- 0240: dt=31.104000, rms=0.603 (0.056%), neg=0, invalid=762
- 0241: dt=31.104000, rms=0.602 (0.054%), neg=0, invalid=762
- 0242: dt=31.104000, rms=0.602 (0.051%), neg=0, invalid=762
- 0243: dt=31.104000, rms=0.602 (0.050%), neg=0, invalid=762
- 0244: dt=31.104000, rms=0.601 (0.050%), neg=0, invalid=762
- 0245: dt=31.104000, rms=0.601 (0.049%), neg=0, invalid=762
- 0246: dt=31.104000, rms=0.601 (0.048%), neg=0, invalid=762
- 0247: dt=31.104000, rms=0.601 (0.047%), neg=0, invalid=762
- 0248: dt=31.104000, rms=0.600 (0.043%), neg=0, invalid=762
- 0249: dt=31.104000, rms=0.600 (0.041%), neg=0, invalid=762
- 0250: dt=31.104000, rms=0.600 (0.039%), neg=0, invalid=762
- 0251: dt=31.104000, rms=0.600 (0.039%), neg=0, invalid=762
- 0252: dt=31.104000, rms=0.599 (0.039%), neg=0, invalid=762
- 0253: dt=31.104000, rms=0.599 (0.036%), neg=0, invalid=762
- 0254: dt=31.104000, rms=0.599 (0.035%), neg=0, invalid=762
- 0255: dt=31.104000, rms=0.599 (0.034%), neg=0, invalid=762
- 0256: dt=31.104000, rms=0.599 (0.032%), neg=0, invalid=762
- 0257: dt=31.104000, rms=0.598 (0.034%), neg=0, invalid=762
- 0258: dt=31.104000, rms=0.598 (0.032%), neg=0, invalid=762
- 0259: dt=31.104000, rms=0.598 (0.033%), neg=0, invalid=762
- 0260: dt=31.104000, rms=0.598 (0.033%), neg=0, invalid=762
- 0261: dt=31.104000, rms=0.598 (0.032%), neg=0, invalid=762
- 0262: dt=31.104000, rms=0.597 (0.032%), neg=0, invalid=762
- 0263: dt=31.104000, rms=0.597 (0.030%), neg=0, invalid=762
- 0264: dt=31.104000, rms=0.597 (0.029%), neg=0, invalid=762
- 0265: dt=31.104000, rms=0.597 (0.030%), neg=0, invalid=762
- 0266: dt=31.104000, rms=0.597 (0.028%), neg=0, invalid=762
- 0267: dt=31.104000, rms=0.597 (0.027%), neg=0, invalid=762
- 0268: dt=31.104000, rms=0.596 (0.029%), neg=0, invalid=762
- 0269: dt=31.104000, rms=0.596 (0.028%), neg=0, invalid=762
- 0270: dt=31.104000, rms=0.596 (0.027%), neg=0, invalid=762
- 0271: dt=31.104000, rms=0.596 (0.025%), neg=0, invalid=762
- 0272: dt=31.104000, rms=0.596 (0.026%), neg=0, invalid=762
- 0273: dt=31.104000, rms=0.596 (0.025%), neg=0, invalid=762
- 0274: dt=31.104000, rms=0.595 (0.025%), neg=0, invalid=762
- 0275: dt=31.104000, rms=0.595 (0.027%), neg=0, invalid=762
- 0276: dt=31.104000, rms=0.595 (0.025%), neg=0, invalid=762
- 0277: dt=31.104000, rms=0.595 (0.025%), neg=0, invalid=762
- 0278: dt=31.104000, rms=0.595 (0.025%), neg=0, invalid=762
- 0279: dt=31.104000, rms=0.595 (0.025%), neg=0, invalid=762
- 0280: dt=31.104000, rms=0.595 (0.024%), neg=0, invalid=762
- 0281: dt=580.608000, rms=0.594 (0.029%), neg=0, invalid=762
- 0282: dt=36.288000, rms=0.594 (0.007%), neg=0, invalid=762
- 0283: dt=36.288000, rms=0.594 (0.005%), neg=0, invalid=762
- 0284: dt=36.288000, rms=0.594 (0.006%), neg=0, invalid=762
- 0285: dt=36.288000, rms=0.594 (0.006%), neg=0, invalid=762
- 0286: dt=36.288000, rms=0.594 (0.008%), neg=0, invalid=762
- 0287: dt=36.288000, rms=0.594 (0.010%), neg=0, invalid=762
- 0288: dt=36.288000, rms=0.594 (0.011%), neg=0, invalid=762
- 0289: dt=36.288000, rms=0.594 (0.014%), neg=0, invalid=762
- 0290: dt=36.288000, rms=0.594 (0.016%), neg=0, invalid=762
- 0291: dt=36.288000, rms=0.594 (0.015%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.601, neg=0, invalid=762
- 0292: dt=25.546961, rms=0.598 (0.526%), neg=0, invalid=762
- 0293: dt=64.596273, rms=0.593 (0.739%), neg=0, invalid=762
- 0294: dt=20.039604, rms=0.591 (0.428%), neg=0, invalid=762
- 0295: dt=44.800000, rms=0.586 (0.787%), neg=0, invalid=762
- 0296: dt=8.000000, rms=0.585 (0.113%), neg=0, invalid=762
- 0297: dt=0.700000, rms=0.585 (0.009%), neg=0, invalid=762
- 0298: dt=0.700000, rms=0.585 (0.009%), neg=0, invalid=762
- 0299: dt=0.087500, rms=0.585 (0.001%), neg=0, invalid=762
- 0300: dt=0.043750, rms=0.585 (0.001%), neg=0, invalid=762
- 0301: dt=0.007812, rms=0.585 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.587, neg=0, invalid=762
- 0302: dt=44.800000, rms=0.581 (0.988%), neg=0, invalid=762
- 0303: dt=28.245333, rms=0.578 (0.441%), neg=0, invalid=762
- 0304: dt=11.200000, rms=0.577 (0.230%), neg=0, invalid=762
- 0305: dt=171.466042, rms=0.572 (0.922%), neg=0, invalid=762
- 0306: dt=21.238095, rms=0.568 (0.608%), neg=0, invalid=762
- 0307: dt=11.200000, rms=0.567 (0.161%), neg=0, invalid=762
- 0308: dt=179.200000, rms=0.562 (0.846%), neg=0, invalid=762
- 0309: dt=11.200000, rms=0.561 (0.260%), neg=0, invalid=762
- 0310: dt=44.800000, rms=0.560 (0.172%), neg=0, invalid=762
- 0311: dt=19.200000, rms=0.559 (0.125%), neg=0, invalid=762
- 0312: dt=44.800000, rms=0.558 (0.167%), neg=0, invalid=762
- 0313: dt=25.600000, rms=0.558 (0.080%), neg=0, invalid=762
- 0314: dt=38.400000, rms=0.557 (0.122%), neg=0, invalid=762
- 0315: dt=11.200000, rms=0.557 (0.083%), neg=0, invalid=762
- 0316: dt=102.400000, rms=0.556 (0.154%), neg=0, invalid=762
- 0317: dt=22.337662, rms=0.555 (0.220%), neg=0, invalid=762
- 0318: dt=25.600000, rms=0.554 (0.088%), neg=0, invalid=762
- 0319: dt=32.000000, rms=0.554 (0.093%), neg=0, invalid=762
- 0320: dt=19.200000, rms=0.553 (0.065%), neg=0, invalid=762
- 0321: dt=76.800000, rms=0.552 (0.145%), neg=0, invalid=762
- 0322: dt=11.200000, rms=0.552 (0.095%), neg=0, invalid=762
- 0323: dt=32.000000, rms=0.552 (0.058%), neg=0, invalid=762
- 0324: dt=25.600000, rms=0.551 (0.074%), neg=0, invalid=762
- 0325: dt=25.600000, rms=0.551 (0.058%), neg=0, invalid=762
- 0326: dt=19.200000, rms=0.551 (0.057%), neg=0, invalid=762
- 0327: dt=38.400000, rms=0.550 (0.063%), neg=0, invalid=762
- 0328: dt=11.200000, rms=0.550 (0.057%), neg=0, invalid=762
- 0329: dt=153.600000, rms=0.549 (0.138%), neg=0, invalid=762
- 0330: dt=11.200000, rms=0.548 (0.135%), neg=0, invalid=762
- 0331: dt=19.200000, rms=0.548 (0.083%), neg=0, invalid=762
- 0332: dt=44.800000, rms=0.548 (0.072%), neg=0, invalid=762
- 0333: dt=11.200000, rms=0.547 (0.048%), neg=0, invalid=762
- 0334: dt=11.200000, rms=0.547 (0.017%), neg=0, invalid=762
- 0335: dt=11.200000, rms=0.547 (0.033%), neg=0, invalid=762
- 0336: dt=11.200000, rms=0.547 (0.054%), neg=0, invalid=762
- 0337: dt=11.200000, rms=0.546 (0.064%), neg=0, invalid=762
- 0338: dt=11.200000, rms=0.546 (0.070%), neg=0, invalid=762
- 0339: dt=11.200000, rms=0.546 (0.083%), neg=0, invalid=762
- 0340: dt=11.200000, rms=0.545 (0.101%), neg=0, invalid=762
- 0341: dt=11.200000, rms=0.544 (0.098%), neg=0, invalid=762
- 0342: dt=11.200000, rms=0.544 (0.100%), neg=0, invalid=762
- 0343: dt=11.200000, rms=0.543 (0.099%), neg=0, invalid=762
- 0344: dt=11.200000, rms=0.543 (0.104%), neg=0, invalid=762
- 0345: dt=11.200000, rms=0.543 (0.016%), neg=0, invalid=762
- 0346: dt=11.200000, rms=0.543 (0.027%), neg=0, invalid=762
- 0347: dt=11.200000, rms=0.542 (0.030%), neg=0, invalid=762
- 0348: dt=11.200000, rms=0.542 (0.041%), neg=0, invalid=762
- 0349: dt=11.200000, rms=0.542 (0.049%), neg=0, invalid=762
- 0350: dt=11.200000, rms=0.542 (0.057%), neg=0, invalid=762
- 0351: dt=11.200000, rms=0.541 (0.063%), neg=0, invalid=762
- 0352: dt=11.200000, rms=0.541 (0.063%), neg=0, invalid=762
- 0353: dt=11.200000, rms=0.541 (0.068%), neg=0, invalid=762
- 0354: dt=11.200000, rms=0.540 (0.071%), neg=0, invalid=762
- 0355: dt=11.200000, rms=0.540 (0.073%), neg=0, invalid=762
- 0356: dt=11.200000, rms=0.539 (0.075%), neg=0, invalid=762
- 0357: dt=11.200000, rms=0.539 (0.078%), neg=0, invalid=762
- 0358: dt=11.200000, rms=0.539 (0.077%), neg=0, invalid=762
- 0359: dt=11.200000, rms=0.538 (0.075%), neg=0, invalid=762
- 0360: dt=11.200000, rms=0.538 (0.071%), neg=0, invalid=762
- 0361: dt=11.200000, rms=0.537 (0.076%), neg=0, invalid=762
- 0362: dt=11.200000, rms=0.537 (0.077%), neg=0, invalid=762
- 0363: dt=11.200000, rms=0.537 (0.070%), neg=0, invalid=762
- 0364: dt=11.200000, rms=0.536 (0.072%), neg=0, invalid=762
- 0365: dt=11.200000, rms=0.536 (0.065%), neg=0, invalid=762
- 0366: dt=11.200000, rms=0.535 (0.064%), neg=0, invalid=762
- 0367: dt=11.200000, rms=0.535 (0.069%), neg=0, invalid=762
- 0368: dt=11.200000, rms=0.535 (0.007%), neg=0, invalid=762
- 0369: dt=11.200000, rms=0.535 (0.011%), neg=0, invalid=762
- 0370: dt=11.200000, rms=0.535 (-0.000%), neg=0, invalid=762
- 0371: dt=8.000000, rms=0.535 (0.001%), neg=0, invalid=762
- 0372: dt=11.200000, rms=0.535 (0.008%), neg=0, invalid=762
- 0373: dt=2.800000, rms=0.535 (-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=0.553, neg=0, invalid=762
- 0374: dt=0.000000, rms=0.552 (0.203%), neg=0, invalid=762
- 0375: dt=0.000000, rms=0.552 (0.000%), neg=0, invalid=762
- 0376: dt=0.150000, rms=0.552 (-0.026%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.553, neg=0, invalid=762
- 0377: dt=0.000000, rms=0.552 (0.203%), neg=0, invalid=762
- 0378: dt=0.000000, rms=0.552 (0.000%), neg=0, invalid=762
- 0379: dt=0.150000, rms=0.552 (-0.027%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.586, neg=0, invalid=762
- 0380: dt=0.320000, rms=0.585 (0.219%), neg=0, invalid=762
- 0381: dt=0.028000, rms=0.585 (-0.001%), neg=0, invalid=762
- 0382: dt=0.028000, rms=0.585 (0.000%), neg=0, invalid=762
- 0383: dt=0.028000, rms=0.585 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.586, neg=0, invalid=762
- 0384: dt=0.448000, rms=0.585 (0.236%), neg=0, invalid=762
- 0385: dt=0.064000, rms=0.585 (0.002%), neg=0, invalid=762
- 0386: dt=0.064000, rms=0.585 (-0.001%), 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=0.537, neg=0, invalid=762
- 0387: dt=0.448000, rms=0.518 (3.444%), neg=0, invalid=762
- 0388: dt=0.448000, rms=0.514 (0.726%), neg=0, invalid=762
- 0389: dt=0.448000, rms=0.512 (0.363%), neg=0, invalid=762
- 0390: dt=0.448000, rms=0.511 (0.198%), neg=0, invalid=762
- 0391: dt=0.448000, rms=0.511 (0.138%), neg=0, invalid=762
- 0392: dt=0.448000, rms=0.510 (0.092%), neg=0, invalid=762
- 0393: dt=0.448000, rms=0.510 (0.076%), neg=0, invalid=762
- 0394: dt=0.448000, rms=0.510 (0.050%), neg=0, invalid=762
- 0395: dt=0.448000, rms=0.509 (0.052%), neg=0, invalid=762
- 0396: dt=0.448000, rms=0.509 (0.030%), neg=0, invalid=762
- 0397: dt=0.448000, rms=0.509 (0.036%), neg=0, invalid=762
- 0398: dt=0.448000, rms=0.509 (0.044%), neg=0, invalid=762
- 0399: dt=0.448000, rms=0.509 (0.023%), neg=0, invalid=762
- 0400: dt=0.448000, rms=0.509 (0.028%), neg=0, invalid=762
- 0401: dt=0.448000, rms=0.508 (0.013%), neg=0, invalid=762
- 0402: dt=0.448000, rms=0.508 (0.014%), neg=0, invalid=762
- 0403: dt=0.224000, rms=0.508 (0.010%), neg=0, invalid=762
- 0404: dt=0.448000, rms=0.508 (0.013%), neg=0, invalid=762
- 0405: dt=0.112000, rms=0.508 (0.001%), neg=0, invalid=762
- 0406: dt=0.112000, rms=0.508 (0.000%), neg=0, invalid=762
- 0407: dt=0.112000, rms=0.508 (0.003%), neg=0, invalid=762
- 0408: dt=0.112000, rms=0.508 (0.006%), neg=0, invalid=762
- 0409: dt=0.112000, rms=0.508 (0.003%), neg=0, invalid=762
- 0410: dt=0.112000, rms=0.508 (0.006%), neg=0, invalid=762
- 0411: dt=0.112000, rms=0.508 (0.006%), neg=0, invalid=762
- 0412: dt=0.112000, rms=0.508 (0.005%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.509, neg=0, invalid=762
- 0413: dt=0.384000, rms=0.502 (1.406%), neg=0, invalid=762
- 0414: dt=0.320000, rms=0.501 (0.244%), neg=0, invalid=762
- 0415: dt=0.320000, rms=0.500 (0.114%), neg=0, invalid=762
- 0416: dt=0.320000, rms=0.500 (0.055%), neg=0, invalid=762
- 0417: dt=0.320000, rms=0.500 (0.024%), neg=0, invalid=762
- 0418: dt=0.320000, rms=0.500 (0.018%), neg=0, invalid=762
- 0419: dt=0.320000, rms=0.500 (0.020%), neg=0, invalid=762
- 0420: dt=0.320000, rms=0.500 (0.008%), neg=0, invalid=762
- 0421: dt=0.320000, rms=0.500 (-0.005%), neg=0, invalid=762
- label assignment complete, 0 changed (0.00%)
- ********************* ALLOWING NEGATIVE NODES IN DEFORMATION********************************
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.008
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.499, neg=0, invalid=762
- 0422: dt=0.000000, rms=0.498 (0.250%), neg=0, invalid=762
- 0423: dt=0.000000, rms=0.498 (0.000%), neg=0, invalid=762
- 0424: dt=0.850000, rms=0.498 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.499, neg=0, invalid=762
- 0425: dt=110.976000, rms=0.498 (0.260%), neg=0, invalid=762
- 0426: dt=129.472000, rms=0.498 (0.021%), neg=0, invalid=762
- 0427: dt=129.472000, rms=0.498 (-0.025%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.499, neg=0, invalid=762
- 0428: dt=6.480000, rms=0.498 (0.254%), neg=0, invalid=762
- 0429: dt=1.620000, rms=0.498 (-0.001%), neg=0, invalid=762
- 0430: dt=1.620000, rms=0.498 (0.000%), neg=0, invalid=762
- 0431: dt=1.620000, rms=0.498 (0.001%), neg=0, invalid=762
- 0432: dt=1.620000, rms=0.498 (-0.004%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.499, neg=0, invalid=762
- 0433: dt=82.944000, rms=0.497 (0.377%), neg=0, invalid=762
- 0434: dt=36.288000, rms=0.497 (0.087%), neg=0, invalid=762
- 0435: dt=36.288000, rms=0.496 (0.038%), neg=0, invalid=762
- 0436: dt=36.288000, rms=0.496 (0.056%), neg=0, invalid=762
- 0437: dt=36.288000, rms=0.496 (0.079%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0438: dt=36.288000, rms=0.495 (0.069%), neg=0, invalid=762
- 0439: dt=36.288000, rms=0.495 (0.065%), neg=0, invalid=762
- 0440: dt=82.944000, rms=0.495 (0.022%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.496, neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0441: dt=11.200000, rms=0.494 (0.418%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0442: dt=11.200000, rms=0.494 (0.078%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 0 iterations, nbhd size=0, neg = 0
- 0443: dt=11.200000, rms=0.494 (0.055%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0444: dt=11.200000, rms=0.493 (0.022%), neg=0, invalid=762
- iter 0, gcam->neg = 13
- after 11 iterations, nbhd size=1, neg = 0
- 0445: dt=11.200000, rms=0.493 (-0.086%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.495, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0446: dt=25.600000, rms=0.490 (0.997%), neg=0, invalid=762
- 0447: dt=11.200000, rms=0.488 (0.261%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 9 iterations, nbhd size=1, neg = 0
- 0448: dt=122.634731, rms=0.485 (0.711%), neg=0, invalid=762
- 0449: dt=11.200000, rms=0.484 (0.303%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0450: dt=38.400000, rms=0.483 (0.150%), neg=0, invalid=762
- 0451: dt=38.400000, rms=0.483 (0.000%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0452: dt=38.400000, rms=0.481 (0.306%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 10 iterations, nbhd size=1, neg = 0
- 0453: dt=38.400000, rms=0.481 (0.155%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0454: dt=38.400000, rms=0.479 (0.429%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 3 iterations, nbhd size=0, neg = 0
- 0455: dt=38.400000, rms=0.477 (0.259%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0456: dt=38.400000, rms=0.476 (0.265%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 4 iterations, nbhd size=0, neg = 0
- 0457: dt=38.400000, rms=0.474 (0.337%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0458: dt=38.400000, rms=0.474 (0.178%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 5 iterations, nbhd size=0, neg = 0
- 0459: dt=38.400000, rms=0.472 (0.251%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 3 iterations, nbhd size=0, neg = 0
- 0460: dt=38.400000, rms=0.472 (0.020%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0461: dt=38.400000, rms=0.471 (0.245%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0462: dt=38.400000, rms=0.471 (-0.042%), neg=0, invalid=762
- 0463: dt=11.200000, rms=0.471 (0.113%), neg=0, invalid=762
- 0464: dt=19.200000, rms=0.470 (0.052%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.475, neg=0, invalid=762
- 0465: dt=1.333333, rms=0.474 (0.266%), neg=0, invalid=762
- 0466: dt=0.576000, rms=0.474 (0.002%), neg=0, invalid=762
- 0467: dt=0.576000, rms=0.474 (0.000%), neg=0, invalid=762
- 0468: dt=0.576000, rms=0.474 (-0.010%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.475, neg=0, invalid=762
- 0469: dt=4.032000, rms=0.474 (0.299%), neg=0, invalid=762
- 0470: dt=4.500000, rms=0.473 (0.033%), neg=0, invalid=762
- 0471: dt=4.500000, rms=0.473 (0.033%), neg=0, invalid=762
- 0472: dt=4.500000, rms=0.473 (0.028%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0473: dt=4.500000, rms=0.473 (0.012%), neg=0, invalid=762
- iter 0, gcam->neg = 178
- after 16 iterations, nbhd size=1, neg = 0
- 0474: dt=138.956592, rms=0.462 (2.383%), neg=0, invalid=762
- 0475: dt=6.823529, rms=0.460 (0.306%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0476: dt=2.000000, rms=0.460 (0.013%), neg=0, invalid=762
- 0477: dt=2.000000, rms=0.460 (0.001%), neg=0, invalid=762
- 0478: dt=2.000000, rms=0.460 (-0.026%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.467, neg=0, invalid=762
- 0479: dt=0.000000, rms=0.466 (0.294%), neg=0, invalid=762
- 0480: dt=0.000000, rms=0.466 (0.000%), neg=0, invalid=762
- 0481: dt=0.100000, rms=0.466 (-0.095%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.467, neg=0, invalid=762
- 0482: dt=0.000000, rms=0.466 (0.294%), neg=0, invalid=762
- 0483: dt=0.000000, rms=0.466 (0.000%), neg=0, invalid=762
- 0484: dt=0.100000, rms=0.466 (-0.075%), 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=0.458, neg=0, invalid=762
- iter 0, gcam->neg = 1156
- after 13 iterations, nbhd size=1, neg = 0
- 0485: dt=1.958523, rms=0.426 (6.910%), neg=0, invalid=762
- 0486: dt=0.000013, rms=0.426 (0.005%), neg=0, invalid=762
- 0487: dt=0.000013, rms=0.426 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.428, neg=0, invalid=762
- 0488: dt=0.096000, rms=0.426 (0.433%), neg=0, invalid=762
- 0489: dt=0.001250, rms=0.426 (-0.002%), neg=0, invalid=762
- 0490: dt=0.001250, rms=0.426 (0.000%), neg=0, invalid=762
- 0491: dt=0.001250, rms=0.426 (-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
- 0492: 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
- 0493: dt=23.120000, rms=0.414 (0.004%), neg=0, invalid=762
- 0494: dt=8.092000, rms=0.414 (0.000%), neg=0, invalid=762
- 0495: dt=8.092000, rms=0.414 (0.000%), neg=0, invalid=762
- 0496: dt=8.092000, 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
- 0497: 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
- 0498: dt=36.288000, rms=0.414 (0.042%), neg=0, invalid=762
- 0499: dt=82.944000, rms=0.414 (0.031%), neg=0, invalid=762
- 0500: dt=82.944000, rms=0.414 (0.008%), neg=0, invalid=762
- 0501: dt=82.944000, rms=0.414 (0.007%), neg=0, invalid=762
- 0502: dt=82.944000, rms=0.414 (-0.027%), 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
- 0503: dt=2.400000, rms=0.414 (0.005%), neg=0, invalid=762
- 0504: dt=0.175000, rms=0.414 (0.000%), neg=0, invalid=762
- 0505: dt=0.175000, rms=0.414 (0.000%), neg=0, invalid=762
- 0506: dt=0.175000, 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
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0507: dt=44.800000, rms=0.413 (0.390%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 9 iterations, nbhd size=1, neg = 0
- 0508: dt=32.000000, rms=0.412 (0.062%), neg=0, invalid=762
- 0509: dt=32.000000, rms=0.412 (0.075%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 7 iterations, nbhd size=1, neg = 0
- 0510: dt=32.000000, rms=0.411 (0.225%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 9 iterations, nbhd size=1, neg = 0
- 0511: dt=32.000000, rms=0.411 (0.060%), neg=0, invalid=762
- iter 0, gcam->neg = 16
- after 9 iterations, nbhd size=1, neg = 0
- 0512: dt=32.000000, rms=0.410 (0.171%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 8 iterations, nbhd size=1, neg = 0
- 0513: dt=32.000000, rms=0.410 (0.071%), neg=0, invalid=762
- iter 0, gcam->neg = 16
- after 11 iterations, nbhd size=1, neg = 0
- 0514: dt=32.000000, rms=0.410 (-0.000%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0515: dt=11.200000, rms=0.410 (0.061%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0516: dt=76.800000, rms=0.409 (0.074%), neg=0, invalid=762
- 0517: dt=11.200000, rms=0.409 (0.038%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.412, neg=0, invalid=762
- 0518: dt=2.304000, rms=0.412 (0.023%), neg=0, invalid=762
- 0519: dt=0.252000, rms=0.412 (0.000%), neg=0, invalid=762
- 0520: dt=0.252000, 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
- iter 0, gcam->neg = 6
- after 7 iterations, nbhd size=1, neg = 0
- 0521: dt=21.194805, rms=0.410 (0.493%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 10 iterations, nbhd size=1, neg = 0
- 0522: dt=20.461538, rms=0.409 (0.286%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0523: dt=9.611940, rms=0.408 (0.156%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0524: dt=9.611940, rms=0.408 (0.083%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 1 iterations, nbhd size=0, neg = 0
- 0525: dt=9.611940, rms=0.407 (0.094%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0526: dt=9.611940, rms=0.407 (0.131%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 4 iterations, nbhd size=0, neg = 0
- 0527: dt=9.611940, rms=0.406 (0.120%), neg=0, invalid=762
- iter 0, gcam->neg = 27
- after 10 iterations, nbhd size=1, neg = 0
- 0528: dt=9.611940, rms=0.406 (0.132%), neg=0, invalid=762
- iter 0, gcam->neg = 34
- after 16 iterations, nbhd size=1, neg = 0
- 0529: dt=9.611940, rms=0.406 (0.046%), neg=0, invalid=762
- iter 0, gcam->neg = 24
- after 6 iterations, nbhd size=0, neg = 0
- 0530: dt=9.611940, rms=0.405 (0.103%), neg=0, invalid=762
- iter 0, gcam->neg = 33
- after 13 iterations, nbhd size=1, neg = 0
- 0531: dt=9.611940, rms=0.405 (-0.014%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0532: dt=7.666667, rms=0.405 (0.021%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 13 iterations, nbhd size=1, neg = 0
- 0533: dt=26.285714, rms=0.405 (0.046%), neg=0, invalid=762
- 0534: dt=1.008000, rms=0.405 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.410, neg=0, invalid=762
- 0535: dt=0.000000, rms=0.410 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.410, neg=0, invalid=762
- 0536: dt=0.000000, rms=0.410 (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=0.401, neg=0, invalid=762
- iter 0, gcam->neg = 827
- after 13 iterations, nbhd size=1, neg = 0
- 0537: dt=1.280000, rms=0.391 (2.531%), neg=0, invalid=762
- 0538: dt=0.000015, rms=0.391 (0.000%), neg=0, invalid=762
- 0539: dt=0.000015, rms=0.391 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.391, neg=0, invalid=762
- 0540: dt=0.096000, rms=0.391 (0.061%), neg=0, invalid=762
- 0541: dt=0.064000, rms=0.391 (0.013%), neg=0, invalid=762
- 0542: dt=0.064000, rms=0.391 (0.003%), neg=0, invalid=762
- 0543: dt=0.064000, rms=0.391 (-0.034%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 4 hours, 46 minutes and 30 seconds.
- mri_ca_register utimesec 18994.578385
- mri_ca_register stimesec 11.186299
- mri_ca_register ru_maxrss 1329156
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4600575
- mri_ca_register ru_majflt 1
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 2576
- mri_ca_register ru_oublock 62776
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 4032
- mri_ca_register ru_nivcsw 64922
- FSRUNTIME@ mri_ca_register 4.7749 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 21:48:00 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-565
- 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-6.0.0/0050776/mri
- mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz
- == Number of threads available to mri_ca_label for OpenMP = 2 ==
- relabeling unlikely voxels with window_size = 9 and prior threshold 0.30
- using Gibbs prior factor = 0.500
- renormalizing sequences with structure alignment, equivalent to:
- -renormalize
- -renormalize_mean 0.500
- -regularize 0.500
- reading 1 input volumes
- reading classifier array from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
- reading input volume from norm.mgz
- average std[0] = 7.3
- reading transform from transforms/talairach.m3z
- setting orig areas to linear transform determinant scaled 5.97
- 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 = 0.12802 ( 3)
- Left_Lateral_Ventricle (4): linear fit = 0.09 x + 0.0 (463 voxels, overlap=0.007)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (463 voxels, peak = 2), gca=8.0
- gca peak = 0.17677 (13)
- mri peak = 0.14552 ( 3)
- Right_Lateral_Ventricle (43): linear fit = 0.14 x + 0.0 (295 voxels, overlap=0.341)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (295 voxels, peak = 2), gca=5.2
- gca peak = 0.28129 (95)
- mri peak = 0.09488 (80)
- Right_Pallidum (52): linear fit = 0.83 x + 0.0 (604 voxels, overlap=0.030)
- Right_Pallidum (52): linear fit = 0.83 x + 0.0 (604 voxels, peak = 79), gca=79.3
- gca peak = 0.16930 (96)
- mri peak = 0.07882 (84)
- Left_Pallidum (13): linear fit = 0.89 x + 0.0 (671 voxels, overlap=0.061)
- Left_Pallidum (13): linear fit = 0.89 x + 0.0 (671 voxels, peak = 86), gca=85.9
- gca peak = 0.24553 (55)
- mri peak = 0.12108 (50)
- Right_Hippocampus: unreasonable value (49.2/50.0), not in range [50, 90] - rejecting
- gca peak = 0.30264 (59)
- mri peak = 0.13181 (54)
- Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (734 voxels, overlap=1.009)
- Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (734 voxels, peak = 53), gca=52.8
- gca peak = 0.07580 (103)
- mri peak = 0.12501 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (24474 voxels, overlap=0.597)
- Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (24474 voxels, peak = 105), gca=104.5
- gca peak = 0.07714 (104)
- mri peak = 0.12680 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (25046 voxels, overlap=0.566)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (25046 voxels, peak = 106), gca=105.6
- gca peak = 0.09712 (58)
- mri peak = 0.05963 (49)
- Left_Cerebral_Cortex (3): linear fit = 0.82 x + 0.0 (26708 voxels, overlap=0.456)
- Left_Cerebral_Cortex (3): linear fit = 0.82 x + 0.0 (26708 voxels, peak = 48), gca=47.8
- gca peak = 0.11620 (58)
- mri peak = 0.06752 (51)
- Right_Cerebral_Cortex (42): linear fit = 0.82 x + 0.0 (25180 voxels, overlap=0.369)
- Right_Cerebral_Cortex (42): linear fit = 0.82 x + 0.0 (25180 voxels, peak = 48), gca=47.8
- gca peak = 0.30970 (66)
- mri peak = 0.10169 (60)
- Right_Caudate (50): linear fit = 0.89 x + 0.0 (1181 voxels, overlap=0.654)
- Right_Caudate (50): linear fit = 0.89 x + 0.0 (1181 voxels, peak = 59), gca=59.1
- gca peak = 0.15280 (69)
- mri peak = 0.10547 (60)
- Left_Caudate (11): linear fit = 0.79 x + 0.0 (1045 voxels, overlap=0.022)
- Left_Caudate (11): linear fit = 0.79 x + 0.0 (1045 voxels, peak = 54), gca=54.2
- gca peak = 0.13902 (56)
- mri peak = 0.05309 (56)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (13400 voxels, overlap=0.987)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (13400 voxels, peak = 53), gca=52.9
- gca peak = 0.14777 (55)
- mri peak = 0.05154 (50)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (12186 voxels, overlap=0.962)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (12186 voxels, peak = 52), gca=52.0
- gca peak = 0.16765 (84)
- mri peak = 0.08035 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 1.03 x + 0.0 (4441 voxels, overlap=0.937)
- Left_Cerebellum_White_Matter (7): linear fit = 1.03 x + 0.0 (4441 voxels, peak = 87), gca=86.9
- gca peak = 0.18739 (84)
- mri peak = 0.08639 (89)
- Right_Cerebellum_White_Matter (46): linear fit = 1.04 x + 0.0 (4433 voxels, overlap=0.911)
- Right_Cerebellum_White_Matter (46): linear fit = 1.04 x + 0.0 (4433 voxels, peak = 88), gca=87.8
- gca peak = 0.29869 (57)
- mri peak = 0.16667 (50)
- Left_Amygdala: unreasonable value (49.9/50.0), not in range [50, 90] - rejecting
- gca peak = 0.33601 (57)
- mri peak = 0.14716 (51)
- Right_Amygdala (54): linear fit = 0.89 x + 0.0 (401 voxels, overlap=0.771)
- Right_Amygdala (54): linear fit = 0.89 x + 0.0 (401 voxels, peak = 51), gca=51.0
- gca peak = 0.11131 (90)
- mri peak = 0.08788 (79)
- Left_Thalamus_Proper (10): linear fit = 0.93 x + 0.0 (3840 voxels, overlap=0.804)
- Left_Thalamus_Proper (10): linear fit = 0.93 x + 0.0 (3840 voxels, peak = 83), gca=83.2
- gca peak = 0.11793 (83)
- mri peak = 0.09093 (79)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (3905 voxels, overlap=0.960)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (3905 voxels, peak = 82), gca=81.8
- gca peak = 0.08324 (81)
- mri peak = 0.08188 (63)
- Left_Putamen (12): linear fit = 0.86 x + 0.0 (1869 voxels, overlap=0.300)
- Left_Putamen (12): linear fit = 0.86 x + 0.0 (1869 voxels, peak = 69), gca=69.3
- gca peak = 0.10360 (77)
- mri peak = 0.09699 (62)
- Right_Putamen (51): linear fit = 0.86 x + 0.0 (1914 voxels, overlap=0.259)
- Right_Putamen (51): linear fit = 0.86 x + 0.0 (1914 voxels, peak = 66), gca=65.8
- gca peak = 0.08424 (78)
- mri peak = 0.11649 (80)
- Brain_Stem (16): linear fit = 1.03 x + 0.0 (8253 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.03 x + 0.0 (8253 voxels, peak = 81), gca=80.7
- gca peak = 0.12631 (89)
- mri peak = 0.10672 (88)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1104 voxels, overlap=0.823)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1104 voxels, peak = 89), gca=88.6
- gca peak = 0.14500 (87)
- mri peak = 0.10759 (88)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1153 voxels, overlap=0.916)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1153 voxels, peak = 87), gca=86.6
- gca peak = 0.14975 (24)
- mri peak = 0.06131 ( 5)
- gca peak = 0.19357 (14)
- mri peak = 0.16409 ( 6)
- Fourth_Ventricle (15): linear fit = 0.12 x + 0.0 (304 voxels, overlap=0.025)
- Fourth_Ventricle (15): linear fit = 0.12 x + 0.0 (304 voxels, peak = 2), gca=1.8
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak Fourth_Ventricle = 0.19357 (14)
- gca peak Left_Amygdala = 0.29869 (57)
- 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_Hippocampus = 0.24553 (55)
- 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
- setting label Right_Hippocampus based on Left_Hippocampus = 0.89 x + 0: 53
- setting label Left_Amygdala based on Right_Amygdala = 0.89 x + 0: 51
- estimating mean gm scale to be 0.87 x + 0.0
- estimating mean wm scale to be 1.01 x + 0.0
- estimating mean csf scale to be 0.40 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.30837 ( 7)
- mri peak = 0.12802 ( 3)
- Left_Lateral_Ventricle (4): linear fit = 0.28 x + 0.0 (463 voxels, overlap=0.972)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (463 voxels, peak = 2), gca=2.8
- gca peak = 0.30173 ( 5)
- mri peak = 0.14552 ( 3)
- Right_Lateral_Ventricle (43): linear fit = 0.38 x + 0.0 (295 voxels, overlap=0.951)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (295 voxels, peak = 2), gca=2.0
- gca peak = 0.32664 (80)
- mri peak = 0.09488 (80)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (604 voxels, overlap=0.999)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (604 voxels, peak = 81), gca=81.2
- gca peak = 0.16882 (82)
- mri peak = 0.07882 (84)
- Left_Pallidum (13): linear fit = 0.98 x + 0.0 (671 voxels, overlap=1.014)
- Left_Pallidum (13): linear fit = 0.98 x + 0.0 (671 voxels, peak = 80), gca=80.0
- gca peak = 0.31895 (50)
- mri peak = 0.12108 (50)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (733 voxels, overlap=0.985)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (733 voxels, peak = 50), gca=50.0
- gca peak = 0.30657 (53)
- mri peak = 0.13181 (54)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (734 voxels, overlap=1.007)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (734 voxels, peak = 53), gca=53.0
- gca peak = 0.07771 (104)
- mri peak = 0.12501 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (24474 voxels, overlap=0.666)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (24474 voxels, peak = 104), gca=104.0
- gca peak = 0.07820 (106)
- mri peak = 0.12680 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (25046 voxels, overlap=0.634)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (25046 voxels, peak = 106), gca=106.0
- gca peak = 0.11691 (48)
- mri peak = 0.05963 (49)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (26708 voxels, overlap=0.994)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (26708 voxels, peak = 48), gca=48.0
- gca peak = 0.13766 (48)
- mri peak = 0.06752 (51)
- Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (25180 voxels, overlap=0.992)
- Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (25180 voxels, peak = 48), gca=48.0
- gca peak = 0.31014 (59)
- mri peak = 0.10169 (60)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (1181 voxels, overlap=1.008)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (1181 voxels, peak = 59), gca=59.0
- gca peak = 0.13563 (61)
- mri peak = 0.10547 (60)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (1045 voxels, overlap=0.991)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (1045 voxels, peak = 63), gca=62.5
- gca peak = 0.14838 (52)
- mri peak = 0.05309 (56)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (13400 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (13400 voxels, peak = 52), gca=52.0
- gca peak = 0.15414 (52)
- mri peak = 0.05154 (50)
- Right_Cerebellum_Cortex (47): linear fit = 0.98 x + 0.0 (12186 voxels, overlap=1.000)
- Right_Cerebellum_Cortex (47): linear fit = 0.98 x + 0.0 (12186 voxels, peak = 51), gca=50.7
- gca peak = 0.15906 (87)
- mri peak = 0.08035 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4441 voxels, overlap=0.984)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4441 voxels, peak = 87), gca=86.6
- gca peak = 0.16857 (88)
- mri peak = 0.08639 (89)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4433 voxels, overlap=0.985)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4433 voxels, peak = 88), gca=87.6
- gca peak = 0.29859 (51)
- mri peak = 0.16667 (50)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (489 voxels, overlap=1.015)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (489 voxels, peak = 51), gca=51.0
- gca peak = 0.38089 (51)
- mri peak = 0.14716 (51)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (401 voxels, overlap=0.996)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (401 voxels, peak = 51), gca=51.0
- gca peak = 0.12186 (82)
- mri peak = 0.08788 (79)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (3840 voxels, overlap=0.876)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (3840 voxels, peak = 82), gca=82.0
- gca peak = 0.10568 (79)
- mri peak = 0.09093 (79)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3905 voxels, overlap=0.942)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3905 voxels, peak = 79), gca=79.0
- gca peak = 0.09591 (66)
- mri peak = 0.08188 (63)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1869 voxels, overlap=0.956)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1869 voxels, peak = 66), gca=66.0
- gca peak = 0.10238 (68)
- mri peak = 0.09699 (62)
- Right_Putamen (51): linear fit = 1.01 x + 0.0 (1914 voxels, overlap=0.985)
- Right_Putamen (51): linear fit = 1.01 x + 0.0 (1914 voxels, peak = 69), gca=69.0
- gca peak = 0.08720 (81)
- mri peak = 0.11649 (80)
- Brain_Stem (16): linear fit = 1.01 x + 0.0 (8253 voxels, overlap=0.625)
- Brain_Stem (16): linear fit = 1.01 x + 0.0 (8253 voxels, peak = 82), gca=82.2
- gca peak = 0.11227 (85)
- mri peak = 0.10672 (88)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1104 voxels, overlap=0.820)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1104 voxels, peak = 87), gca=87.1
- gca peak = 0.16873 (85)
- mri peak = 0.10759 (88)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (1153 voxels, overlap=0.915)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (1153 voxels, peak = 86), gca=86.3
- gca peak = 0.33708 (10)
- mri peak = 0.06131 ( 5)
- gca peak = 0.45928 ( 6)
- mri peak = 0.16409 ( 6)
- Fourth_Ventricle (15): linear fit = 0.79 x + 0.0 (304 voxels, overlap=0.891)
- Fourth_Ventricle (15): linear fit = 0.79 x + 0.0 (304 voxels, peak = 5), gca=4.7
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.19080 (30)
- gca peak Left_Thalamus = 0.64095 (82)
- gca peak Third_Ventricle = 0.33708 (10)
- gca peak CSF = 0.26605 (13)
- gca peak Left_Accumbens_area = 0.85342 (49)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.67411 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.26981 (21)
- gca peak Right_Accumbens_area = 0.32015 (58)
- gca peak Right_vessel = 0.78755 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65560 (13)
- gca peak WM_hypointensities = 0.06856 (78)
- gca peak non_WM_hypointensities = 0.09744 (44)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.00 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.53 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
- 61753 voxels changed in iteration 0 of unlikely voxel relabeling
- 56 voxels changed in iteration 1 of unlikely voxel relabeling
- 4 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 23312 gm and wm labels changed (%27 to gray, %73 to white out of all changed labels)
- 605 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 67481 changed. image ll: -2.114, PF=0.500
- pass 2: 19395 changed. image ll: -2.114, PF=0.500
- pass 3: 5929 changed.
- pass 4: 2120 changed.
- 34555 voxels changed in iteration 0 of unlikely voxel relabeling
- 226 voxels changed in iteration 1 of unlikely voxel relabeling
- 8 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 4729 voxels changed in iteration 0 of unlikely voxel relabeling
- 81 voxels changed in iteration 1 of unlikely voxel relabeling
- 3 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 4396 voxels changed in iteration 0 of unlikely voxel relabeling
- 51 voxels changed in iteration 1 of unlikely voxel relabeling
- 3 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 3550 voxels changed in iteration 0 of unlikely voxel relabeling
- 26 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
- MRItoUCHAR: min=0, max=85
- MRItoUCHAR: converting to UCHAR
- writing labeled volume to aseg.auto_noCCseg.mgz
- mri_ca_label utimesec 3630.805033
- mri_ca_label stimesec 1.440780
- mri_ca_label ru_maxrss 2102992
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 607243
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 0
- mri_ca_label ru_oublock 480
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 372
- mri_ca_label ru_nivcsw 12043
- auto-labeling took 59 minutes and 46 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/transforms/cc_up.lta 0050776
- 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-6.0.0/0050776/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/norm.mgz
- 17377 voxels in left wm, 45763 in right wm, xrange [119, 127]
- searching rotation angles z=[-8 6], y=[-9 5]
-
searching scale 1 Z rot -7.8
searching scale 1 Z rot -7.5
searching scale 1 Z rot -7.3
searching scale 1 Z rot -7.0
searching scale 1 Z rot -6.8
searching scale 1 Z rot -6.5
searching scale 1 Z rot -6.3
searching scale 1 Z rot -6.0
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 global minimum found at slice 124.1, rotations (-2.12, -0.79)
- final transformation (x=124.1, yr=-2.125, zr=-0.788):
- 0.99922 0.01375 -0.03707 7.04559;
- -0.01374 0.99991 0.00051 13.65202;
- 0.03707 0.00000 0.99931 -0.51401;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [127, 130] in xformed coordinates
- best xformed slice 128
- cc center is found at 128 116 124
- eigenvectors:
- 0.00040 -0.00757 0.99997;
- 0.07695 -0.99701 -0.00757;
- 0.99704 0.07695 0.00018;
- error in mid anterior detected - correcting...
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/aseg.auto.mgz...
- corpus callosum segmentation took 0.7 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 22:48:25 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 22:48:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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...
- 994 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 53 (53), valley at 22 (22)
- csf peak at 10, setting threshold to 38
- 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 18 (18)
- 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 2 minutes and 48 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 22:51:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1464495 voxels in mask (pct= 8.73)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 22:51:16 CEST 2017
- mri_segment -mprage brain.mgz wm.seg.mgz
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- computing class statistics for intensity windows...
- WM (107.0): 107.4 +- 4.9 [79.0 --> 125.0]
- GM (62.0) : 61.6 +- 10.9 [30.0 --> 95.0]
- setting bottom of white matter range to 72.6
- setting top of gray matter range to 83.5
- 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...
- 9321 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 7391 filled
- 2399 bright non-wm voxels segmented.
- 3923 diagonally connected voxels added...
- white matter segmentation took 1.3 minutes
- writing output to wm.seg.mgz...
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz
- preserving editing changes in input volume...
- auto filling took 0.57 minutes
- reading wm segmentation from wm.seg.mgz...
- 847 voxels added to wm to prevent paths from MTL structures to cortex
- 2395 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 43417 voxels turned on, 37384 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 87 new 87
- 115,126,128 old 87 new 87
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 23 found - 23 modified | TOTAL: 23
- pass 2 (xy+): 0 found - 23 modified | TOTAL: 23
- pass 1 (xy-): 23 found - 23 modified | TOTAL: 46
- pass 2 (xy-): 0 found - 23 modified | TOTAL: 46
- pass 1 (yz+): 37 found - 37 modified | TOTAL: 83
- pass 2 (yz+): 0 found - 37 modified | TOTAL: 83
- pass 1 (yz-): 33 found - 33 modified | TOTAL: 116
- pass 2 (yz-): 0 found - 33 modified | TOTAL: 116
- pass 1 (xz+): 21 found - 21 modified | TOTAL: 137
- pass 2 (xz+): 0 found - 21 modified | TOTAL: 137
- pass 1 (xz-): 29 found - 29 modified | TOTAL: 166
- pass 2 (xz-): 0 found - 29 modified | TOTAL: 166
- Iteration Number : 1
- pass 1 (+++): 17 found - 17 modified | TOTAL: 17
- pass 2 (+++): 0 found - 17 modified | TOTAL: 17
- pass 1 (+++): 30 found - 30 modified | TOTAL: 47
- pass 2 (+++): 0 found - 30 modified | TOTAL: 47
- pass 1 (+++): 21 found - 21 modified | TOTAL: 68
- pass 2 (+++): 0 found - 21 modified | TOTAL: 68
- pass 1 (+++): 26 found - 26 modified | TOTAL: 94
- pass 2 (+++): 0 found - 26 modified | TOTAL: 94
- Iteration Number : 1
- pass 1 (++): 263 found - 263 modified | TOTAL: 263
- pass 2 (++): 0 found - 263 modified | TOTAL: 263
- pass 1 (+-): 250 found - 250 modified | TOTAL: 513
- pass 2 (+-): 0 found - 250 modified | TOTAL: 513
- pass 1 (--): 241 found - 241 modified | TOTAL: 754
- pass 2 (--): 0 found - 241 modified | TOTAL: 754
- pass 1 (-+): 307 found - 307 modified | TOTAL: 1061
- pass 2 (-+): 0 found - 307 modified | TOTAL: 1061
- Iteration Number : 2
- pass 1 (xy+): 6 found - 6 modified | TOTAL: 6
- pass 2 (xy+): 0 found - 6 modified | TOTAL: 6
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 6
- pass 1 (yz+): 6 found - 6 modified | TOTAL: 12
- pass 2 (yz+): 0 found - 6 modified | TOTAL: 12
- pass 1 (yz-): 5 found - 5 modified | TOTAL: 17
- pass 2 (yz-): 0 found - 5 modified | TOTAL: 17
- pass 1 (xz+): 4 found - 4 modified | TOTAL: 21
- pass 2 (xz+): 0 found - 4 modified | TOTAL: 21
- pass 1 (xz-): 7 found - 7 modified | TOTAL: 28
- pass 2 (xz-): 0 found - 7 modified | TOTAL: 28
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (++): 2 found - 2 modified | TOTAL: 2
- pass 2 (++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+-): 2 found - 2 modified | TOTAL: 4
- pass 2 (+-): 0 found - 2 modified | TOTAL: 4
- pass 1 (--): 1 found - 1 modified | TOTAL: 5
- pass 2 (--): 0 found - 1 modified | TOTAL: 5
- pass 1 (-+): 0 found - 0 modified | TOTAL: 5
- Iteration Number : 3
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 1
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 2
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 2
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 2
- pass 1 (xz-): 2 found - 2 modified | TOTAL: 4
- pass 2 (xz-): 0 found - 2 modified | TOTAL: 4
- Iteration Number : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 1
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 4
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 1361 (out of 443571: 0.306828)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 22:53:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40195;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.07967 0.01026 -0.03103 -4.73929;
- -0.01089 1.16989 0.11579 -43.40195;
- 0.03325 -0.13525 1.04615 -6.28281;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 1110 (min = 350, max = 1400), aspect = 0.44 (min = 0.10, max = 0.75)
- no need to search
- using seed (127, 124, 147), TAL = (1.0, 19.0, 4.0)
- talairach voxel to voxel transform
- 0.92530 -0.00488 0.02799 4.34928;
- 0.01137 0.84392 -0.09307 36.09698;
- -0.02794 0.10926 0.94297 10.53407;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (127, 124, 147) --> (1.0, 19.0, 4.0)
- done.
- writing output to filled.mgz...
- filling took 0.6 minutes
- talairach cc position changed to (1.00, 19.00, 4.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(19.00, 19.00, 4.00) SRC: (108.72, 128.30, 159.65)
- search lh wm seed point around talairach space (-17.00, 19.00, 4.00), SRC: (142.03, 128.71, 158.65)
- 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 22:53:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- 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-): 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-): 1 found - 1 modified | TOTAL: 8
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 8
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 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 = 9 (out of 214107: 0.004204)
- 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: 2421 vertices, 2582 faces
- slice 60: 8683 vertices, 8944 faces
- slice 70: 17701 vertices, 18041 faces
- slice 80: 28284 vertices, 28664 faces
- slice 90: 38722 vertices, 39116 faces
- slice 100: 49877 vertices, 50259 faces
- slice 110: 61658 vertices, 62101 faces
- slice 120: 74287 vertices, 74751 faces
- slice 130: 85700 vertices, 86100 faces
- slice 140: 96915 vertices, 97341 faces
- slice 150: 107439 vertices, 107827 faces
- slice 160: 115437 vertices, 115763 faces
- slice 170: 123423 vertices, 123774 faces
- slice 180: 130085 vertices, 130400 faces
- slice 190: 135594 vertices, 135824 faces
- slice 200: 138936 vertices, 139090 faces
- slice 210: 139486 vertices, 139564 faces
- slice 220: 139486 vertices, 139564 faces
- slice 230: 139486 vertices, 139564 faces
- slice 240: 139486 vertices, 139564 faces
- slice 250: 139486 vertices, 139564 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...
- 139486 voxel in cpt #1: X=-78 [v=139486,e=418692,f=279128] located at (-23.158131, -11.109982, 2.932251)
- For the whole surface: X=-78 [v=139486,e=418692,f=279128]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 22:53:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 4 found - 4 modified | TOTAL: 5
- pass 2 (xy-): 0 found - 4 modified | TOTAL: 5
- pass 1 (yz+): 3 found - 3 modified | TOTAL: 8
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 8
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 10
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 10
- pass 1 (xz+): 5 found - 5 modified | TOTAL: 15
- pass 2 (xz+): 0 found - 5 modified | TOTAL: 15
- pass 1 (xz-): 2 found - 2 modified | TOTAL: 17
- pass 2 (xz-): 0 found - 2 modified | TOTAL: 17
- 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 (+-): 2 found - 2 modified | TOTAL: 2
- pass 2 (+-): 0 found - 2 modified | TOTAL: 2
- pass 1 (--): 1 found - 1 modified | TOTAL: 3
- pass 2 (--): 0 found - 1 modified | TOTAL: 3
- pass 1 (-+): 2 found - 2 modified | TOTAL: 5
- pass 2 (-+): 0 found - 2 modified | TOTAL: 5
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 1
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- 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
- Iteration Number : 3
- 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 : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 23 (out of 210867: 0.010907)
- 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: 1579 vertices, 1718 faces
- slice 60: 7109 vertices, 7320 faces
- slice 70: 15697 vertices, 16036 faces
- slice 80: 25550 vertices, 25888 faces
- slice 90: 36051 vertices, 36458 faces
- slice 100: 47384 vertices, 47776 faces
- slice 110: 58868 vertices, 59276 faces
- slice 120: 71137 vertices, 71557 faces
- slice 130: 83487 vertices, 83932 faces
- slice 140: 94471 vertices, 94874 faces
- slice 150: 105083 vertices, 105447 faces
- slice 160: 112403 vertices, 112673 faces
- slice 170: 120190 vertices, 120516 faces
- slice 180: 126989 vertices, 127267 faces
- slice 190: 133078 vertices, 133341 faces
- slice 200: 137141 vertices, 137316 faces
- slice 210: 138124 vertices, 138186 faces
- slice 220: 138124 vertices, 138186 faces
- slice 230: 138124 vertices, 138186 faces
- slice 240: 138124 vertices, 138186 faces
- slice 250: 138124 vertices, 138186 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...
- 138124 voxel in cpt #1: X=-62 [v=138124,e=414558,f=276372] located at (31.764610, -9.176218, 5.425690)
- For the whole surface: X=-62 [v=138124,e=414558,f=276372]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 22:54:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 22:54:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 10552 of (10552 10555) to complete...
- Waiting for PID 10555 of (10552 10555) 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 (10552 10555) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 22:54:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 22:54:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 10600 of (10600 10603) to complete...
- Waiting for PID 10603 of (10600 10603) to complete...
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- Not saving sulc
- Reading ../surf/lh.smoothwm.nofix
- avg radius = 45.6 mm, total surface area = 72620 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.162 (target=0.015)
step 005: RMS=0.124 (target=0.015)
step 010: RMS=0.095 (target=0.015)
step 015: RMS=0.080 (target=0.015)
step 020: RMS=0.070 (target=0.015)
step 025: RMS=0.062 (target=0.015)
step 030: RMS=0.056 (target=0.015)
step 035: RMS=0.052 (target=0.015)
step 040: RMS=0.048 (target=0.015)
step 045: RMS=0.047 (target=0.015)
step 050: RMS=0.046 (target=0.015)
step 055: RMS=0.045 (target=0.015)
step 060: RMS=0.045 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 43.985313
- mris_inflate stimesec 0.098984
- mris_inflate ru_maxrss 204060
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29489
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 9832
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2274
- mris_inflate ru_nivcsw 3317
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 45.2 mm, total surface area = 71861 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.161 (target=0.015)
step 005: RMS=0.123 (target=0.015)
step 010: RMS=0.092 (target=0.015)
step 015: RMS=0.078 (target=0.015)
step 020: RMS=0.067 (target=0.015)
step 025: RMS=0.059 (target=0.015)
step 030: RMS=0.054 (target=0.015)
step 035: RMS=0.050 (target=0.015)
step 040: RMS=0.045 (target=0.015)
step 045: RMS=0.044 (target=0.015)
step 050: RMS=0.043 (target=0.015)
step 055: RMS=0.042 (target=0.015)
step 060: RMS=0.042 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 43.534381
- mris_inflate stimesec 0.103984
- mris_inflate ru_maxrss 202136
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29518
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 9736
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2261
- mris_inflate ru_nivcsw 3325
- PIDs (10600 10603) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 22:54:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 22:54:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 10669 of (10669 10673) to complete...
- Waiting for PID 10673 of (10669 10673) 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 0.96 +- 0.59 (0.00-->7.85) (max @ vno 51737 --> 52870)
- face area 0.02 +- 0.03 (-0.19-->0.83)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.304...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.046, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.786, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.228, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.494, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.660, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.769, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.848, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.910, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.964, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.015, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.067, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.121, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.178, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.240, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.306, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.377, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.454, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.535, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.621, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.712, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.807, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.908, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.014, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.126, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.243, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.366, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.493, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.624, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.761, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.902, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.048, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.198, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.353, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.513, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.677, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.846, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.020, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.197, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.380, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.567, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.758, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.954, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.154, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.359, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.568, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.782, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.000, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.222, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.449, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.680, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.915, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.155, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.399, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.647, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.899, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.156, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.416, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.681, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.950, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.223, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.500, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 16498.76
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00015
- epoch 2 (K=40.0), pass 1, starting sse = 2838.79
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00013
- epoch 3 (K=160.0), pass 1, starting sse = 320.12
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.10/11 = 0.00942
- epoch 4 (K=640.0), pass 1, starting sse = 22.29
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.15/14 = 0.01056
- final distance error %27.69
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.07 hours
- mris_sphere utimesec 268.239221
- mris_sphere stimesec 0.178972
- mris_sphere ru_maxrss 204264
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 29538
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9856
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 9114
- mris_sphere ru_nivcsw 20791
- FSRUNTIME@ mris_sphere 0.0745 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 0.97 +- 0.59 (0.00-->6.95) (max @ vno 48077 --> 49092)
- face area 0.02 +- 0.03 (-0.06-->0.66)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.301...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.400, avgs=0
- 005/300: dt: 0.9000, rms radial error=177.140, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.582, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.848, avgs=0
- 020/300: dt: 0.9000, rms radial error=175.012, avgs=0
- 025/300: dt: 0.9000, rms radial error=174.118, avgs=0
- 030/300: dt: 0.9000, rms radial error=173.191, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.247, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.296, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.342, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.388, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.437, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.490, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.546, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.610, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.682, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.759, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.842, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.929, avgs=0
- 095/300: dt: 0.9000, rms radial error=161.021, avgs=0
- 100/300: dt: 0.9000, rms radial error=160.118, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.220, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.327, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.439, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.555, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.677, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.803, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.934, avgs=0
- 140/300: dt: 0.9000, rms radial error=153.069, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.209, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.354, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.504, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.658, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.817, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.980, avgs=0
- 175/300: dt: 0.9000, rms radial error=147.148, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.321, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.498, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.679, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.865, avgs=0
- 200/300: dt: 0.9000, rms radial error=143.056, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.251, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.450, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.654, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.862, avgs=0
- 225/300: dt: 0.9000, rms radial error=139.075, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.292, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.513, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.739, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.969, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.203, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.442, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.685, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.932, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.183, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.438, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.698, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.962, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.230, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.502, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.778, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 16362.27
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00013
- epoch 2 (K=40.0), pass 1, starting sse = 2812.62
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00009
- epoch 3 (K=160.0), pass 1, starting sse = 317.20
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.10/11 = 0.00954
- epoch 4 (K=640.0), pass 1, starting sse = 21.65
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.25/24 = 0.01041
- final distance error %28.02
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 300.681289
- mris_sphere stimesec 0.165974
- mris_sphere ru_maxrss 202340
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 29567
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9760
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 9423
- mris_sphere ru_nivcsw 20783
- FSRUNTIME@ mris_sphere 0.0801 hours 1 threads
- PIDs (10669 10673) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 22:59:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 22:59:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 22:59:39 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050776 lh
- #@# Fix Topology rh Sat Oct 7 22:59:39 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050776 rh
- Waiting for PID 10980 of (10980 10983) to complete...
- Waiting for PID 10983 of (10980 10983) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050776 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=-78 (nv=139486, nf=279128, ne=418692, g=40)
- 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...
- 6030 ambiguous faces found in tessellation
- segmenting defects...
- 53 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 44 into 43
- -merging segment 46 into 43
- 51 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.8459 (-4.9230)
- -vertex loglikelihood: -6.9548 (-3.4774)
- -normal dot loglikelihood: -3.6511 (-3.6511)
- -quad curv loglikelihood: -6.3417 (-3.1708)
- Total Loglikelihood : -26.7935
- CORRECTING DEFECT 0 (vertices=85, convex hull=90, v0=6)
- After retessellation of defect 0 (v0=6), euler #=-49 (135820,406099,270230) : difference with theory (-48) = 1
- CORRECTING DEFECT 1 (vertices=91, convex hull=127, v0=10784)
- After retessellation of defect 1 (v0=10784), euler #=-48 (135845,406230,270337) : difference with theory (-47) = 1
- CORRECTING DEFECT 2 (vertices=46, convex hull=90, v0=11302)
- After retessellation of defect 2 (v0=11302), euler #=-47 (135875,406361,270439) : difference with theory (-46) = 1
- CORRECTING DEFECT 3 (vertices=11, convex hull=24, v0=14634)
- After retessellation of defect 3 (v0=14634), euler #=-46 (135878,406378,270454) : difference with theory (-45) = 1
- CORRECTING DEFECT 4 (vertices=82, convex hull=91, v0=18477)
- After retessellation of defect 4 (v0=18477), euler #=-45 (135909,406509,270555) : difference with theory (-44) = 1
- CORRECTING DEFECT 5 (vertices=97, convex hull=100, v0=19659)
- After retessellation of defect 5 (v0=19659), euler #=-44 (135946,406666,270676) : difference with theory (-43) = 1
- CORRECTING DEFECT 6 (vertices=85, convex hull=110, v0=47532)
- After retessellation of defect 6 (v0=47532), euler #=-43 (135998,406871,270830) : difference with theory (-42) = 1
- CORRECTING DEFECT 7 (vertices=83, convex hull=103, v0=56273)
- After retessellation of defect 7 (v0=56273), euler #=-42 (136012,406957,270903) : difference with theory (-41) = 1
- CORRECTING DEFECT 8 (vertices=107, convex hull=116, v0=60080)
- After retessellation of defect 8 (v0=60080), euler #=-41 (136024,407044,270979) : difference with theory (-40) = 1
- CORRECTING DEFECT 9 (vertices=31, convex hull=51, v0=60417)
- After retessellation of defect 9 (v0=60417), euler #=-40 (136041,407116,271035) : difference with theory (-39) = 1
- CORRECTING DEFECT 10 (vertices=5, convex hull=34, v0=68831)
- After retessellation of defect 10 (v0=68831), euler #=-39 (136043,407130,271048) : difference with theory (-38) = 1
- CORRECTING DEFECT 11 (vertices=15, convex hull=39, v0=68844)
- After retessellation of defect 11 (v0=68844), euler #=-38 (136046,407150,271066) : difference with theory (-37) = 1
- CORRECTING DEFECT 12 (vertices=28, convex hull=40, v0=72377)
- After retessellation of defect 12 (v0=72377), euler #=-37 (136053,407185,271095) : difference with theory (-36) = 1
- CORRECTING DEFECT 13 (vertices=66, convex hull=69, v0=73918)
- After retessellation of defect 13 (v0=73918), euler #=-36 (136069,407262,271157) : difference with theory (-35) = 1
- CORRECTING DEFECT 14 (vertices=38, convex hull=17, v0=73928)
- After retessellation of defect 14 (v0=73928), euler #=-35 (136072,407274,271167) : difference with theory (-34) = 1
- CORRECTING DEFECT 15 (vertices=92, convex hull=38, v0=77686)
- After retessellation of defect 15 (v0=77686), euler #=-34 (136079,407312,271199) : difference with theory (-33) = 1
- CORRECTING DEFECT 16 (vertices=25, convex hull=20, v0=78983)
- After retessellation of defect 16 (v0=78983), euler #=-33 (136082,407325,271210) : difference with theory (-32) = 1
- CORRECTING DEFECT 17 (vertices=43, convex hull=20, v0=80068)
- After retessellation of defect 17 (v0=80068), euler #=-32 (136085,407337,271220) : difference with theory (-31) = 1
- CORRECTING DEFECT 18 (vertices=112, convex hull=101, v0=81733)
- After retessellation of defect 18 (v0=81733), euler #=-31 (136141,407555,271383) : difference with theory (-30) = 1
- CORRECTING DEFECT 19 (vertices=31, convex hull=64, v0=82234)
- After retessellation of defect 19 (v0=82234), euler #=-30 (136150,407610,271430) : difference with theory (-29) = 1
- CORRECTING DEFECT 20 (vertices=52, convex hull=60, v0=85211)
- After retessellation of defect 20 (v0=85211), euler #=-29 (136182,407733,271522) : difference with theory (-28) = 1
- CORRECTING DEFECT 21 (vertices=10, convex hull=20, v0=85510)
- After retessellation of defect 21 (v0=85510), euler #=-28 (136184,407741,271529) : difference with theory (-27) = 1
- CORRECTING DEFECT 22 (vertices=10, convex hull=15, v0=86130)
- After retessellation of defect 22 (v0=86130), euler #=-27 (136186,407751,271538) : difference with theory (-26) = 1
- CORRECTING DEFECT 23 (vertices=43, convex hull=60, v0=88907)
- After retessellation of defect 23 (v0=88907), euler #=-26 (136198,407814,271590) : difference with theory (-25) = 1
- CORRECTING DEFECT 24 (vertices=60, convex hull=80, v0=88950)
- After retessellation of defect 24 (v0=88950), euler #=-25 (136235,407960,271700) : difference with theory (-24) = 1
- CORRECTING DEFECT 25 (vertices=9, convex hull=19, v0=91819)
- After retessellation of defect 25 (v0=91819), euler #=-24 (136237,407974,271713) : difference with theory (-23) = 1
- CORRECTING DEFECT 26 (vertices=46, convex hull=101, v0=93409)
- After retessellation of defect 26 (v0=93409), euler #=-23 (136271,408117,271823) : difference with theory (-22) = 1
- CORRECTING DEFECT 27 (vertices=6, convex hull=21, v0=95272)
- After retessellation of defect 27 (v0=95272), euler #=-22 (136272,408124,271830) : difference with theory (-21) = 1
- CORRECTING DEFECT 28 (vertices=6, convex hull=24, v0=95468)
- After retessellation of defect 28 (v0=95468), euler #=-21 (136275,408141,271845) : difference with theory (-20) = 1
- CORRECTING DEFECT 29 (vertices=86, convex hull=141, v0=96427)
- After retessellation of defect 29 (v0=96427), euler #=-20 (136320,408342,272002) : difference with theory (-19) = 1
- CORRECTING DEFECT 30 (vertices=18, convex hull=33, v0=96600)
- After retessellation of defect 30 (v0=96600), euler #=-19 (136327,408373,272027) : difference with theory (-18) = 1
- CORRECTING DEFECT 31 (vertices=61, convex hull=60, v0=96621)
- After retessellation of defect 31 (v0=96621), euler #=-18 (136348,408456,272090) : difference with theory (-17) = 1
- CORRECTING DEFECT 32 (vertices=51, convex hull=32, v0=96901)
- After retessellation of defect 32 (v0=96901), euler #=-17 (136356,408489,272116) : difference with theory (-16) = 1
- CORRECTING DEFECT 33 (vertices=21, convex hull=38, v0=97621)
- After retessellation of defect 33 (v0=97621), euler #=-16 (136360,408515,272139) : difference with theory (-15) = 1
- CORRECTING DEFECT 34 (vertices=81, convex hull=88, v0=100026)
- After retessellation of defect 34 (v0=100026), euler #=-15 (136369,408581,272197) : difference with theory (-14) = 1
- CORRECTING DEFECT 35 (vertices=39, convex hull=78, v0=100205)
- After retessellation of defect 35 (v0=100205), euler #=-14 (136379,408643,272250) : difference with theory (-13) = 1
- CORRECTING DEFECT 36 (vertices=77, convex hull=39, v0=103159)
- After retessellation of defect 36 (v0=103159), euler #=-13 (136384,408678,272281) : difference with theory (-12) = 1
- CORRECTING DEFECT 37 (vertices=148, convex hull=43, v0=104133)
- After retessellation of defect 37 (v0=104133), euler #=-12 (136394,408719,272313) : difference with theory (-11) = 1
- CORRECTING DEFECT 38 (vertices=24, convex hull=27, v0=104191)
- After retessellation of defect 38 (v0=104191), euler #=-11 (136399,408743,272333) : difference with theory (-10) = 1
- CORRECTING DEFECT 39 (vertices=9, convex hull=29, v0=105676)
- After retessellation of defect 39 (v0=105676), euler #=-10 (136401,408757,272346) : difference with theory (-9) = 1
- CORRECTING DEFECT 40 (vertices=143, convex hull=91, v0=108838)
- After retessellation of defect 40 (v0=108838), euler #=-9 (136419,408853,272425) : difference with theory (-8) = 1
- CORRECTING DEFECT 41 (vertices=153, convex hull=65, v0=109134)
- After retessellation of defect 41 (v0=109134), euler #=-8 (136429,408914,272477) : difference with theory (-7) = 1
- CORRECTING DEFECT 42 (vertices=15, convex hull=33, v0=112576)
- After retessellation of defect 42 (v0=112576), euler #=-7 (136433,408937,272497) : difference with theory (-6) = 1
- CORRECTING DEFECT 43 (vertices=691, convex hull=341, v0=112888)
- After retessellation of defect 43 (v0=112888), euler #=-5 (136542,409444,272897) : difference with theory (-5) = 0
- CORRECTING DEFECT 44 (vertices=355, convex hull=73, v0=115998)
- After retessellation of defect 44 (v0=115998), euler #=-4 (136560,409527,272963) : difference with theory (-4) = 0
- CORRECTING DEFECT 45 (vertices=26, convex hull=52, v0=119733)
- After retessellation of defect 45 (v0=119733), euler #=-3 (136572,409581,273006) : difference with theory (-3) = 0
- CORRECTING DEFECT 46 (vertices=59, convex hull=82, v0=126709)
- After retessellation of defect 46 (v0=126709), euler #=-2 (136599,409693,273092) : difference with theory (-2) = 0
- CORRECTING DEFECT 47 (vertices=5, convex hull=18, v0=127193)
- After retessellation of defect 47 (v0=127193), euler #=-1 (136600,409702,273101) : difference with theory (-1) = 0
- CORRECTING DEFECT 48 (vertices=16, convex hull=28, v0=128364)
- After retessellation of defect 48 (v0=128364), euler #=0 (136602,409718,273116) : difference with theory (0) = 0
- CORRECTING DEFECT 49 (vertices=141, convex hull=125, v0=129018)
- After retessellation of defect 49 (v0=129018), euler #=1 (136644,409900,273257) : difference with theory (1) = 0
- CORRECTING DEFECT 50 (vertices=40, convex hull=67, v0=138647)
- After retessellation of defect 50 (v0=138647), euler #=2 (136655,409959,273306) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.24 (0.03-->9.33) (max @ vno 114246 --> 117036)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.24 (0.03-->9.33) (max @ vno 114246 --> 117036)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 193 mutations (37.2%), 326 crossovers (62.8%), 261 vertices were eliminated
- building final representation...
- 2831 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=136655, nf=273306, ne=409959, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 26.6 minutes
- 0 defective edges
- removing intersecting faces
- 000: 372 intersecting
- 001: 18 intersecting
- mris_fix_topology utimesec 1594.908537
- mris_fix_topology stimesec 0.287956
- mris_fix_topology ru_maxrss 434216
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 54618
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 19632
- mris_fix_topology ru_oublock 13160
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 638
- mris_fix_topology ru_nivcsw 7241
- FSRUNTIME@ mris_fix_topology lh 0.4429 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050776 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=-62 (nv=138124, nf=276372, ne=414558, g=32)
- 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...
- 4205 ambiguous faces found in tessellation
- segmenting defects...
- 42 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 26 into 23
- 41 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.9319 (-4.9660)
- -vertex loglikelihood: -6.9569 (-3.4784)
- -normal dot loglikelihood: -3.5989 (-3.5989)
- -quad curv loglikelihood: -6.3359 (-3.1680)
- Total Loglikelihood : -26.8236
- CORRECTING DEFECT 0 (vertices=51, convex hull=50, v0=4533)
- After retessellation of defect 0 (v0=4533), euler #=-38 (135540,405605,270027) : difference with theory (-38) = 0
- CORRECTING DEFECT 1 (vertices=71, convex hull=104, v0=5535)
- After retessellation of defect 1 (v0=5535), euler #=-37 (135566,405725,270122) : difference with theory (-37) = 0
- CORRECTING DEFECT 2 (vertices=59, convex hull=30, v0=6981)
- After retessellation of defect 2 (v0=6981), euler #=-36 (135573,405755,270146) : difference with theory (-36) = 0
- CORRECTING DEFECT 3 (vertices=33, convex hull=76, v0=10715)
- After retessellation of defect 3 (v0=10715), euler #=-35 (135591,405837,270211) : difference with theory (-35) = 0
- CORRECTING DEFECT 4 (vertices=40, convex hull=69, v0=11194)
- After retessellation of defect 4 (v0=11194), euler #=-34 (135610,405918,270274) : difference with theory (-34) = 0
- CORRECTING DEFECT 5 (vertices=39, convex hull=66, v0=18529)
- After retessellation of defect 5 (v0=18529), euler #=-33 (135628,405999,270338) : difference with theory (-33) = 0
- CORRECTING DEFECT 6 (vertices=95, convex hull=82, v0=19165)
- After retessellation of defect 6 (v0=19165), euler #=-32 (135641,406074,270401) : difference with theory (-32) = 0
- CORRECTING DEFECT 7 (vertices=71, convex hull=72, v0=20149)
- After retessellation of defect 7 (v0=20149), euler #=-31 (135653,406140,270456) : difference with theory (-31) = 0
- CORRECTING DEFECT 8 (vertices=64, convex hull=92, v0=27512)
- After retessellation of defect 8 (v0=27512), euler #=-30 (135689,406286,270567) : difference with theory (-30) = 0
- CORRECTING DEFECT 9 (vertices=34, convex hull=71, v0=32971)
- After retessellation of defect 9 (v0=32971), euler #=-29 (135710,406376,270637) : difference with theory (-29) = 0
- CORRECTING DEFECT 10 (vertices=24, convex hull=60, v0=34016)
- After retessellation of defect 10 (v0=34016), euler #=-28 (135719,406428,270681) : difference with theory (-28) = 0
- CORRECTING DEFECT 11 (vertices=62, convex hull=108, v0=37240)
- After retessellation of defect 11 (v0=37240), euler #=-27 (135766,406620,270827) : difference with theory (-27) = 0
- CORRECTING DEFECT 12 (vertices=12, convex hull=26, v0=45052)
- After retessellation of defect 12 (v0=45052), euler #=-26 (135768,406634,270840) : difference with theory (-26) = 0
- CORRECTING DEFECT 13 (vertices=9, convex hull=19, v0=51542)
- After retessellation of defect 13 (v0=51542), euler #=-25 (135768,406641,270848) : difference with theory (-25) = 0
- CORRECTING DEFECT 14 (vertices=29, convex hull=23, v0=56235)
- After retessellation of defect 14 (v0=56235), euler #=-24 (135773,406662,270865) : difference with theory (-24) = 0
- CORRECTING DEFECT 15 (vertices=6, convex hull=22, v0=62284)
- After retessellation of defect 15 (v0=62284), euler #=-23 (135775,406672,270874) : difference with theory (-23) = 0
- CORRECTING DEFECT 16 (vertices=360, convex hull=57, v0=70547)
- After retessellation of defect 16 (v0=70547), euler #=-22 (135788,406738,270928) : difference with theory (-22) = 0
- CORRECTING DEFECT 17 (vertices=14, convex hull=27, v0=72022)
- After retessellation of defect 17 (v0=72022), euler #=-21 (135789,406751,270941) : difference with theory (-21) = 0
- CORRECTING DEFECT 18 (vertices=36, convex hull=60, v0=73221)
- After retessellation of defect 18 (v0=73221), euler #=-20 (135805,406820,270995) : difference with theory (-20) = 0
- CORRECTING DEFECT 19 (vertices=173, convex hull=56, v0=79759)
- After retessellation of defect 19 (v0=79759), euler #=-19 (135816,406875,271040) : difference with theory (-19) = 0
- CORRECTING DEFECT 20 (vertices=25, convex hull=48, v0=88027)
- After retessellation of defect 20 (v0=88027), euler #=-18 (135827,406925,271080) : difference with theory (-18) = 0
- CORRECTING DEFECT 21 (vertices=44, convex hull=31, v0=90229)
- After retessellation of defect 21 (v0=90229), euler #=-17 (135833,406958,271108) : difference with theory (-17) = 0
- CORRECTING DEFECT 22 (vertices=44, convex hull=46, v0=91958)
- After retessellation of defect 22 (v0=91958), euler #=-16 (135854,407042,271172) : difference with theory (-16) = 0
- CORRECTING DEFECT 23 (vertices=98, convex hull=84, v0=92156)
- After retessellation of defect 23 (v0=92156), euler #=-15 (135873,407135,271247) : difference with theory (-15) = 0
- CORRECTING DEFECT 24 (vertices=47, convex hull=66, v0=92432)
- After retessellation of defect 24 (v0=92432), euler #=-14 (135894,407221,271313) : difference with theory (-14) = 0
- CORRECTING DEFECT 25 (vertices=15, convex hull=26, v0=94135)
- After retessellation of defect 25 (v0=94135), euler #=-13 (135899,407244,271332) : difference with theory (-13) = 0
- CORRECTING DEFECT 26 (vertices=30, convex hull=54, v0=98658)
- After retessellation of defect 26 (v0=98658), euler #=-12 (135915,407317,271390) : difference with theory (-12) = 0
- CORRECTING DEFECT 27 (vertices=180, convex hull=159, v0=99579)
- After retessellation of defect 27 (v0=99579), euler #=-11 (135966,407544,271567) : difference with theory (-11) = 0
- CORRECTING DEFECT 28 (vertices=6, convex hull=25, v0=100054)
- After retessellation of defect 28 (v0=100054), euler #=-10 (135967,407554,271577) : difference with theory (-10) = 0
- CORRECTING DEFECT 29 (vertices=55, convex hull=36, v0=100861)
- After retessellation of defect 29 (v0=100861), euler #=-9 (135972,407583,271602) : difference with theory (-9) = 0
- CORRECTING DEFECT 30 (vertices=53, convex hull=66, v0=100890)
- After retessellation of defect 30 (v0=100890), euler #=-8 (135981,407634,271645) : difference with theory (-8) = 0
- CORRECTING DEFECT 31 (vertices=22, convex hull=41, v0=102689)
- After retessellation of defect 31 (v0=102689), euler #=-7 (135991,407679,271681) : difference with theory (-7) = 0
- CORRECTING DEFECT 32 (vertices=50, convex hull=71, v0=108324)
- After retessellation of defect 32 (v0=108324), euler #=-6 (136016,407782,271760) : difference with theory (-6) = 0
- CORRECTING DEFECT 33 (vertices=27, convex hull=33, v0=109824)
- After retessellation of defect 33 (v0=109824), euler #=-5 (136019,407804,271780) : difference with theory (-5) = 0
- CORRECTING DEFECT 34 (vertices=50, convex hull=25, v0=115158)
- After retessellation of defect 34 (v0=115158), euler #=-4 (136023,407826,271799) : difference with theory (-4) = 0
- CORRECTING DEFECT 35 (vertices=8, convex hull=35, v0=119328)
- After retessellation of defect 35 (v0=119328), euler #=-3 (136026,407849,271820) : difference with theory (-3) = 0
- CORRECTING DEFECT 36 (vertices=49, convex hull=97, v0=124102)
- After retessellation of defect 36 (v0=124102), euler #=-2 (136052,407966,271912) : difference with theory (-2) = 0
- CORRECTING DEFECT 37 (vertices=122, convex hull=97, v0=126967)
- After retessellation of defect 37 (v0=126967), euler #=-1 (136080,408094,272013) : difference with theory (-1) = 0
- CORRECTING DEFECT 38 (vertices=27, convex hull=27, v0=127746)
- After retessellation of defect 38 (v0=127746), euler #=0 (136080,408103,272023) : difference with theory (0) = 0
- CORRECTING DEFECT 39 (vertices=305, convex hull=208, v0=130243)
- After retessellation of defect 39 (v0=130243), euler #=1 (136113,408308,272196) : difference with theory (1) = 0
- CORRECTING DEFECT 40 (vertices=56, convex hull=51, v0=130406)
- After retessellation of defect 40 (v0=130406), euler #=2 (136122,408360,272240) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.23 (0.05-->7.64) (max @ vno 131158 --> 133247)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.23 (0.05-->7.64) (max @ vno 131158 --> 133247)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 148 mutations (34.6%), 280 crossovers (65.4%), 147 vertices were eliminated
- building final representation...
- 2002 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=136122, nf=272240, ne=408360, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 20.0 minutes
- 0 defective edges
- removing intersecting faces
- 000: 319 intersecting
- mris_fix_topology utimesec 1201.130400
- mris_fix_topology stimesec 0.158975
- mris_fix_topology ru_maxrss 427844
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 54628
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 0
- mris_fix_topology ru_oublock 13008
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 607
- mris_fix_topology ru_nivcsw 2149
- FSRUNTIME@ mris_fix_topology rh 0.3335 hours 1 threads
- PIDs (10980 10983) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 136655 - 409959 + 273306 = 2 --> 0 holes
- F =2V-4: 273306 = 273310-4 (0)
- 2E=3F: 819918 = 819918 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 136122 - 408360 + 272240 = 2 --> 0 holes
- F =2V-4: 272240 = 272244-4 (0)
- 2E=3F: 816720 = 816720 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 69 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 55 intersecting
- 001: 3 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sat Oct 7 23:26:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050776 lh
- #--------------------------------------------
- #@# Make White Surf rh Sat Oct 7 23:26:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050776 rh
- Waiting for PID 12270 of (12270 12273) to complete...
- Waiting for PID 12273 of (12270 12273) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050776 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-6.0.0/0050776/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- 25078 bright wm thresholded.
- 2524 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.orig...
- computing class statistics...
- border white: 237704 voxels (1.42%)
- border gray 297212 voxels (1.77%)
- WM (98.0): 97.0 +- 10.7 [70.0 --> 110.0]
- GM (57.0) : 58.9 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 41.6 (was 70)
- setting MAX_BORDER_WHITE to 114.7 (was 105)
- setting MIN_BORDER_WHITE to 53.0 (was 85)
- setting MAX_CSF to 30.2 (was 40)
- setting MAX_GRAY to 93.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 41.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 18.8 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.04-->4.24) (max @ vno 82747 --> 136120)
- face area 0.28 +- 0.12 (0.00-->3.34)
- mean absolute distance = 0.58 +- 0.65
- 3605 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=104+-7.0, GM=53+-7.0
- mean inside = 90.4, mean outside = 63.1
- 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=69.5, 148 (148) missing vertices, mean dist 0.3 [0.4 (%35.1)->0.7 (%64.9))]
- %79 local maxima, %16 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 (0.14-->5.62) (max @ vno 99375 --> 99374)
- face area 0.28 +- 0.13 (0.00-->3.79)
- mean absolute distance = 0.26 +- 0.41
- 2364 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=5743762.5, rms=14.112
- 001: dt: 0.5000, sse=3078567.2, rms=9.885 (29.949%)
- 002: dt: 0.5000, sse=2107706.8, rms=7.791 (21.187%)
- 003: dt: 0.5000, sse=1628376.4, rms=6.505 (16.511%)
- 004: dt: 0.5000, sse=1425209.6, rms=5.874 (9.696%)
- 005: dt: 0.5000, sse=1312529.8, rms=5.488 (6.578%)
- 006: dt: 0.5000, sse=1278069.0, rms=5.359 (2.350%)
- 007: dt: 0.5000, sse=1240992.2, rms=5.220 (2.590%)
- rms = 5.20, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1237953.0, rms=5.205 (0.284%)
- 009: dt: 0.2500, sse=866546.4, rms=3.520 (32.373%)
- 010: dt: 0.2500, sse=794900.8, rms=3.096 (12.039%)
- rms = 3.06, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=788011.1, rms=3.055 (1.326%)
- 012: dt: 0.1250, sse=688924.4, rms=2.326 (23.874%)
- 013: dt: 0.1250, sse=677417.5, rms=2.228 (4.214%)
- rms = 2.21, time step reduction 3 of 3 to 0.062...
- 014: dt: 0.1250, sse=676006.4, rms=2.206 (0.985%)
- positioning took 1.4 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=73.8, 129 (35) missing vertices, mean dist -0.2 [0.3 (%77.9)->0.2 (%22.1))]
- %85 local maxima, %10 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 (0.12-->6.06) (max @ vno 99375 --> 99374)
- face area 0.35 +- 0.16 (0.00-->4.52)
- mean absolute distance = 0.18 +- 0.31
- 2623 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1602831.6, rms=5.905
- 015: dt: 0.5000, sse=1234822.4, rms=4.528 (23.326%)
- rms = 5.19, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=933573.9, rms=3.011 (33.509%)
- 017: dt: 0.2500, sse=874678.9, rms=2.626 (12.761%)
- 018: dt: 0.2500, sse=839841.6, rms=2.355 (10.343%)
- rms = 2.43, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.1250, sse=813776.6, rms=2.136 (9.290%)
- 020: dt: 0.1250, sse=785181.4, rms=1.816 (14.982%)
- 021: dt: 0.1250, sse=776422.6, rms=1.761 (3.030%)
- rms = 1.76, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=776087.8, rms=1.756 (0.291%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=76.3, 144 (17) missing vertices, mean dist -0.1 [0.2 (%69.9)->0.2 (%30.1))]
- %89 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.91 +- 0.25 (0.14-->6.20) (max @ vno 99375 --> 99374)
- face area 0.35 +- 0.16 (0.00-->4.39)
- mean absolute distance = 0.17 +- 0.27
- 2756 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1000792.4, rms=3.499
- rms = 4.72, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=816328.6, rms=2.259 (35.448%)
- 024: dt: 0.2500, sse=776469.5, rms=1.853 (17.940%)
- rms = 1.86, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.1250, sse=763548.4, rms=1.737 (6.303%)
- 026: dt: 0.1250, sse=748219.2, rms=1.563 (10.018%)
- rms = 1.52, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=744881.9, rms=1.525 (2.419%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=77.1, 165 (14) missing vertices, mean dist -0.0 [0.2 (%55.3)->0.2 (%44.7))]
- %90 local maxima, % 5 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-6.0.0/0050776/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=763745.1, rms=1.811
- rms = 3.10, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=717550.4, rms=1.250 (30.986%)
- 029: dt: 0.2500, sse=711879.0, rms=1.165 (6.805%)
- rms = 1.14, time step reduction 2 of 3 to 0.125...
- 030: dt: 0.2500, sse=709910.8, rms=1.139 (2.236%)
- rms = 1.10, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=713294.9, rms=1.099 (3.514%)
- positioning took 0.5 minutes
- generating cortex label...
- 10 non-cortical segments detected
- only using segment with 7091 vertices
- erasing segment 0 (vno[0] = 16185)
- erasing segment 2 (vno[0] = 62036)
- erasing segment 3 (vno[0] = 75753)
- erasing segment 4 (vno[0] = 75783)
- erasing segment 5 (vno[0] = 81224)
- erasing segment 6 (vno[0] = 87739)
- erasing segment 7 (vno[0] = 89840)
- erasing segment 8 (vno[0] = 97387)
- erasing segment 9 (vno[0] = 119267)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.area
- vertex spacing 0.90 +- 0.25 (0.02-->6.30) (max @ vno 99374 --> 99375)
- face area 0.34 +- 0.16 (0.00-->4.31)
- refinement took 5.2 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050776 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-6.0.0/0050776/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- 25078 bright wm thresholded.
- 2524 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.orig...
- computing class statistics...
- border white: 237704 voxels (1.42%)
- border gray 297212 voxels (1.77%)
- WM (98.0): 97.0 +- 10.7 [70.0 --> 110.0]
- GM (57.0) : 58.9 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 39.6 (was 70)
- setting MAX_BORDER_WHITE to 114.7 (was 105)
- setting MIN_BORDER_WHITE to 51.0 (was 85)
- setting MAX_CSF to 28.2 (was 40)
- setting MAX_GRAY to 93.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 39.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 16.8 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.02-->3.46) (max @ vno 131171 --> 133236)
- face area 0.28 +- 0.12 (0.00-->3.03)
- mean absolute distance = 0.57 +- 0.63
- 4334 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=104+-7.0, GM=51+-7.8
- mean inside = 90.6, mean outside = 62.9
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- mean border=68.8, 118 (118) missing vertices, mean dist 0.3 [0.3 (%33.9)->0.7 (%66.1))]
- %85 local maxima, %11 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 (0.14-->4.47) (max @ vno 135931 --> 104759)
- face area 0.28 +- 0.13 (0.00-->3.84)
- mean absolute distance = 0.27 +- 0.39
- 2618 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=5772148.0, rms=14.169
- 001: dt: 0.5000, sse=3118456.5, rms=9.983 (29.542%)
- 002: dt: 0.5000, sse=2144486.0, rms=7.898 (20.884%)
- 003: dt: 0.5000, sse=1657598.4, rms=6.608 (16.336%)
- 004: dt: 0.5000, sse=1447542.5, rms=5.966 (9.710%)
- 005: dt: 0.5000, sse=1324784.5, rms=5.542 (7.108%)
- 006: dt: 0.5000, sse=1293168.2, rms=5.416 (2.276%)
- 007: dt: 0.5000, sse=1247961.5, rms=5.268 (2.738%)
- rms = 5.26, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1247008.5, rms=5.259 (0.169%)
- 009: dt: 0.2500, sse=873399.1, rms=3.587 (31.796%)
- 010: dt: 0.2500, sse=802776.4, rms=3.185 (11.195%)
- rms = 3.15, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=798679.1, rms=3.152 (1.052%)
- 012: dt: 0.1250, sse=696128.2, rms=2.427 (22.991%)
- 013: dt: 0.1250, sse=684518.2, rms=2.330 (3.985%)
- rms = 2.31, time step reduction 3 of 3 to 0.062...
- 014: dt: 0.1250, sse=682602.6, rms=2.312 (0.786%)
- positioning took 1.4 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=73.6, 142 (48) missing vertices, mean dist -0.2 [0.3 (%79.5)->0.2 (%20.5))]
- %89 local maxima, % 6 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-->4.75) (max @ vno 135931 --> 104759)
- face area 0.35 +- 0.16 (0.00-->5.03)
- mean absolute distance = 0.18 +- 0.30
- 2714 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1754787.6, rms=6.406
- 015: dt: 0.5000, sse=1236725.9, rms=4.596 (28.260%)
- rms = 5.37, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=940846.6, rms=3.116 (32.194%)
- 017: dt: 0.2500, sse=882629.6, rms=2.728 (12.470%)
- 018: dt: 0.2500, sse=849058.4, rms=2.468 (9.522%)
- rms = 2.57, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.1250, sse=820386.9, rms=2.238 (9.294%)
- 020: dt: 0.1250, sse=786974.1, rms=1.907 (14.808%)
- 021: dt: 0.1250, sse=778843.6, rms=1.844 (3.312%)
- rms = 1.84, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=783683.6, rms=1.836 (0.418%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=76.2, 143 (33) missing vertices, mean dist -0.1 [0.2 (%70.7)->0.2 (%29.3))]
- %92 local maxima, % 4 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.91 +- 0.25 (0.09-->4.85) (max @ vno 135931 --> 104759)
- face area 0.34 +- 0.16 (0.00-->4.83)
- mean absolute distance = 0.16 +- 0.26
- 2612 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1033922.6, rms=3.686
- rms = 4.91, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=826736.4, rms=2.407 (34.684%)
- 024: dt: 0.2500, sse=791061.9, rms=1.995 (17.148%)
- rms = 2.00, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.1250, sse=769816.8, rms=1.861 (6.711%)
- 026: dt: 0.1250, sse=748262.2, rms=1.659 (10.838%)
- 027: dt: 0.1250, sse=743692.3, rms=1.608 (3.089%)
- rms = 1.60, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=743859.2, rms=1.604 (0.263%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=77.0, 149 (30) missing vertices, mean dist -0.0 [0.2 (%55.8)->0.2 (%44.2))]
- %92 local maxima, % 3 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-6.0.0/0050776/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=760486.0, rms=1.852
- rms = 3.21, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=714267.8, rms=1.294 (30.144%)
- 030: dt: 0.2500, sse=709136.1, rms=1.222 (5.557%)
- rms = 1.19, time step reduction 2 of 3 to 0.125...
- 031: dt: 0.2500, sse=705475.2, rms=1.194 (2.319%)
- rms = 1.17, time step reduction 3 of 3 to 0.062...
- 032: dt: 0.1250, sse=704463.3, rms=1.166 (2.319%)
- positioning took 0.5 minutes
- generating cortex label...
- 11 non-cortical segments detected
- only using segment with 7111 vertices
- erasing segment 1 (vno[0] = 56561)
- erasing segment 2 (vno[0] = 77173)
- erasing segment 3 (vno[0] = 78772)
- erasing segment 4 (vno[0] = 79910)
- erasing segment 5 (vno[0] = 82740)
- erasing segment 6 (vno[0] = 92687)
- erasing segment 7 (vno[0] = 93745)
- erasing segment 8 (vno[0] = 93779)
- erasing segment 9 (vno[0] = 102718)
- erasing segment 10 (vno[0] = 107736)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.area
- vertex spacing 0.90 +- 0.25 (0.05-->4.79) (max @ vno 104759 --> 135931)
- face area 0.34 +- 0.16 (0.00-->4.79)
- refinement took 5.3 minutes
- PIDs (12270 12273) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sat Oct 7 23:31:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sat Oct 7 23:31:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 12637 of (12637 12640) to complete...
- Waiting for PID 12640 of (12637 12640) 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 (12637 12640) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sat Oct 7 23:31:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sat Oct 7 23:31:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 12692 of (12692 12695) to complete...
- Waiting for PID 12695 of (12692 12695) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 45.7 mm, total surface area = 84209 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.184 (target=0.015)
step 005: RMS=0.129 (target=0.015)
step 010: RMS=0.097 (target=0.015)
step 015: RMS=0.080 (target=0.015)
step 020: RMS=0.067 (target=0.015)
step 025: RMS=0.055 (target=0.015)
step 030: RMS=0.047 (target=0.015)
step 035: RMS=0.039 (target=0.015)
step 040: RMS=0.034 (target=0.015)
step 045: RMS=0.030 (target=0.015)
step 050: RMS=0.027 (target=0.015)
step 055: RMS=0.025 (target=0.015)
step 060: RMS=0.024 (target=0.015)
- inflation complete.
- inflation took 0.7 minutes
- mris_inflate utimesec 42.898478
- mris_inflate stimesec 0.109983
- mris_inflate ru_maxrss 200060
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29130
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 10704
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 3442
- mris_inflate ru_nivcsw 3300
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 45.3 mm, total surface area = 83489 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.184 (target=0.015)
step 005: RMS=0.129 (target=0.015)
step 010: RMS=0.097 (target=0.015)
step 015: RMS=0.080 (target=0.015)
step 020: RMS=0.067 (target=0.015)
step 025: RMS=0.056 (target=0.015)
step 030: RMS=0.046 (target=0.015)
step 035: RMS=0.040 (target=0.015)
step 040: RMS=0.035 (target=0.015)
step 045: RMS=0.031 (target=0.015)
step 050: RMS=0.028 (target=0.015)
step 055: RMS=0.026 (target=0.015)
step 060: RMS=0.025 (target=0.015)
- inflation complete.
- inflation took 0.7 minutes
- mris_inflate utimesec 43.451394
- mris_inflate stimesec 0.096985
- mris_inflate ru_maxrss 199372
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 28963
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 10656
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2251
- mris_inflate ru_nivcsw 3923
- PIDs (12692 12695) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sat Oct 7 23:32:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 23:32:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 12792 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12795 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12798 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12801 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12804 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12807 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12810 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12813 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12816 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12819 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12822 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- Waiting for PID 12825 of (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 3.372*4pi (42.373) --> -2 handles
- ICI = 176.0, FI = 2083.7, variation=31942.990
- 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
- 155 vertices thresholded to be in k1 ~ [-0.28 0.21], k2 ~ [-0.11 0.07]
- total integrated curvature = 0.507*4pi (6.365) --> 0 handles
- ICI = 1.5, FI = 8.9, variation=155.571
- 126 vertices thresholded to be in [-0.01 0.01]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 123 vertices thresholded to be in [-0.13 0.10]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.021
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 14.694*4pi (184.649) --> -14 handles
- ICI = 173.9, FI = 2129.9, variation=32244.176
- 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
- 160 vertices thresholded to be in k1 ~ [-0.33 0.91], k2 ~ [-0.16 0.07]
- total integrated curvature = 0.469*4pi (5.890) --> 1 handles
- ICI = 1.4, FI = 8.9, variation=154.703
- 137 vertices thresholded to be in [-0.07 0.01]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 109 vertices thresholded to be in [-0.17 0.22]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.017, std = 0.022
- done.
- PIDs (12792 12795 12798 12801 12804 12807 12810 12813 12816 12819 12822 12825) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sat Oct 7 23:33:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0050776 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 [ 0050776/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 [ 287 ]
- Gb_filter = 0
- WARN: S lookup min: -0.406451
- WARN: S explicit min: 0.000000 vertex = 23
- #-----------------------------------------
- #@# Curvature Stats rh Sat Oct 7 23:34:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0050776 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 [ 0050776/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 [ 286 ]
- Gb_filter = 0
- WARN: S lookup min: -0.315392
- WARN: S explicit min: 0.000000 vertex = 610
- #--------------------------------------------
- #@# Sphere lh Sat Oct 7 23:34:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sat Oct 7 23:34:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 12972 of (12972 12976) to complete...
- Waiting for PID 12976 of (12972 12976) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- setting seed for random number genererator to 1234
- $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- reading original vertex positions...
- unfolding cortex into spherical form...
- surface projected - minimizing metric distortion...
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.280...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %20.80
- pass 1: epoch 2 of 3 starting distance error %20.72
- unfolding complete - removing small folds...
- starting distance error %20.63
- removing remaining folds...
- final distance error %20.66
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 130 negative triangles
- 239: dt=0.9900, 130 negative triangles
- 240: dt=0.9900, 30 negative triangles
- 241: dt=0.9900, 15 negative triangles
- 242: dt=0.9900, 13 negative triangles
- 243: dt=0.9900, 9 negative triangles
- 244: dt=0.9900, 8 negative triangles
- 245: dt=0.9900, 9 negative triangles
- 246: dt=0.9900, 2 negative triangles
- 247: dt=0.9900, 2 negative triangles
- 248: dt=0.9900, 1 negative triangles
- 249: dt=0.9900, 2 negative triangles
- 250: dt=0.9900, 3 negative triangles
- 251: dt=0.9900, 4 negative triangles
- 252: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 0.90 hours
- mris_sphere utimesec 3289.099980
- mris_sphere stimesec 1.069837
- mris_sphere ru_maxrss 281360
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 49594
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9640
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 139386
- mris_sphere ru_nivcsw 266949
- FSRUNTIME@ mris_sphere 0.9047 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0.278...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %21.54
- pass 1: epoch 2 of 3 starting distance error %21.51
- unfolding complete - removing small folds...
- starting distance error %21.40
- removing remaining folds...
- final distance error %21.41
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 183 negative triangles
- 188: dt=0.9900, 183 negative triangles
- 189: dt=0.9900, 92 negative triangles
- 190: dt=0.9900, 69 negative triangles
- 191: dt=0.9900, 61 negative triangles
- 192: dt=0.9900, 58 negative triangles
- 193: dt=0.9900, 45 negative triangles
- 194: dt=0.9900, 48 negative triangles
- 195: dt=0.9900, 45 negative triangles
- 196: dt=0.9900, 40 negative triangles
- 197: dt=0.9900, 38 negative triangles
- 198: dt=0.9900, 40 negative triangles
- 199: dt=0.9900, 37 negative triangles
- 200: dt=0.9900, 38 negative triangles
- 201: dt=0.9900, 37 negative triangles
- 202: dt=0.9900, 36 negative triangles
- 203: dt=0.9900, 31 negative triangles
- 204: dt=0.9900, 32 negative triangles
- 205: dt=0.9900, 26 negative triangles
- 206: dt=0.9900, 30 negative triangles
- 207: dt=0.9900, 28 negative triangles
- 208: dt=0.9900, 19 negative triangles
- 209: dt=0.9900, 26 negative triangles
- 210: dt=0.9900, 18 negative triangles
- 211: dt=0.9900, 24 negative triangles
- 212: dt=0.9900, 15 negative triangles
- 213: dt=0.9900, 17 negative triangles
- 214: dt=0.9900, 20 negative triangles
- 215: dt=0.9900, 15 negative triangles
- 216: dt=0.9900, 16 negative triangles
- 217: dt=0.9900, 10 negative triangles
- 218: dt=0.9900, 15 negative triangles
- 219: dt=0.9900, 9 negative triangles
- 220: dt=0.9900, 11 negative triangles
- 221: dt=0.9900, 7 negative triangles
- 222: dt=0.9900, 7 negative triangles
- 223: dt=0.9900, 11 negative triangles
- 224: dt=0.9900, 8 negative triangles
- 225: dt=0.9900, 10 negative triangles
- 226: dt=0.9900, 6 negative triangles
- 227: dt=0.9900, 11 negative triangles
- 228: dt=0.9900, 5 negative triangles
- 229: dt=0.9900, 6 negative triangles
- 230: dt=0.9900, 3 negative triangles
- 231: dt=0.9900, 2 negative triangles
- 232: dt=0.9900, 5 negative triangles
- 233: dt=0.9900, 3 negative triangles
- 234: dt=0.9900, 1 negative triangles
- 235: dt=0.9900, 1 negative triangles
- 236: dt=0.9900, 1 negative triangles
- 237: dt=0.9900, 3 negative triangles
- 238: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 0.89 hours
- mris_sphere utimesec 3216.899956
- mris_sphere stimesec 1.061838
- mris_sphere ru_maxrss 280444
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 49372
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9640
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 123867
- mris_sphere ru_nivcsw 275701
- FSRUNTIME@ mris_sphere 0.8929 hours 1 threads
- PIDs (12972 12976) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 00:28:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg
- #--------------------------------------------
- #@# Surf Reg rh Sun Oct 8 00:28:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 16664 of (16664 16667) to complete...
- Waiting for PID 16667 of (16664 16667) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 = 5.638
- curvature mean = 0.033, std = 0.818
- curvature mean = 0.017, std = 0.861
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, -16.00, 0.00) sse = 325575.7, tmin=1.0370
- d=32.00 min @ (8.00, 8.00, 8.00) sse = 282312.1, tmin=2.1025
- d=16.00 min @ (0.00, -4.00, -4.00) sse = 277735.2, tmin=3.1841
- d=8.00 min @ (0.00, 2.00, 2.00) sse = 276411.0, tmin=4.2973
- d=4.00 min @ (-1.00, -1.00, 0.00) sse = 275721.8, tmin=5.4024
- d=2.00 min @ (0.50, 0.50, 0.00) sse = 275428.0, tmin=6.5135
- d=1.00 min @ (0.00, -0.25, -0.25) sse = 275422.7, tmin=7.6062
- d=0.50 min @ (-0.12, 0.25, 0.38) sse = 275393.2, tmin=8.7142
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 8.71 min
- curvature mean = 0.006, std = 0.835
- curvature mean = 0.007, std = 0.947
- curvature mean = 0.003, std = 0.846
- curvature mean = 0.003, std = 0.978
- curvature mean = 0.003, std = 0.849
- curvature mean = 0.000, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.030, std = 0.315
- curvature mean = 0.041, std = 0.248
- curvature mean = 0.073, std = 0.323
- curvature mean = 0.033, std = 0.307
- curvature mean = 0.045, std = 0.503
- curvature mean = 0.032, std = 0.334
- curvature mean = 0.024, std = 0.647
- curvature mean = 0.031, std = 0.345
- curvature mean = 0.009, std = 0.764
- MRISregister() return, current seed 0
- -01: dt=0.0000, 25 negative triangles
- 120: dt=0.9900, 25 negative triangles
- expanding nbhd size to 1
- 121: dt=0.9900, 37 negative triangles
- 122: dt=0.9900, 21 negative triangles
- 123: dt=0.9900, 23 negative triangles
- 124: dt=0.9900, 25 negative triangles
- 125: dt=0.9900, 21 negative triangles
- 126: dt=0.9900, 19 negative triangles
- 127: dt=0.9900, 18 negative triangles
- 128: dt=0.9900, 15 negative triangles
- 129: dt=0.9900, 17 negative triangles
- 130: dt=0.9900, 15 negative triangles
- 131: dt=0.9900, 13 negative triangles
- 132: dt=0.9900, 13 negative triangles
- 133: dt=0.9900, 13 negative triangles
- 134: dt=0.9900, 13 negative triangles
- 135: dt=0.9900, 13 negative triangles
- 136: dt=0.9900, 14 negative triangles
- 137: dt=0.9900, 13 negative triangles
- 138: dt=0.9900, 13 negative triangles
- 139: dt=0.9900, 12 negative triangles
- 140: dt=0.9900, 13 negative triangles
- 141: dt=0.9900, 14 negative triangles
- 142: dt=0.9900, 12 negative triangles
- 143: dt=0.9900, 10 negative triangles
- 144: dt=0.9900, 8 negative triangles
- 145: dt=0.9900, 8 negative triangles
- 146: dt=0.9900, 9 negative triangles
- 147: dt=0.9900, 8 negative triangles
- 148: dt=0.9900, 6 negative triangles
- 149: dt=0.9900, 6 negative triangles
- 150: dt=0.9900, 6 negative triangles
- 151: dt=0.9900, 4 negative triangles
- 152: dt=0.9900, 4 negative triangles
- 153: dt=0.9900, 4 negative triangles
- 154: dt=0.9900, 4 negative triangles
- 155: dt=0.9900, 3 negative triangles
- 156: dt=0.9900, 3 negative triangles
- 157: dt=0.9900, 2 negative triangles
- 158: dt=0.9900, 2 negative triangles
- 159: dt=0.9900, 2 negative triangles
- 160: dt=0.9900, 2 negative triangles
- 161: dt=0.9900, 2 negative triangles
- 162: dt=0.9900, 2 negative triangles
- 163: dt=0.9900, 2 negative triangles
- 164: dt=0.9900, 1 negative triangles
- 165: dt=0.9900, 1 negative triangles
- 166: dt=0.9900, 1 negative triangles
- 167: dt=0.9900, 1 negative triangles
- 168: dt=0.9900, 1 negative triangles
- 169: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.42 hours
- mris_register utimesec 5137.507980
- mris_register stimesec 2.835568
- mris_register ru_maxrss 254488
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 37482
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 9616
- mris_register ru_oublock 9712
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 406349
- mris_register ru_nivcsw 245862
- FSRUNTIME@ mris_register 1.4211 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 = 5.678
- curvature mean = 0.024, std = 0.803
- curvature mean = 0.017, std = 0.862
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, -16.00, 16.00) sse = 322097.6, tmin=1.0305
- d=32.00 min @ (-8.00, 0.00, -8.00) sse = 306037.1, tmin=2.0976
- d=16.00 min @ (4.00, 4.00, 0.00) sse = 287668.8, tmin=3.1760
- d=8.00 min @ (-2.00, 0.00, -2.00) sse = 284862.1, tmin=4.2889
- d=4.00 min @ (0.00, -1.00, 0.00) sse = 283668.3, tmin=5.3925
- d=2.00 min @ (0.50, 0.00, 0.50) sse = 283417.8, tmin=6.4989
- d=0.50 min @ (0.00, 0.12, 0.00) sse = 283404.4, tmin=8.6858
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 8.69 min
- curvature mean = 0.002, std = 0.817
- curvature mean = 0.008, std = 0.947
- curvature mean = -0.001, std = 0.827
- curvature mean = 0.003, std = 0.978
- curvature mean = -0.002, std = 0.829
- curvature mean = 0.001, std = 0.991
- 2 Reading smoothwm
- curvature mean = -0.030, std = 0.317
- curvature mean = 0.037, std = 0.239
- curvature mean = 0.071, std = 0.327
- curvature mean = 0.033, std = 0.299
- curvature mean = 0.043, std = 0.503
- curvature mean = 0.032, std = 0.326
- curvature mean = 0.024, std = 0.643
- curvature mean = 0.032, std = 0.338
- curvature mean = 0.008, std = 0.762
- MRISregister() return, current seed 0
- -01: dt=0.0000, 48 negative triangles
- 114: dt=0.9900, 48 negative triangles
- expanding nbhd size to 1
- 115: dt=0.9900, 71 negative triangles
- 116: dt=0.9900, 46 negative triangles
- 117: dt=0.9900, 49 negative triangles
- 118: dt=0.9900, 46 negative triangles
- 119: dt=0.9900, 49 negative triangles
- 120: dt=0.9900, 44 negative triangles
- 121: dt=0.9900, 41 negative triangles
- 122: dt=0.9900, 36 negative triangles
- 123: dt=0.9900, 33 negative triangles
- 124: dt=0.9900, 31 negative triangles
- 125: dt=0.9900, 32 negative triangles
- 126: dt=0.9900, 27 negative triangles
- 127: dt=0.9900, 26 negative triangles
- 128: dt=0.9900, 22 negative triangles
- 129: dt=0.9900, 28 negative triangles
- 130: dt=0.9900, 15 negative triangles
- 131: dt=0.9900, 19 negative triangles
- 132: dt=0.9900, 13 negative triangles
- 133: dt=0.9900, 11 negative triangles
- 134: dt=0.9900, 9 negative triangles
- 135: dt=0.9900, 10 negative triangles
- 136: dt=0.9900, 7 negative triangles
- 137: dt=0.9900, 8 negative triangles
- 138: dt=0.9900, 7 negative triangles
- 139: dt=0.9900, 5 negative triangles
- 140: dt=0.9900, 2 negative triangles
- 141: dt=0.9900, 1 negative triangles
- 142: dt=0.9900, 1 negative triangles
- 143: dt=0.9900, 1 negative triangles
- 144: dt=0.9900, 1 negative triangles
- 145: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.41 hours
- mris_register utimesec 5080.854592
- mris_register stimesec 2.922555
- mris_register ru_maxrss 254100
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 36654
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 9584
- mris_register ru_oublock 9672
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 403653
- mris_register ru_nivcsw 259167
- FSRUNTIME@ mris_register 1.4118 hours 1 threads
- PIDs (16664 16667) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 01:53:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 01:53:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 21924 of (21924 21927) to complete...
- Waiting for PID 21927 of (21924 21927) 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 (21924 21927) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 01:53:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mrisp_paint -a 5 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv
- #--------------------------------------------
- #@# AvgCurv rh Sun Oct 8 01:53:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 21970 of (21970 21973) to complete...
- Waiting for PID 21973 of (21970 21973) 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 (21970 21973) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 01:53:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot
- #-----------------------------------------
- #@# Cortical Parc rh Sun Oct 8 01:53:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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 22015 of (22015 22018) to complete...
- Waiting for PID 22018 of (22015 22018) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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...
- 1204 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3268 changed, 136655 examined...
- 001: 744 changed, 13636 examined...
- 002: 164 changed, 4119 examined...
- 003: 59 changed, 981 examined...
- 004: 30 changed, 365 examined...
- 005: 14 changed, 171 examined...
- 006: 4 changed, 84 examined...
- 007: 3 changed, 25 examined...
- 008: 0 changed, 13 examined...
- 242 labels changed using aseg
- 000: 119 total segments, 75 labels (295 vertices) changed
- 001: 44 total segments, 4 labels (11 vertices) changed
- 002: 40 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 5 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1236 vertices marked for relabeling...
- 1236 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 15 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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...
- 1031 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2790 changed, 136122 examined...
- 001: 615 changed, 12264 examined...
- 002: 141 changed, 3415 examined...
- 003: 53 changed, 849 examined...
- 004: 19 changed, 317 examined...
- 005: 6 changed, 113 examined...
- 006: 3 changed, 41 examined...
- 007: 0 changed, 20 examined...
- 157 labels changed using aseg
- 000: 106 total segments, 69 labels (281 vertices) changed
- 001: 38 total segments, 1 labels (1 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 4 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1068 vertices marked for relabeling...
- 1068 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 15 seconds.
- PIDs (22015 22018) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 01:54:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050776 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 01:54:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050776 rh
- Waiting for PID 22067 of (22067 22070) to complete...
- Waiting for PID 22070 of (22067 22070) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050776 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-6.0.0/0050776/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- 25078 bright wm thresholded.
- 2524 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.orig...
- computing class statistics...
- border white: 237704 voxels (1.42%)
- border gray 297212 voxels (1.77%)
- WM (98.0): 97.0 +- 10.7 [70.0 --> 110.0]
- GM (57.0) : 58.9 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 41.6 (was 70)
- setting MAX_BORDER_WHITE to 114.7 (was 105)
- setting MIN_BORDER_WHITE to 53.0 (was 85)
- setting MAX_CSF to 30.2 (was 40)
- setting MAX_GRAY to 93.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 41.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 18.8 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=104+-7.0, GM=53+-7.0
- mean inside = 90.4, mean outside = 63.1
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.90 +- 0.25 (0.02-->6.30) (max @ vno 99374 --> 99375)
- face area 0.34 +- 0.16 (0.00-->4.28)
- mean absolute distance = 0.46 +- 0.63
- 3175 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 1 with 6 points - only 0.00% unknown
- deleting segment 2 with 28 points - only 0.00% unknown
- deleting segment 3 with 13 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 761 points - only 0.00% unknown
- deleting segment 6 with 7 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 7 with 4 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 8 points - only 0.00% unknown
- deleting segment 10 with 11 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- mean border=68.6, 146 (146) missing vertices, mean dist 0.3 [0.4 (%13.0)->0.5 (%87.0))]
- %77 local maxima, %19 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.93 +- 0.27 (0.10-->7.15) (max @ vno 99375 --> 99374)
- face area 0.34 +- 0.16 (0.00-->4.26)
- mean absolute distance = 0.27 +- 0.44
- 2628 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=3500614.2, rms=10.380
- 001: dt: 0.5000, sse=1694834.8, rms=6.242 (39.862%)
- 002: dt: 0.5000, sse=1407893.1, rms=5.316 (14.837%)
- 003: dt: 0.5000, sse=1364005.0, rms=5.158 (2.962%)
- 004: dt: 0.5000, sse=1305737.5, rms=4.945 (4.143%)
- rms = 5.02, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.2500, sse=977178.3, rms=3.414 (30.953%)
- 006: dt: 0.2500, sse=898293.1, rms=2.919 (14.497%)
- 007: dt: 0.2500, sse=859722.7, rms=2.642 (9.484%)
- rms = 2.64, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=859275.9, rms=2.639 (0.145%)
- 009: dt: 0.1250, sse=808106.9, rms=2.235 (15.285%)
- 010: dt: 0.1250, sse=800553.6, rms=2.167 (3.069%)
- rms = 2.15, time step reduction 3 of 3 to 0.062...
- 011: dt: 0.1250, sse=799527.2, rms=2.153 (0.617%)
- positioning took 1.3 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 6 points - only 0.00% unknown
- deleting segment 1 with 19 points - only 0.00% unknown
- deleting segment 2 with 9 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 3 points - only 0.00% unknown
- deleting segment 4 with 6 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 5 with 1 points - only 0.00% unknown
- deleting segment 6 with 372 points - only 0.00% unknown
- deleting segment 7 with 5 points - only 0.00% unknown
- deleting segment 8 with 10 points - only 0.00% unknown
- deleting segment 9 with 5 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 10 with 3 points - only 0.00% unknown
- deleting segment 11 with 8 points - only 0.00% unknown
- deleting segment 12 with 8 points - only 0.00% unknown
- deleting segment 13 with 12 points - only 0.00% unknown
- mean border=73.5, 123 (36) missing vertices, mean dist -0.2 [0.3 (%81.1)->0.2 (%18.9))]
- %86 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.92 +- 0.26 (0.09-->7.37) (max @ vno 99375 --> 99374)
- face area 0.36 +- 0.18 (0.00-->4.60)
- mean absolute distance = 0.19 +- 0.32
- 2759 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1674037.2, rms=6.029
- 012: dt: 0.5000, sse=1240335.5, rms=4.389 (27.193%)
- rms = 5.07, time step reduction 1 of 3 to 0.250...
- 013: dt: 0.2500, sse=942554.9, rms=2.886 (34.256%)
- 014: dt: 0.2500, sse=887145.1, rms=2.479 (14.087%)
- 015: dt: 0.2500, sse=850624.7, rms=2.200 (11.262%)
- rms = 2.27, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.1250, sse=826243.2, rms=1.982 (9.929%)
- 017: dt: 0.1250, sse=796820.3, rms=1.660 (16.243%)
- 018: dt: 0.1250, sse=791981.6, rms=1.607 (3.201%)
- rms = 1.61, time step reduction 3 of 3 to 0.062...
- 019: dt: 0.1250, sse=792562.4, rms=1.609 (-0.129%)
- positioning took 1.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 0 with 4 points - only 0.00% unknown
- deleting segment 1 with 22 points - only 0.00% unknown
- deleting segment 2 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 3 with 2 points - only 0.00% unknown
- deleting segment 4 with 534 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 5 points - only 0.00% unknown
- deleting segment 7 with 5 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 8 with 3 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 25 points - only 0.00% unknown
- deleting segment 11 with 8 points - only 0.00% unknown
- deleting segment 12 with 14 points - only 14.29% unknown
- deleting segment 13 with 12 points - only 0.00% unknown
- mean border=76.1, 135 (24) missing vertices, mean dist -0.1 [0.2 (%70.5)->0.2 (%29.5))]
- %89 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.91 +- 0.26 (0.07-->7.46) (max @ vno 99375 --> 99374)
- face area 0.35 +- 0.17 (0.00-->4.42)
- mean absolute distance = 0.17 +- 0.27
- 2853 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1021099.4, rms=3.502
- rms = 4.67, time step reduction 1 of 3 to 0.250...
- 020: dt: 0.2500, sse=830680.4, rms=2.228 (36.382%)
- 021: dt: 0.2500, sse=790492.1, rms=1.781 (20.057%)
- rms = 1.78, time step reduction 2 of 3 to 0.125...
- 022: dt: 0.2500, sse=787212.0, rms=1.779 (0.143%)
- 023: dt: 0.1250, sse=757340.6, rms=1.455 (18.175%)
- rms = 1.41, time step reduction 3 of 3 to 0.062...
- 024: dt: 0.1250, sse=753317.1, rms=1.414 (2.869%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 0 with 4 points - only 0.00% unknown
- deleting segment 1 with 26 points - only 0.00% unknown
- deleting segment 2 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 3 with 2 points - only 0.00% unknown
- deleting segment 4 with 594 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 6 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 8 with 5 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- deleting segment 12 with 8 points - only 0.00% unknown
- deleting segment 13 with 29 points - only 0.00% unknown
- deleting segment 14 with 8 points - only 0.00% unknown
- deleting segment 15 with 14 points - only 14.29% unknown
- deleting segment 16 with 12 points - only 0.00% unknown
- mean border=77.0, 167 (21) missing vertices, mean dist -0.0 [0.2 (%55.7)->0.2 (%44.3))]
- %91 local maxima, % 5 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-6.0.0/0050776/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=773598.8, rms=1.765
- rms = 3.14, time step reduction 1 of 3 to 0.250...
- 025: dt: 0.2500, sse=727586.8, rms=1.163 (34.091%)
- 026: dt: 0.2500, sse=724937.2, rms=1.094 (5.945%)
- rms = 1.09, time step reduction 2 of 3 to 0.125...
- 027: dt: 0.2500, sse=721289.1, rms=1.092 (0.136%)
- rms = 1.05, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=718909.4, rms=1.046 (4.251%)
- positioning took 0.5 minutes
- generating cortex label...
- 9 non-cortical segments detected
- only using segment with 7100 vertices
- erasing segment 1 (vno[0] = 62036)
- erasing segment 2 (vno[0] = 74460)
- erasing segment 3 (vno[0] = 75753)
- erasing segment 4 (vno[0] = 75783)
- erasing segment 5 (vno[0] = 85299)
- erasing segment 6 (vno[0] = 87739)
- erasing segment 7 (vno[0] = 97387)
- erasing segment 8 (vno[0] = 119267)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.area
- vertex spacing 0.91 +- 0.26 (0.06-->7.59) (max @ vno 99374 --> 99375)
- face area 0.35 +- 0.17 (0.00-->4.39)
- 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 2 vertex label from ripped group
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=40.9, 150 (150) missing vertices, mean dist 1.3 [0.9 (%0.0)->2.9 (%100.0))]
- % 7 local maxima, %39 large gradients and %51 min vals, 428 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=36138012.0, rms=36.788
- 001: dt: 0.0500, sse=30857874.0, rms=33.939 (7.746%)
- 002: dt: 0.0500, sse=27092706.0, rms=31.751 (6.446%)
- 003: dt: 0.0500, sse=24257206.0, rms=29.998 (5.521%)
- 004: dt: 0.0500, sse=22013174.0, rms=28.535 (4.879%)
- 005: dt: 0.0500, sse=20172634.0, rms=27.276 (4.412%)
- 006: dt: 0.0500, sse=18622306.0, rms=26.168 (4.061%)
- 007: dt: 0.0500, sse=17290206.0, rms=25.177 (3.786%)
- 008: dt: 0.0500, sse=16128652.0, rms=24.280 (3.562%)
- 009: dt: 0.0500, sse=15103479.0, rms=23.460 (3.378%)
- 010: dt: 0.0500, sse=14190505.0, rms=22.705 (3.220%)
- positioning took 1.0 minutes
- mean border=40.7, 107 (67) missing vertices, mean dist 1.2 [0.1 (%0.0)->2.4 (%100.0))]
- % 7 local maxima, %39 large gradients and %50 min vals, 340 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=14992105.0, rms=23.370
- 011: dt: 0.0500, sse=14170069.0, rms=22.688 (2.915%)
- 012: dt: 0.0500, sse=13430009.0, rms=22.057 (2.783%)
- 013: dt: 0.0500, sse=12761802.0, rms=21.471 (2.658%)
- 014: dt: 0.0500, sse=12155991.0, rms=20.925 (2.542%)
- 015: dt: 0.0500, sse=11605716.0, rms=20.417 (2.430%)
- 016: dt: 0.0500, sse=11105160.0, rms=19.943 (2.321%)
- 017: dt: 0.0500, sse=10649139.0, rms=19.501 (2.215%)
- 018: dt: 0.0500, sse=10233482.0, rms=19.089 (2.111%)
- 019: dt: 0.0500, sse=9853391.0, rms=18.705 (2.014%)
- 020: dt: 0.0500, sse=9505490.0, rms=18.346 (1.920%)
- positioning took 1.0 minutes
- mean border=40.7, 140 (46) missing vertices, mean dist 1.0 [0.1 (%1.0)->2.2 (%99.0))]
- % 8 local maxima, %38 large gradients and %50 min vals, 341 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=9591888.0, rms=18.442
- 021: dt: 0.0500, sse=9267194.0, rms=18.103 (1.843%)
- 022: dt: 0.0500, sse=8968729.0, rms=17.784 (1.758%)
- 023: dt: 0.0500, sse=8691549.0, rms=17.484 (1.691%)
- 024: dt: 0.0500, sse=8435688.0, rms=17.201 (1.615%)
- 025: dt: 0.0500, sse=8198512.0, rms=16.935 (1.547%)
- 026: dt: 0.0500, sse=7977943.5, rms=16.684 (1.484%)
- 027: dt: 0.0500, sse=7771258.5, rms=16.445 (1.433%)
- 028: dt: 0.0500, sse=7576098.0, rms=16.216 (1.393%)
- 029: dt: 0.0500, sse=7390718.5, rms=15.995 (1.362%)
- 030: dt: 0.0500, sse=7214756.5, rms=15.782 (1.329%)
- positioning took 1.0 minutes
- mean border=40.6, 170 (37) missing vertices, mean dist 0.9 [0.1 (%8.3)->2.0 (%91.7))]
- % 8 local maxima, %38 large gradients and %50 min vals, 335 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=7286229.5, rms=15.870
- 031: dt: 0.5000, sse=6006074.5, rms=14.239 (10.275%)
- 032: dt: 0.5000, sse=5118855.0, rms=12.981 (8.834%)
- 033: dt: 0.5000, sse=4452009.0, rms=11.948 (7.962%)
- 034: dt: 0.5000, sse=3953980.5, rms=11.107 (7.039%)
- 035: dt: 0.5000, sse=3555420.5, rms=10.385 (6.495%)
- 036: dt: 0.5000, sse=3224604.0, rms=9.744 (6.178%)
- 037: dt: 0.5000, sse=2931413.5, rms=9.140 (6.198%)
- 038: dt: 0.5000, sse=2670928.0, rms=8.569 (6.248%)
- 039: dt: 0.5000, sse=2444135.8, rms=8.041 (6.161%)
- 040: dt: 0.5000, sse=2249873.2, rms=7.558 (5.999%)
- 041: dt: 0.5000, sse=2091842.8, rms=7.144 (5.481%)
- 042: dt: 0.5000, sse=1966994.6, rms=6.798 (4.843%)
- 043: dt: 0.5000, sse=1875235.9, rms=6.534 (3.885%)
- 044: dt: 0.5000, sse=1809581.1, rms=6.337 (3.008%)
- 045: dt: 0.5000, sse=1766723.9, rms=6.206 (2.068%)
- 046: dt: 0.5000, sse=1734180.0, rms=6.103 (1.658%)
- 047: dt: 0.5000, sse=1714446.8, rms=6.041 (1.027%)
- rms = 6.00, time step reduction 1 of 3 to 0.250...
- 048: dt: 0.5000, sse=1703155.8, rms=6.004 (0.615%)
- 049: dt: 0.2500, sse=1626386.6, rms=5.718 (4.761%)
- 050: dt: 0.2500, sse=1599436.1, rms=5.626 (1.602%)
- rms = 5.64, time step reduction 2 of 3 to 0.125...
- rms = 5.60, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1593021.8, rms=5.602 (0.434%)
- positioning took 2.9 minutes
- mean border=40.1, 2942 (13) missing vertices, mean dist 0.1 [0.2 (%53.9)->0.7 (%46.1))]
- %16 local maxima, %32 large gradients and %46 min vals, 138 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=1836945.9, rms=5.479
- 052: dt: 0.5000, sse=1758894.5, rms=5.208 (4.944%)
- rms = 5.20, time step reduction 1 of 3 to 0.250...
- 053: dt: 0.5000, sse=1745739.2, rms=5.195 (0.245%)
- 054: dt: 0.2500, sse=1672345.9, rms=4.859 (6.482%)
- 055: dt: 0.2500, sse=1651933.9, rms=4.780 (1.625%)
- rms = 4.80, time step reduction 2 of 3 to 0.125...
- rms = 4.74, time step reduction 3 of 3 to 0.062...
- 056: dt: 0.1250, sse=1643221.1, rms=4.740 (0.828%)
- positioning took 0.9 minutes
- mean border=39.5, 3402 (5) missing vertices, mean dist 0.1 [0.2 (%50.7)->0.5 (%49.3))]
- %28 local maxima, %20 large gradients and %45 min vals, 182 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=1695526.4, rms=4.909
- rms = 5.29, time step reduction 1 of 3 to 0.250...
- 057: dt: 0.2500, sse=1664224.1, rms=4.775 (2.726%)
- rms = 4.79, time step reduction 2 of 3 to 0.125...
- rms = 4.76, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1660488.4, rms=4.758 (0.361%)
- positioning took 0.6 minutes
- mean border=38.9, 6889 (4) missing vertices, mean dist 0.1 [0.1 (%46.6)->0.4 (%53.4))]
- %32 local maxima, %16 large gradients and %43 min vals, 192 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-6.0.0/0050776/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1697757.0, rms=4.916
- rms = 4.91, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.5000, sse=1686732.8, rms=4.908 (0.157%)
- 060: dt: 0.2500, sse=1596619.6, rms=4.545 (7.394%)
- 061: dt: 0.2500, sse=1557117.6, rms=4.387 (3.490%)
- rms = 4.37, time step reduction 2 of 3 to 0.125...
- 062: dt: 0.2500, sse=1551858.4, rms=4.368 (0.426%)
- 063: dt: 0.1250, sse=1514643.2, rms=4.192 (4.018%)
- rms = 4.16, time step reduction 3 of 3 to 0.062...
- 064: dt: 0.1250, sse=1506383.0, rms=4.159 (0.811%)
- positioning took 1.1 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.area.pial
- vertex spacing 1.08 +- 0.50 (0.02-->7.70) (max @ vno 91905 --> 91892)
- face area 0.45 +- 0.38 (0.00-->7.19)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 136655 vertices processed
- 25000 of 136655 vertices processed
- 50000 of 136655 vertices processed
- 75000 of 136655 vertices processed
- 100000 of 136655 vertices processed
- 125000 of 136655 vertices processed
- 0 of 136655 vertices processed
- 25000 of 136655 vertices processed
- 50000 of 136655 vertices processed
- 75000 of 136655 vertices processed
- 100000 of 136655 vertices processed
- 125000 of 136655 vertices processed
- thickness calculation complete, 346:2237 truncations.
- 25799 vertices at 0 distance
- 84456 vertices at 1 distance
- 85809 vertices at 2 distance
- 43373 vertices at 3 distance
- 15428 vertices at 4 distance
- 4552 vertices at 5 distance
- 1429 vertices at 6 distance
- 519 vertices at 7 distance
- 247 vertices at 8 distance
- 150 vertices at 9 distance
- 107 vertices at 10 distance
- 79 vertices at 11 distance
- 66 vertices at 12 distance
- 63 vertices at 13 distance
- 47 vertices at 14 distance
- 39 vertices at 15 distance
- 45 vertices at 16 distance
- 31 vertices at 17 distance
- 31 vertices at 18 distance
- 19 vertices at 19 distance
- 25 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.thickness
- positioning took 15.7 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050776 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-6.0.0/0050776/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- 25078 bright wm thresholded.
- 2524 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.orig...
- computing class statistics...
- border white: 237704 voxels (1.42%)
- border gray 297212 voxels (1.77%)
- WM (98.0): 97.0 +- 10.7 [70.0 --> 110.0]
- GM (57.0) : 58.9 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 39.6 (was 70)
- setting MAX_BORDER_WHITE to 114.7 (was 105)
- setting MIN_BORDER_WHITE to 51.0 (was 85)
- setting MAX_CSF to 28.2 (was 40)
- setting MAX_GRAY to 93.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 39.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 16.8 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=104+-7.0, GM=51+-7.8
- mean inside = 90.6, 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 +- 0.25 (0.05-->4.79) (max @ vno 104759 --> 135931)
- face area 0.34 +- 0.15 (0.00-->4.77)
- mean absolute distance = 0.47 +- 0.59
- 3592 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 6 points - only 0.00% unknown
- deleting segment 2 with 23 points - only 0.00% unknown
- deleting segment 4 with 575 points - only 0.00% unknown
- deleting segment 5 with 5 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 15 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 10 points - only 0.00% unknown
- mean border=67.9, 154 (154) missing vertices, mean dist 0.4 [0.4 (%12.3)->0.5 (%87.7))]
- %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 0.93 +- 0.27 (0.04-->4.00) (max @ vno 131171 --> 133236)
- face area 0.34 +- 0.16 (0.00-->3.29)
- mean absolute distance = 0.29 +- 0.42
- 2950 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=3818237.8, rms=10.992
- 001: dt: 0.5000, sse=1736117.9, rms=6.400 (41.774%)
- 002: dt: 0.5000, sse=1429364.1, rms=5.431 (15.134%)
- 003: dt: 0.5000, sse=1365234.0, rms=5.192 (4.404%)
- 004: dt: 0.5000, sse=1328330.5, rms=5.049 (2.753%)
- rms = 5.04, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.5000, sse=1325280.8, rms=5.042 (0.140%)
- 006: dt: 0.2500, sse=929273.9, rms=3.144 (37.656%)
- 007: dt: 0.2500, sse=875434.3, rms=2.810 (10.620%)
- 008: dt: 0.2500, sse=863415.2, rms=2.720 (3.181%)
- rms = 2.71, time step reduction 2 of 3 to 0.125...
- 009: dt: 0.2500, sse=865643.3, rms=2.713 (0.276%)
- 010: dt: 0.1250, sse=804947.9, rms=2.257 (16.785%)
- 011: dt: 0.1250, sse=797292.8, rms=2.183 (3.299%)
- rms = 2.17, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=796676.8, rms=2.171 (0.556%)
- positioning took 1.3 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 6 points - only 0.00% unknown
- deleting segment 1 with 23 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 4 with 334 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 5 with 3 points - only 0.00% unknown
- deleting segment 6 with 5 points - only 0.00% unknown
- deleting segment 7 with 39 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 2 points - only 0.00% unknown
- deleting segment 9 with 10 points - only 0.00% unknown
- mean border=73.3, 156 (64) missing vertices, mean dist -0.2 [0.3 (%83.1)->0.2 (%16.9))]
- %89 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.92 +- 0.26 (0.05-->3.93) (max @ vno 131171 --> 133236)
- face area 0.36 +- 0.17 (0.00-->4.00)
- mean absolute distance = 0.19 +- 0.30
- 2924 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1835739.1, rms=6.540
- 013: dt: 0.5000, sse=1227051.9, rms=4.404 (32.653%)
- rms = 5.21, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.2500, sse=945699.3, rms=2.935 (33.356%)
- 015: dt: 0.2500, sse=888985.4, rms=2.537 (13.581%)
- 016: dt: 0.2500, sse=855368.9, rms=2.269 (10.541%)
- rms = 2.37, time step reduction 2 of 3 to 0.125...
- 017: dt: 0.1250, sse=829150.1, rms=2.039 (10.152%)
- 018: dt: 0.1250, sse=798045.1, rms=1.705 (16.356%)
- 019: dt: 0.1250, sse=792541.6, rms=1.651 (3.168%)
- rms = 1.65, time step reduction 3 of 3 to 0.062...
- 020: dt: 0.1250, sse=791835.4, rms=1.646 (0.296%)
- positioning took 1.0 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 6 points - only 0.00% unknown
- deleting segment 1 with 23 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 489 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 4 with 3 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- deleting segment 10 with 8 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- deleting segment 12 with 10 points - only 0.00% unknown
- mean border=76.0, 157 (47) missing vertices, mean dist -0.1 [0.2 (%71.7)->0.2 (%28.3))]
- %92 local maxima, % 4 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.91 +- 0.26 (0.10-->3.89) (max @ vno 131171 --> 133236)
- face area 0.35 +- 0.17 (0.00-->3.72)
- mean absolute distance = 0.16 +- 0.27
- 2650 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1045322.2, rms=3.672
- rms = 4.82, time step reduction 1 of 3 to 0.250...
- 021: dt: 0.2500, sse=839638.2, rms=2.354 (35.880%)
- 022: dt: 0.2500, sse=792527.3, rms=1.891 (19.691%)
- rms = 1.88, time step reduction 2 of 3 to 0.125...
- 023: dt: 0.2500, sse=790751.1, rms=1.878 (0.668%)
- 024: dt: 0.1250, sse=759062.1, rms=1.505 (19.865%)
- 025: dt: 0.1250, sse=750866.9, rms=1.446 (3.898%)
- rms = 1.45, time step reduction 3 of 3 to 0.062...
- 026: dt: 0.1250, sse=750266.2, rms=1.452 (-0.395%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 6 points - only 0.00% unknown
- deleting segment 1 with 23 points - only 0.00% unknown
- deleting segment 2 with 529 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 3 points - only 0.00% unknown
- deleting segment 4 with 5 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 10 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 12 points - only 0.00% unknown
- mean border=76.8, 156 (42) missing vertices, mean dist -0.0 [0.2 (%56.3)->0.2 (%43.7))]
- %93 local maxima, % 3 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-6.0.0/0050776/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=769431.8, rms=1.767
- rms = 3.22, time step reduction 1 of 3 to 0.250...
- 027: dt: 0.2500, sse=722103.4, rms=1.167 (33.966%)
- 028: dt: 0.2500, sse=725252.8, rms=1.104 (5.407%)
- rms = 1.10, time step reduction 2 of 3 to 0.125...
- rms = 1.09, time step reduction 3 of 3 to 0.062...
- 029: dt: 0.1250, sse=717490.2, rms=1.086 (1.656%)
- positioning took 0.5 minutes
- generating cortex label...
- 15 non-cortical segments detected
- only using segment with 7087 vertices
- erasing segment 1 (vno[0] = 57794)
- erasing segment 2 (vno[0] = 73772)
- erasing segment 3 (vno[0] = 78350)
- erasing segment 4 (vno[0] = 78772)
- erasing segment 5 (vno[0] = 79910)
- erasing segment 6 (vno[0] = 80517)
- erasing segment 7 (vno[0] = 81007)
- erasing segment 8 (vno[0] = 82740)
- erasing segment 9 (vno[0] = 84213)
- erasing segment 10 (vno[0] = 92687)
- erasing segment 11 (vno[0] = 93745)
- erasing segment 12 (vno[0] = 97080)
- erasing segment 13 (vno[0] = 98099)
- erasing segment 14 (vno[0] = 107736)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.area
- vertex spacing 0.91 +- 0.26 (0.05-->3.89) (max @ vno 131171 --> 133236)
- face area 0.35 +- 0.17 (0.00-->3.53)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 2 with 28 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=39.3, 105 (105) missing vertices, mean dist 1.2 [1.0 (%0.0)->3.1 (%100.0))]
- % 6 local maxima, %32 large gradients and %58 min vals, 168 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=38833168.0, rms=38.236
- 001: dt: 0.0500, sse=33242822.0, rms=35.324 (7.615%)
- 002: dt: 0.0500, sse=29259206.0, rms=33.094 (6.315%)
- 003: dt: 0.0500, sse=26256764.0, rms=31.307 (5.398%)
- 004: dt: 0.0500, sse=23884718.0, rms=29.820 (4.750%)
- 005: dt: 0.0500, sse=21942194.0, rms=28.545 (4.277%)
- 006: dt: 0.0500, sse=20307672.0, rms=27.426 (3.921%)
- 007: dt: 0.0500, sse=18904354.0, rms=26.427 (3.642%)
- 008: dt: 0.0500, sse=17681208.0, rms=25.525 (3.415%)
- 009: dt: 0.0500, sse=16601323.0, rms=24.700 (3.229%)
- 010: dt: 0.0500, sse=15639734.0, rms=23.943 (3.068%)
- positioning took 1.0 minutes
- mean border=39.2, 104 (57) missing vertices, mean dist 1.1 [0.4 (%0.0)->2.7 (%100.0))]
- % 6 local maxima, %33 large gradients and %57 min vals, 165 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=16463753.0, rms=24.595
- 011: dt: 0.0500, sse=15597860.0, rms=23.911 (2.782%)
- 012: dt: 0.0500, sse=14817762.0, rms=23.277 (2.650%)
- 013: dt: 0.0500, sse=14111970.0, rms=22.689 (2.529%)
- 014: dt: 0.0500, sse=13472087.0, rms=22.141 (2.412%)
- 015: dt: 0.0500, sse=12889423.0, rms=21.631 (2.305%)
- 016: dt: 0.0500, sse=12359034.0, rms=21.156 (2.198%)
- 017: dt: 0.0500, sse=11875941.0, rms=20.713 (2.092%)
- 018: dt: 0.0500, sse=11434751.0, rms=20.300 (1.993%)
- 019: dt: 0.0500, sse=11030737.0, rms=19.915 (1.899%)
- 020: dt: 0.0500, sse=10660708.0, rms=19.555 (1.807%)
- positioning took 1.0 minutes
- mean border=39.2, 130 (42) missing vertices, mean dist 1.0 [0.1 (%0.5)->2.4 (%99.5))]
- % 7 local maxima, %33 large gradients and %56 min vals, 149 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=10745989.0, rms=19.645
- 021: dt: 0.0500, sse=10402722.0, rms=19.306 (1.723%)
- 022: dt: 0.0500, sse=10085617.0, rms=18.988 (1.647%)
- 023: dt: 0.0500, sse=9791768.0, rms=18.688 (1.578%)
- 024: dt: 0.0500, sse=9519896.0, rms=18.407 (1.507%)
- 025: dt: 0.0500, sse=9267324.0, rms=18.141 (1.443%)
- 026: dt: 0.0500, sse=9031205.0, rms=17.889 (1.389%)
- 027: dt: 0.0500, sse=8808449.0, rms=17.648 (1.348%)
- 028: dt: 0.0500, sse=8597333.0, rms=17.416 (1.313%)
- 029: dt: 0.0500, sse=8396462.0, rms=17.193 (1.283%)
- 030: dt: 0.0500, sse=8204262.0, rms=16.976 (1.260%)
- positioning took 1.0 minutes
- mean border=39.1, 149 (36) missing vertices, mean dist 0.9 [0.1 (%4.9)->2.2 (%95.1))]
- % 7 local maxima, %33 large gradients and %56 min vals, 143 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=8268243.5, rms=17.051
- 031: dt: 0.5000, sse=6893242.5, rms=15.420 (9.566%)
- 032: dt: 0.5000, sse=5895483.5, rms=14.111 (8.485%)
- 033: dt: 0.5000, sse=5121630.0, rms=13.005 (7.842%)
- 034: dt: 0.5000, sse=4518633.0, rms=12.068 (7.206%)
- 035: dt: 0.5000, sse=4023526.8, rms=11.241 (6.853%)
- 036: dt: 0.5000, sse=3594150.8, rms=10.470 (6.856%)
- 037: dt: 0.5000, sse=3197284.0, rms=9.707 (7.288%)
- 038: dt: 0.5000, sse=2843659.5, rms=8.973 (7.560%)
- 039: dt: 0.5000, sse=2538148.5, rms=8.289 (7.629%)
- 040: dt: 0.5000, sse=2290934.8, rms=7.690 (7.227%)
- 041: dt: 0.5000, sse=2095319.4, rms=7.182 (6.594%)
- 042: dt: 0.5000, sse=1959624.1, rms=6.807 (5.223%)
- 043: dt: 0.5000, sse=1869594.4, rms=6.547 (3.829%)
- 044: dt: 0.5000, sse=1807740.0, rms=6.361 (2.838%)
- 045: dt: 0.5000, sse=1769532.6, rms=6.242 (1.862%)
- 046: dt: 0.5000, sse=1746392.4, rms=6.170 (1.163%)
- 047: dt: 0.5000, sse=1730229.6, rms=6.118 (0.840%)
- rms = 6.07, time step reduction 1 of 3 to 0.250...
- 048: dt: 0.5000, sse=1715006.9, rms=6.069 (0.805%)
- 049: dt: 0.2500, sse=1642209.2, rms=5.795 (4.509%)
- 050: dt: 0.2500, sse=1615587.4, rms=5.707 (1.523%)
- rms = 5.71, time step reduction 2 of 3 to 0.125...
- rms = 5.68, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1609216.8, rms=5.682 (0.429%)
- positioning took 3.1 minutes
- mean border=38.7, 3381 (10) missing vertices, mean dist 0.1 [0.2 (%54.6)->0.7 (%45.4))]
- %12 local maxima, %29 large gradients and %52 min vals, 75 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=1868349.8, rms=5.611
- 052: dt: 0.5000, sse=1773685.9, rms=5.288 (5.754%)
- rms = 5.28, time step reduction 1 of 3 to 0.250...
- 053: dt: 0.5000, sse=1761096.1, rms=5.277 (0.221%)
- 054: dt: 0.2500, sse=1688115.9, rms=4.943 (6.328%)
- 055: dt: 0.2500, sse=1668012.4, rms=4.867 (1.540%)
- rms = 4.89, time step reduction 2 of 3 to 0.125...
- rms = 4.83, time step reduction 3 of 3 to 0.062...
- 056: dt: 0.1250, sse=1660270.8, rms=4.831 (0.732%)
- positioning took 1.0 minutes
- mean border=38.2, 3571 (9) missing vertices, mean dist 0.1 [0.2 (%53.1)->0.5 (%46.9))]
- %22 local maxima, %19 large gradients and %52 min vals, 103 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=1709969.0, rms=4.989
- rms = 5.38, time step reduction 1 of 3 to 0.250...
- 057: dt: 0.2500, sse=1684407.6, rms=4.880 (2.187%)
- rms = 4.92, time step reduction 2 of 3 to 0.125...
- rms = 4.87, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1681551.6, rms=4.867 (0.276%)
- positioning took 0.6 minutes
- mean border=37.7, 7349 (9) missing vertices, mean dist 0.1 [0.1 (%49.5)->0.4 (%50.5))]
- %26 local maxima, %15 large gradients and %50 min vals, 117 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-6.0.0/0050776/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1716668.2, rms=5.013
- rms = 5.01, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.2500, sse=1680520.1, rms=4.871 (2.831%)
- 060: dt: 0.2500, sse=1632549.2, rms=4.697 (3.573%)
- 061: dt: 0.2500, sse=1606762.8, rms=4.603 (2.006%)
- 062: dt: 0.2500, sse=1580976.4, rms=4.507 (2.084%)
- rms = 4.47, time step reduction 2 of 3 to 0.125...
- 063: dt: 0.2500, sse=1569687.6, rms=4.465 (0.932%)
- 064: dt: 0.1250, sse=1544149.1, rms=4.347 (2.654%)
- rms = 4.32, time step reduction 3 of 3 to 0.062...
- 065: dt: 0.1250, sse=1536419.6, rms=4.316 (0.712%)
- positioning took 1.4 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.area.pial
- vertex spacing 1.08 +- 0.50 (0.06-->6.39) (max @ vno 89844 --> 88798)
- face area 0.45 +- 0.38 (0.00-->5.43)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 136122 vertices processed
- 25000 of 136122 vertices processed
- 50000 of 136122 vertices processed
- 75000 of 136122 vertices processed
- 100000 of 136122 vertices processed
- 125000 of 136122 vertices processed
- 0 of 136122 vertices processed
- 25000 of 136122 vertices processed
- 50000 of 136122 vertices processed
- 75000 of 136122 vertices processed
- 100000 of 136122 vertices processed
- 125000 of 136122 vertices processed
- thickness calculation complete, 517:2407 truncations.
- 23141 vertices at 0 distance
- 80351 vertices at 1 distance
- 87770 vertices at 2 distance
- 44923 vertices at 3 distance
- 16460 vertices at 4 distance
- 5045 vertices at 5 distance
- 1755 vertices at 6 distance
- 642 vertices at 7 distance
- 288 vertices at 8 distance
- 172 vertices at 9 distance
- 139 vertices at 10 distance
- 91 vertices at 11 distance
- 84 vertices at 12 distance
- 70 vertices at 13 distance
- 60 vertices at 14 distance
- 50 vertices at 15 distance
- 67 vertices at 16 distance
- 52 vertices at 17 distance
- 29 vertices at 18 distance
- 25 vertices at 19 distance
- 36 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.thickness
- positioning took 16.4 minutes
- PIDs (22067 22070) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 02:10:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.cortex.label
- Total face volume 295396
- Total vertex volume 290866 (mask=0)
- #@# 0050776 lh 290866
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 02:10:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.cortex.label
- Total face volume 303143
- Total vertex volume 298357 (mask=0)
- #@# 0050776 rh 298357
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 02:10:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776
- 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 = 218
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/ribbon.mgz
- mris_volmask took 17.26 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 02:27:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 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 0050776 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 02:27:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 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 0050776 rh pial
- Waiting for PID 23924 of (23924 23927 23930 23933) to complete...
- Waiting for PID 23927 of (23924 23927 23930 23933) to complete...
- Waiting for PID 23930 of (23924 23927 23930 23933) to complete...
- Waiting for PID 23933 of (23924 23927 23930 23933) 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 0050776 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 295396
- Total vertex volume 290866 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1599 1072 2946 2.807 0.457 0.103 0.018 16 1.2 bankssts
- 731 493 1960 3.278 0.663 0.123 0.023 10 0.7 caudalanteriorcingulate
- 2997 2081 6246 2.539 0.612 0.116 0.023 34 2.8 caudalmiddlefrontal
- 2227 1578 4048 2.324 0.490 0.164 0.044 52 4.2 cuneus
- 343 260 1401 3.880 0.630 0.145 0.028 5 0.4 entorhinal
- 5274 3600 11546 2.871 0.551 0.127 0.031 89 6.4 fusiform
- 7357 5053 17296 2.865 0.621 0.121 0.023 99 7.5 inferiorparietal
- 5877 4031 15988 3.135 0.694 0.130 0.032 89 7.3 inferiortemporal
- 1530 1011 2922 2.435 1.014 0.127 0.029 26 1.7 isthmuscingulate
- 8432 5617 14807 2.310 0.568 0.139 0.028 134 9.7 lateraloccipital
- 4171 2877 9370 2.904 0.783 0.137 0.037 56 6.1 lateralorbitofrontal
- 4187 2981 7867 2.398 0.608 0.146 0.034 79 6.0 lingual
- 2183 1568 4995 2.662 0.788 0.143 0.037 42 3.1 medialorbitofrontal
- 4644 3237 14584 3.390 0.682 0.140 0.031 87 6.3 middletemporal
- 1004 668 1925 2.436 0.579 0.081 0.014 6 0.5 parahippocampal
- 1915 1315 4301 2.841 0.688 0.121 0.024 18 1.9 paracentral
- 1794 1273 4211 2.719 0.624 0.119 0.026 20 1.9 parsopercularis
- 941 647 2727 2.967 0.703 0.149 0.040 17 1.6 parsorbitalis
- 1468 1044 3590 2.758 0.692 0.130 0.036 24 1.9 parstriangularis
- 2023 1408 2758 2.169 0.480 0.129 0.033 23 2.8 pericalcarine
- 5932 4036 10926 2.255 0.755 0.119 0.026 73 5.8 postcentral
- 1570 1106 3614 2.803 0.750 0.137 0.027 26 1.7 posteriorcingulate
- 7829 5250 15294 2.531 0.654 0.115 0.023 86 7.5 precentral
- 6182 4302 14150 2.762 0.591 0.134 0.030 98 8.1 precuneus
- 1117 753 2212 2.659 0.769 0.143 0.048 30 2.4 rostralanteriorcingulate
- 7473 5324 17872 2.578 0.748 0.155 0.044 163 15.1 rostralmiddlefrontal
- 10801 7653 27678 2.920 0.723 0.135 0.030 145 13.6 superiorfrontal
- 8332 5637 16424 2.476 0.587 0.126 0.024 120 8.1 superiorparietal
- 6448 4383 17040 3.152 0.667 0.118 0.024 82 6.4 superiortemporal
- 7556 5208 17727 2.808 0.683 0.133 0.030 129 9.5 supramarginal
- 378 277 1448 3.373 0.645 0.191 0.052 13 0.9 frontalpole
- 592 425 2226 3.501 0.772 0.137 0.046 9 1.0 temporalpole
- 669 431 1451 2.820 0.386 0.123 0.045 9 1.0 transversetemporal
- 3182 2270 7302 3.251 0.700 0.120 0.031 35 4.5 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0050776 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 295396
- Total vertex volume 290866 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1599 1049 2946 2.807 0.457 0.141 0.041 35 3.0 bankssts
- 731 724 1960 3.278 0.663 0.219 0.060 17 2.1 caudalanteriorcingulate
- 2997 2658 6246 2.539 0.612 0.157 0.036 39 4.9 caudalmiddlefrontal
- 2227 2078 4048 2.324 0.490 0.181 0.047 36 4.9 cuneus
- 343 534 1401 3.880 0.630 0.226 0.047 4 0.7 entorhinal
- 5274 4592 11546 2.871 0.551 0.169 0.042 100 10.4 fusiform
- 7357 6753 17296 2.865 0.621 0.160 0.037 114 12.8 inferiorparietal
- 5877 5954 15988 3.135 0.694 0.177 0.042 101 11.9 inferiortemporal
- 1530 1362 2922 2.435 1.014 0.184 0.054 47 3.1 isthmuscingulate
- 8432 7252 14807 2.310 0.568 0.159 0.036 123 14.6 lateraloccipital
- 4171 3699 9370 2.904 0.783 0.178 0.047 80 9.6 lateralorbitofrontal
- 4187 3809 7867 2.398 0.608 0.171 0.040 82 8.1 lingual
- 2183 2214 4995 2.662 0.788 0.197 0.053 48 5.4 medialorbitofrontal
- 4644 4942 14584 3.390 0.682 0.177 0.046 78 9.7 middletemporal
- 1004 942 1925 2.436 0.579 0.175 0.045 10 2.3 parahippocampal
- 1915 1706 4301 2.841 0.688 0.164 0.040 26 3.5 paracentral
- 1794 1761 4211 2.719 0.624 0.197 0.048 33 4.3 parsopercularis
- 941 1093 2727 2.967 0.703 0.217 0.055 18 2.8 parsorbitalis
- 1468 1471 3590 2.758 0.692 0.195 0.049 24 3.6 parstriangularis
- 2023 1201 2758 2.169 0.480 0.125 0.046 60 4.3 pericalcarine
- 5932 5484 10926 2.255 0.755 0.155 0.033 61 9.1 postcentral
- 1570 1461 3614 2.803 0.750 0.188 0.047 56 3.2 posteriorcingulate
- 7829 6459 15294 2.531 0.654 0.141 0.031 98 11.1 precentral
- 6182 5794 14150 2.762 0.591 0.179 0.045 135 13.3 precuneus
- 1117 942 2212 2.659 0.769 0.197 0.054 30 2.8 rostralanteriorcingulate
- 7473 8131 17872 2.578 0.748 0.214 0.052 134 19.5 rostralmiddlefrontal
- 10801 10727 27678 2.920 0.723 0.183 0.045 176 22.1 superiorfrontal
- 8332 7349 16424 2.476 0.587 0.161 0.037 133 14.0 superiorparietal
- 6448 6194 17040 3.152 0.667 0.189 0.050 128 16.3 superiortemporal
- 7556 7165 17727 2.808 0.683 0.181 0.046 130 17.1 supramarginal
- 378 578 1448 3.373 0.645 0.256 0.055 8 1.0 frontalpole
- 592 849 2226 3.501 0.772 0.250 0.057 9 1.8 temporalpole
- 669 642 1451 2.820 0.386 0.188 0.063 11 2.1 transversetemporal
- 3182 2291 7302 3.251 0.700 0.189 0.061 87 10.0 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0050776 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 303143
- Total vertex volume 298357 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1509 1049 3075 2.897 0.445 0.110 0.022 16 1.3 bankssts
- 932 661 2564 3.480 0.718 0.149 0.025 19 1.0 caudalanteriorcingulate
- 2649 1879 6294 2.910 0.576 0.128 0.029 33 3.0 caudalmiddlefrontal
- 2325 1604 4761 2.438 0.551 0.162 0.036 47 3.5 cuneus
- 450 300 1674 3.574 0.734 0.139 0.040 6 0.7 entorhinal
- 4380 3024 10120 2.964 0.526 0.135 0.033 76 5.5 fusiform
- 9559 6565 23279 2.910 0.605 0.122 0.024 133 9.7 inferiorparietal
- 5308 3567 13563 2.975 0.775 0.130 0.033 90 7.2 inferiortemporal
- 1619 1056 3390 2.554 0.947 0.127 0.030 30 1.6 isthmuscingulate
- 8016 5379 16002 2.499 0.574 0.137 0.031 126 9.6 lateraloccipital
- 3748 2603 8877 3.038 0.713 0.137 0.034 61 5.0 lateralorbitofrontal
- 4505 3182 9615 2.569 0.656 0.149 0.035 75 6.7 lingual
- 2738 1938 6964 3.115 0.800 0.131 0.035 40 3.9 medialorbitofrontal
- 5784 3915 16229 3.220 0.662 0.120 0.025 89 6.0 middletemporal
- 943 616 1814 2.553 0.635 0.082 0.015 5 0.4 parahippocampal
- 2319 1598 5360 2.957 0.563 0.120 0.023 24 2.0 paracentral
- 1832 1348 4600 2.968 0.586 0.126 0.026 32 2.1 parsopercularis
- 1147 806 3602 3.140 0.657 0.147 0.037 22 1.7 parsorbitalis
- 2139 1521 5162 2.917 0.580 0.135 0.031 34 2.9 parstriangularis
- 2207 1563 3234 2.132 0.572 0.125 0.026 21 2.3 pericalcarine
- 6286 4295 12548 2.495 0.740 0.125 0.026 84 6.8 postcentral
- 1366 921 2773 2.640 0.855 0.135 0.026 27 1.4 posteriorcingulate
- 7406 4833 14798 2.712 0.624 0.105 0.022 68 6.6 precentral
- 6542 4604 14588 2.671 0.647 0.133 0.030 104 8.5 precuneus
- 764 526 1940 3.262 0.725 0.138 0.034 13 1.2 rostralanteriorcingulate
- 8456 5944 20161 2.737 0.653 0.137 0.032 129 11.9 rostralmiddlefrontal
- 9707 6873 25973 3.068 0.679 0.134 0.030 135 11.6 superiorfrontal
- 8099 5580 16185 2.505 0.586 0.129 0.027 120 9.2 superiorparietal
- 5462 3691 13805 3.167 0.592 0.110 0.024 63 5.4 superiortemporal
- 5377 3742 13101 2.904 0.604 0.119 0.023 71 5.3 supramarginal
- 552 394 1676 2.782 0.717 0.167 0.048 14 1.1 frontalpole
- 524 369 2342 3.655 0.780 0.145 0.065 12 1.5 temporalpole
- 514 321 1086 2.789 0.550 0.130 0.032 8 0.6 transversetemporal
- 3104 2176 7162 3.340 0.771 0.124 0.040 43 5.4 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0050776 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 303143
- Total vertex volume 298357 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1509 1120 3075 2.897 0.445 0.160 0.044 26 2.9 bankssts
- 932 905 2564 3.480 0.718 0.190 0.044 30 1.9 caudalanteriorcingulate
- 2649 2368 6294 2.910 0.576 0.162 0.042 63 4.8 caudalmiddlefrontal
- 2325 2335 4761 2.438 0.551 0.186 0.043 40 4.8 cuneus
- 450 616 1674 3.574 0.734 0.213 0.047 10 1.1 entorhinal
- 4380 3736 10120 2.964 0.526 0.159 0.046 93 8.9 fusiform
- 9559 8845 23279 2.910 0.605 0.162 0.035 144 15.8 inferiorparietal
- 5308 5219 13563 2.975 0.775 0.180 0.045 103 11.7 inferiortemporal
- 1619 1515 3390 2.554 0.947 0.175 0.045 26 3.3 isthmuscingulate
- 8016 7338 16002 2.499 0.574 0.164 0.039 121 14.8 lateraloccipital
- 3748 3242 8877 3.038 0.713 0.184 0.049 76 8.7 lateralorbitofrontal
- 4505 4214 9615 2.569 0.656 0.175 0.046 90 9.0 lingual
- 2738 2715 6964 3.115 0.800 0.191 0.049 45 6.4 medialorbitofrontal
- 5784 6001 16229 3.220 0.662 0.173 0.040 96 11.1 middletemporal
- 943 824 1814 2.553 0.635 0.139 0.032 11 1.4 parahippocampal
- 2319 1960 5360 2.957 0.563 0.149 0.040 33 3.8 paracentral
- 1832 1788 4600 2.968 0.586 0.174 0.037 24 3.4 parsopercularis
- 1147 1407 3602 3.140 0.657 0.202 0.045 18 2.5 parsorbitalis
- 2139 2023 5162 2.917 0.580 0.185 0.045 41 4.5 parstriangularis
- 2207 1575 3234 2.132 0.572 0.147 0.038 39 3.8 pericalcarine
- 6286 5717 12548 2.495 0.740 0.162 0.038 72 11.5 postcentral
- 1366 1151 2773 2.640 0.855 0.190 0.052 37 3.4 posteriorcingulate
- 7406 5755 14798 2.712 0.624 0.130 0.030 91 10.2 precentral
- 6542 6070 14588 2.671 0.647 0.170 0.041 101 12.5 precuneus
- 764 710 1940 3.262 0.725 0.206 0.056 19 1.9 rostralanteriorcingulate
- 8456 8523 20161 2.737 0.653 0.188 0.043 148 17.8 rostralmiddlefrontal
- 9707 9771 25973 3.068 0.679 0.179 0.044 163 19.2 superiorfrontal
- 8099 7180 16185 2.505 0.586 0.163 0.040 131 14.7 superiorparietal
- 5462 5110 13805 3.167 0.592 0.186 0.047 117 12.9 superiortemporal
- 5377 5126 13101 2.904 0.604 0.176 0.041 85 10.4 supramarginal
- 552 731 1676 2.782 0.717 0.229 0.039 9 1.2 frontalpole
- 524 814 2342 3.655 0.780 0.239 0.053 7 1.4 temporalpole
- 514 470 1086 2.789 0.550 0.175 0.052 5 1.3 transversetemporal
- 3104 2167 7162 3.340 0.771 0.181 0.057 93 8.3 insula
- PIDs (23924 23927 23930 23933) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 02:29:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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 02:29:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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 24085 of (24085 24088) to complete...
- Waiting for PID 24088 of (24085 24088) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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...
- 45 labels changed using aseg
- relabeling using gibbs priors...
- 000: 8938 changed, 136655 examined...
- 001: 2204 changed, 34773 examined...
- 002: 610 changed, 11435 examined...
- 003: 257 changed, 3487 examined...
- 004: 109 changed, 1429 examined...
- 005: 49 changed, 641 examined...
- 006: 35 changed, 317 examined...
- 007: 16 changed, 193 examined...
- 008: 15 changed, 93 examined...
- 009: 14 changed, 85 examined...
- 010: 4 changed, 73 examined...
- 011: 2 changed, 24 examined...
- 012: 1 changed, 8 examined...
- 013: 0 changed, 6 examined...
- 5 labels changed using aseg
- 000: 253 total segments, 165 labels (1910 vertices) changed
- 001: 96 total segments, 10 labels (40 vertices) changed
- 002: 86 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 41 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 743 vertices marked for relabeling...
- 743 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 19 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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...
- 38 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9046 changed, 136122 examined...
- 001: 2076 changed, 35859 examined...
- 002: 610 changed, 10886 examined...
- 003: 243 changed, 3406 examined...
- 004: 105 changed, 1443 examined...
- 005: 42 changed, 572 examined...
- 006: 24 changed, 263 examined...
- 007: 17 changed, 140 examined...
- 008: 10 changed, 95 examined...
- 009: 4 changed, 58 examined...
- 010: 2 changed, 29 examined...
- 011: 2 changed, 13 examined...
- 012: 0 changed, 8 examined...
- 25 labels changed using aseg
- 000: 269 total segments, 183 labels (2112 vertices) changed
- 001: 98 total segments, 12 labels (44 vertices) changed
- 002: 86 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 39 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 702 vertices marked for relabeling...
- 702 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 19 seconds.
- PIDs (24085 24088) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 02:29:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 02:29:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 rh white
- Waiting for PID 24190 of (24190 24193) to complete...
- Waiting for PID 24193 of (24190 24193) 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 0050776 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 295396
- Total vertex volume 290866 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1231 902 2999 2.725 0.772 0.158 0.041 25 2.3 G&S_frontomargin
- 1959 1314 3742 2.462 0.634 0.141 0.029 31 2.3 G&S_occipital_inf
- 1645 1046 3422 2.489 0.757 0.118 0.032 21 2.2 G&S_paracentral
- 1743 1199 4640 3.032 0.672 0.139 0.032 33 2.1 G&S_subcentral
- 674 501 2188 2.859 0.709 0.159 0.044 14 1.2 G&S_transv_frontopol
- 1869 1349 3961 2.775 0.686 0.139 0.038 39 3.2 G&S_cingul-Ant
- 1036 727 2525 3.098 0.646 0.119 0.025 10 1.0 G&S_cingul-Mid-Ant
- 1171 791 2596 3.137 0.567 0.110 0.021 9 1.0 G&S_cingul-Mid-Post
- 570 396 1783 3.182 0.807 0.154 0.038 12 0.8 G_cingul-Post-dorsal
- 238 162 774 3.237 0.654 0.142 0.040 4 0.2 G_cingul-Post-ventral
- 2062 1437 3870 2.246 0.496 0.174 0.048 51 4.5 G_cuneus
- 1097 801 3379 2.942 0.563 0.137 0.037 19 1.7 G_front_inf-Opercular
- 322 232 1113 3.166 0.499 0.170 0.058 10 0.6 G_front_inf-Orbital
- 786 549 2545 3.102 0.682 0.166 0.058 20 1.9 G_front_inf-Triangul
- 4297 3058 12140 2.686 0.733 0.166 0.047 109 9.6 G_front_middle
- 7275 5162 21991 3.127 0.697 0.149 0.036 126 11.2 G_front_sup
- 627 473 1846 3.505 0.741 0.152 0.049 11 1.4 G_Ins_lg&S_cent_ins
- 719 526 2167 3.229 0.956 0.143 0.051 14 1.8 G_insular_short
- 2353 1571 6419 2.901 0.646 0.150 0.029 52 2.9 G_occipital_middle
- 1466 986 2747 2.356 0.505 0.142 0.031 24 1.8 G_occipital_sup
- 2331 1544 6009 2.959 0.461 0.135 0.033 55 2.9 G_oc-temp_lat-fusifor
- 2898 2021 5975 2.376 0.660 0.165 0.044 71 5.3 G_oc-temp_med-Lingual
- 1036 705 2842 2.966 0.797 0.107 0.022 10 0.9 G_oc-temp_med-Parahip
- 2411 1670 6555 2.871 0.869 0.152 0.047 42 4.6 G_orbital
- 3069 2016 9193 3.149 0.719 0.138 0.029 63 3.9 G_pariet_inf-Angular
- 3740 2602 10239 2.915 0.705 0.141 0.033 75 5.2 G_pariet_inf-Supramar
- 3214 2224 8154 2.696 0.621 0.137 0.029 62 3.6 G_parietal_sup
- 2212 1461 4565 2.330 0.686 0.133 0.035 38 2.8 G_postcentral
- 2804 1860 6637 2.692 0.636 0.126 0.026 40 3.0 G_precentral
- 3232 2270 9456 2.915 0.660 0.158 0.041 80 5.8 G_precuneus
- 802 557 2261 2.804 0.888 0.169 0.057 23 1.7 G_rectus
- 135 97 370 3.088 0.888 0.046 0.026 0 0.0 G_subcallosal
- 503 299 1242 2.901 0.391 0.122 0.054 8 0.9 G_temp_sup-G_T_transv
- 2044 1393 8005 3.576 0.631 0.153 0.038 44 3.0 G_temp_sup-Lateral
- 769 541 2147 3.347 0.794 0.076 0.018 3 0.6 G_temp_sup-Plan_polar
- 1576 1113 3997 2.810 0.697 0.120 0.026 25 1.9 G_temp_sup-Plan_tempo
- 3451 2360 11010 3.197 0.758 0.144 0.039 73 5.2 G_temporal_inf
- 2343 1639 9355 3.591 0.723 0.156 0.040 60 4.0 G_temporal_middle
- 232 158 370 2.396 0.478 0.103 0.015 1 0.1 Lat_Fis-ant-Horizont
- 315 225 431 1.911 0.495 0.088 0.011 1 0.1 Lat_Fis-ant-Vertical
- 1376 935 2082 2.707 0.562 0.118 0.022 13 1.2 Lat_Fis-post
- 2285 1546 3576 2.064 0.508 0.153 0.034 44 3.0 Pole_occipital
- 1634 1138 5894 3.476 0.776 0.151 0.049 32 3.1 Pole_temporal
- 2354 1663 3415 2.375 0.553 0.131 0.030 32 3.2 S_calcarine
- 3108 2160 3810 1.943 0.545 0.106 0.017 21 2.3 S_central
- 1204 852 1894 2.424 0.513 0.113 0.019 10 1.1 S_cingul-Marginalis
- 472 331 918 3.310 0.534 0.094 0.019 2 0.3 S_circular_insula_ant
- 1224 829 2111 3.061 0.578 0.084 0.013 4 0.7 S_circular_insula_inf
- 1593 1107 2611 2.883 0.465 0.092 0.013 7 1.0 S_circular_insula_sup
- 918 655 1673 3.003 0.619 0.122 0.026 9 1.0 S_collat_transv_ant
- 515 351 659 2.010 0.376 0.119 0.016 4 0.3 S_collat_transv_post
- 1570 1102 2846 2.360 0.565 0.108 0.020 12 1.3 S_front_inf
- 1190 841 1829 2.258 0.662 0.140 0.038 20 2.1 S_front_middle
- 3286 2279 5961 2.434 0.599 0.115 0.023 37 2.8 S_front_sup
- 439 313 739 2.865 0.505 0.131 0.028 4 0.5 S_interm_prim-Jensen
- 3439 2345 4862 2.315 0.469 0.109 0.017 28 2.4 S_intrapariet&P_trans
- 1375 919 1822 2.298 0.445 0.114 0.021 10 1.2 S_oc_middle&Lunatus
- 1450 983 2159 2.365 0.381 0.103 0.016 10 0.9 S_oc_sup&transversal
- 737 499 1178 2.587 0.394 0.122 0.024 8 0.7 S_occipital_ant
- 1259 862 2032 2.691 0.446 0.099 0.016 9 0.8 S_oc-temp_lat
- 2264 1619 3560 2.515 0.501 0.103 0.017 15 1.7 S_oc-temp_med&Lingual
- 370 261 798 2.415 0.763 0.135 0.029 4 0.5 S_orbital_lateral
- 615 478 1039 2.589 0.625 0.123 0.023 5 0.4 S_orbital_med-olfact
- 1699 1158 3650 3.021 0.704 0.128 0.028 20 1.9 S_orbital-H_Shaped
- 2119 1452 3618 2.677 0.429 0.114 0.021 21 1.9 S_parieto_occipital
- 1436 875 1431 1.971 0.859 0.109 0.020 19 1.0 S_pericallosal
- 2531 1713 3674 2.282 0.537 0.103 0.017 15 1.9 S_postcentral
- 1560 1087 2605 2.420 0.597 0.102 0.017 10 1.0 S_precentral-inf-part
- 1724 1169 2562 2.414 0.474 0.088 0.011 6 0.9 S_precentral-sup-part
- 676 470 1156 2.671 0.591 0.127 0.015 8 0.5 S_suborbital
- 1233 861 2379 2.660 0.545 0.120 0.022 11 1.2 S_subparietal
- 1797 1244 3489 3.050 0.465 0.113 0.020 13 1.5 S_temporal_inf
- 6645 4556 12551 2.862 0.488 0.109 0.020 67 5.8 S_temporal_sup
- 417 290 630 2.540 0.292 0.110 0.014 2 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 0050776 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 303143
- Total vertex volume 298357 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1123 789 2176 2.419 0.660 0.133 0.031 17 1.5 G&S_frontomargin
- 1806 1197 4512 2.826 0.601 0.129 0.028 28 1.9 G&S_occipital_inf
- 1556 1060 3668 2.755 0.624 0.131 0.031 22 1.8 G&S_paracentral
- 1344 939 3564 3.074 0.527 0.125 0.023 19 1.3 G&S_subcentral
- 1387 995 3817 2.715 0.677 0.151 0.043 30 2.4 G&S_transv_frontopol
- 2702 1906 6406 3.210 0.599 0.129 0.028 33 3.1 G&S_cingul-Ant
- 1234 897 3076 3.018 0.632 0.132 0.025 16 1.2 G&S_cingul-Mid-Ant
- 1441 961 3218 3.011 0.650 0.127 0.027 17 1.4 G&S_cingul-Mid-Post
- 521 340 1660 3.148 0.939 0.167 0.055 19 1.1 G_cingul-Post-dorsal
- 378 245 1185 3.140 0.608 0.150 0.038 10 0.4 G_cingul-Post-ventral
- 2160 1529 4745 2.441 0.591 0.169 0.039 46 3.6 G_cuneus
- 1292 939 3751 3.027 0.604 0.144 0.034 32 1.9 G_front_inf-Opercular
- 429 303 1731 3.563 0.522 0.155 0.040 10 0.7 G_front_inf-Orbital
- 963 665 2663 3.078 0.400 0.159 0.044 24 1.9 G_front_inf-Triangul
- 3441 2493 11191 3.062 0.690 0.162 0.043 73 6.6 G_front_middle
- 6432 4556 19981 3.252 0.653 0.144 0.033 108 8.6 G_front_sup
- 646 467 1646 3.259 0.980 0.162 0.075 19 2.2 G_Ins_lg&S_cent_ins
- 687 459 2138 3.742 0.720 0.137 0.052 13 1.5 G_insular_short
- 3004 1982 7665 2.795 0.584 0.144 0.033 62 4.3 G_occipital_middle
- 1364 895 2694 2.378 0.489 0.136 0.028 22 1.4 G_occipital_sup
- 1845 1208 4837 3.051 0.479 0.138 0.032 41 2.3 G_oc-temp_lat-fusifor
- 2662 1904 6826 2.677 0.660 0.164 0.041 56 4.7 G_oc-temp_med-Lingual
- 1035 681 3098 3.161 0.853 0.119 0.029 12 0.9 G_oc-temp_med-Parahip
- 2598 1818 7813 3.055 0.765 0.157 0.044 64 4.2 G_orbital
- 3280 2282 10993 3.215 0.659 0.146 0.035 72 4.7 G_pariet_inf-Angular
- 2767 1915 8299 3.138 0.644 0.133 0.027 53 3.3 G_pariet_inf-Supramar
- 2479 1780 7109 2.765 0.649 0.153 0.037 61 4.1 G_parietal_sup
- 2157 1417 5084 2.653 0.712 0.141 0.035 39 2.8 G_postcentral
- 2706 1705 7394 3.040 0.639 0.116 0.030 38 3.3 G_precentral
- 3016 2159 9004 2.931 0.677 0.154 0.040 74 5.3 G_precuneus
- 922 643 2518 2.691 0.858 0.155 0.059 20 2.2 G_rectus
- 180 120 465 3.771 0.610 0.100 0.026 1 0.1 G_subcallosal
- 384 227 910 2.722 0.591 0.133 0.036 8 0.5 G_temp_sup-G_T_transv
- 1808 1207 5831 3.317 0.629 0.134 0.037 36 2.6 G_temp_sup-Lateral
- 843 574 2258 3.452 0.777 0.091 0.027 6 0.9 G_temp_sup-Plan_polar
- 857 606 2043 2.916 0.434 0.084 0.012 4 0.4 G_temp_sup-Plan_tempo
- 3063 2039 9432 3.100 0.853 0.147 0.045 74 5.5 G_temporal_inf
- 3607 2375 11801 3.389 0.656 0.132 0.030 77 4.4 G_temporal_middle
- 315 224 441 2.302 0.497 0.104 0.016 1 0.2 Lat_Fis-ant-Horizont
- 245 184 454 2.801 0.551 0.098 0.012 1 0.1 Lat_Fis-ant-Vertical
- 1377 930 2162 2.846 0.360 0.097 0.016 7 0.8 Lat_Fis-post
- 3352 2323 5520 2.087 0.538 0.153 0.037 62 4.9 Pole_occipital
- 1612 1143 6602 3.481 0.806 0.160 0.058 39 3.7 Pole_temporal
- 2515 1749 4049 2.514 0.607 0.115 0.024 22 2.5 S_calcarine
- 3184 2175 4003 2.052 0.485 0.096 0.016 17 2.1 S_central
- 1285 910 2298 2.608 0.525 0.105 0.018 8 1.0 S_cingul-Marginalis
- 612 405 1237 3.504 0.604 0.098 0.020 3 0.5 S_circular_insula_ant
- 1015 705 1822 3.255 0.573 0.087 0.015 4 0.7 S_circular_insula_inf
- 1381 944 2352 2.931 0.479 0.096 0.015 5 1.0 S_circular_insula_sup
- 870 634 1675 2.998 0.389 0.114 0.025 7 0.8 S_collat_transv_ant
- 518 347 689 2.327 0.399 0.111 0.022 4 0.5 S_collat_transv_post
- 1978 1380 3554 2.614 0.499 0.115 0.019 16 1.6 S_front_inf
- 2279 1593 4685 2.651 0.523 0.123 0.028 25 2.8 S_front_middle
- 2353 1659 4213 2.612 0.483 0.107 0.020 17 1.7 S_front_sup
- 420 296 652 2.594 0.370 0.108 0.013 2 0.3 S_interm_prim-Jensen
- 3753 2589 5664 2.426 0.527 0.113 0.018 29 3.0 S_intrapariet&P_trans
- 846 580 1134 2.221 0.407 0.124 0.025 6 0.9 S_oc_middle&Lunatus
- 1570 1072 2352 2.492 0.448 0.101 0.016 8 1.0 S_oc_sup&transversal
- 970 666 1498 2.740 0.461 0.131 0.026 9 1.1 S_occipital_ant
- 1145 785 2020 2.837 0.432 0.103 0.016 7 0.8 S_oc-temp_lat
- 1925 1339 3064 2.609 0.533 0.113 0.020 17 1.7 S_oc-temp_med&Lingual
- 413 287 723 2.794 0.536 0.110 0.019 3 0.3 S_orbital_lateral
- 670 504 1235 2.640 0.544 0.109 0.016 5 0.3 S_orbital_med-olfact
- 1456 1014 3057 3.038 0.622 0.122 0.028 14 1.8 S_orbital-H_Shaped
- 2372 1587 3549 2.413 0.496 0.120 0.022 26 2.3 S_parieto_occipital
- 1455 893 1697 2.416 1.192 0.123 0.019 25 0.8 S_pericallosal
- 2434 1721 3832 2.443 0.505 0.120 0.024 25 2.6 S_postcentral
- 1273 891 2402 2.759 0.510 0.089 0.013 5 0.6 S_precentral-inf-part
- 1665 1107 2475 2.526 0.444 0.102 0.016 10 1.2 S_precentral-sup-part
- 312 232 741 3.435 0.757 0.128 0.015 2 0.2 S_suborbital
- 1349 950 2350 2.452 0.500 0.109 0.020 9 0.9 S_subparietal
- 1664 1139 2668 2.690 0.455 0.102 0.012 10 1.0 S_temporal_inf
- 7302 5006 13872 2.844 0.476 0.101 0.018 55 5.3 S_temporal_sup
- 285 206 415 2.586 0.379 0.125 0.014 2 0.2 S_temporal_transverse
- PIDs (24190 24193) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 02:30:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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 02:30:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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 24343 of (24343 24346) to complete...
- Waiting for PID 24346 of (24343 24346) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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...
- 1014 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2013 changed, 136655 examined...
- 001: 447 changed, 9301 examined...
- 002: 130 changed, 2546 examined...
- 003: 53 changed, 763 examined...
- 004: 30 changed, 293 examined...
- 005: 14 changed, 183 examined...
- 006: 7 changed, 92 examined...
- 007: 10 changed, 46 examined...
- 008: 8 changed, 49 examined...
- 009: 6 changed, 53 examined...
- 010: 5 changed, 33 examined...
- 011: 6 changed, 22 examined...
- 012: 4 changed, 24 examined...
- 013: 1 changed, 20 examined...
- 014: 1 changed, 7 examined...
- 015: 1 changed, 7 examined...
- 016: 0 changed, 7 examined...
- 212 labels changed using aseg
- 000: 65 total segments, 32 labels (337 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 5 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 551 vertices marked for relabeling...
- 551 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 15 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050776 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...
- 1120 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1957 changed, 136122 examined...
- 001: 426 changed, 9037 examined...
- 002: 133 changed, 2401 examined...
- 003: 52 changed, 797 examined...
- 004: 31 changed, 307 examined...
- 005: 14 changed, 175 examined...
- 006: 8 changed, 82 examined...
- 007: 5 changed, 55 examined...
- 008: 5 changed, 30 examined...
- 009: 7 changed, 29 examined...
- 010: 5 changed, 33 examined...
- 011: 6 changed, 28 examined...
- 012: 7 changed, 31 examined...
- 013: 4 changed, 39 examined...
- 014: 4 changed, 24 examined...
- 015: 3 changed, 22 examined...
- 016: 3 changed, 19 examined...
- 017: 3 changed, 19 examined...
- 018: 3 changed, 17 examined...
- 019: 1 changed, 13 examined...
- 020: 1 changed, 6 examined...
- 021: 1 changed, 7 examined...
- 022: 3 changed, 7 examined...
- 023: 1 changed, 14 examined...
- 024: 1 changed, 7 examined...
- 025: 2 changed, 7 examined...
- 026: 1 changed, 12 examined...
- 027: 0 changed, 7 examined...
- 214 labels changed using aseg
- 000: 60 total segments, 27 labels (130 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 9 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 508 vertices marked for relabeling...
- 508 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 15 seconds.
- PIDs (24343 24346) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 02:30:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 02:30:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 rh white
- Waiting for PID 24457 of (24457 24460) to complete...
- Waiting for PID 24460 of (24457 24460) 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 0050776 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 295396
- Total vertex volume 290866 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1225 837 2926 3.238 0.590 0.116 0.021 13 1.0 caudalanteriorcingulate
- 3257 2259 6733 2.515 0.608 0.114 0.022 37 3.0 caudalmiddlefrontal
- 3012 2107 5533 2.394 0.485 0.156 0.039 64 5.0 cuneus
- 317 242 1327 3.832 0.652 0.140 0.028 5 0.3 entorhinal
- 4711 3221 10074 2.845 0.514 0.124 0.027 76 5.0 fusiform
- 7418 5080 17685 2.892 0.632 0.123 0.024 105 7.9 inferiorparietal
- 5967 4076 15934 3.113 0.702 0.133 0.035 95 8.2 inferiortemporal
- 1501 990 2939 2.492 1.016 0.131 0.029 26 1.7 isthmuscingulate
- 8433 5600 14898 2.322 0.570 0.139 0.028 134 9.7 lateraloccipital
- 4415 3063 10494 2.938 0.806 0.142 0.039 66 6.9 lateralorbitofrontal
- 4320 3063 8030 2.373 0.607 0.145 0.034 81 6.3 lingual
- 1833 1310 4390 2.759 0.812 0.143 0.037 35 2.6 medialorbitofrontal
- 6376 4416 18230 3.277 0.664 0.133 0.030 109 7.8 middletemporal
- 1040 697 2019 2.444 0.588 0.082 0.014 6 0.6 parahippocampal
- 2386 1627 5456 2.848 0.670 0.123 0.025 23 2.4 paracentral
- 1758 1244 4078 2.750 0.577 0.123 0.030 22 2.4 parsopercularis
- 940 647 2336 2.880 0.639 0.130 0.037 13 1.2 parsorbitalis
- 1704 1200 4131 2.698 0.737 0.126 0.031 25 2.1 parstriangularis
- 2011 1397 2720 2.167 0.468 0.128 0.032 22 2.7 pericalcarine
- 6686 4533 12311 2.281 0.752 0.119 0.026 85 6.7 postcentral
- 1752 1230 3836 2.778 0.792 0.131 0.026 27 1.8 posteriorcingulate
- 7695 5161 15152 2.555 0.654 0.115 0.023 84 7.4 precentral
- 6046 4208 14060 2.754 0.605 0.135 0.030 99 8.0 precuneus
- 1364 947 2671 2.632 0.752 0.138 0.043 33 2.6 rostralanteriorcingulate
- 4967 3540 11961 2.577 0.749 0.154 0.044 108 9.7 rostralmiddlefrontal
- 12334 8751 31813 2.845 0.750 0.143 0.034 202 18.3 superiorfrontal
- 6815 4659 13300 2.453 0.592 0.125 0.024 95 6.5 superiorparietal
- 8177 5580 21479 3.128 0.687 0.118 0.025 102 8.4 superiortemporal
- 7009 4840 16464 2.802 0.674 0.132 0.030 116 8.8 supramarginal
- 647 417 1416 2.816 0.386 0.123 0.045 9 0.9 transversetemporal
- 2655 1940 6471 3.288 0.702 0.119 0.031 29 3.8 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 0050776 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 303143
- Total vertex volume 298357 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1082 773 3047 3.413 0.740 0.150 0.026 23 1.1 caudalanteriorcingulate
- 2787 1956 6559 2.912 0.566 0.127 0.029 35 3.2 caudalmiddlefrontal
- 2844 1939 5645 2.409 0.564 0.155 0.034 51 4.1 cuneus
- 430 285 1533 3.610 0.718 0.138 0.038 6 0.6 entorhinal
- 4015 2744 8960 2.964 0.508 0.131 0.029 65 4.9 fusiform
- 9468 6491 23177 2.915 0.614 0.122 0.025 132 9.8 inferiorparietal
- 5688 3859 14999 2.979 0.764 0.133 0.036 101 7.8 inferiortemporal
- 1592 1045 3311 2.560 0.940 0.125 0.030 27 1.5 isthmuscingulate
- 7979 5357 15757 2.476 0.572 0.138 0.031 126 9.7 lateraloccipital
- 4228 2963 10231 2.989 0.743 0.142 0.037 75 6.1 lateralorbitofrontal
- 4414 3118 9430 2.562 0.648 0.149 0.035 74 6.6 lingual
- 2101 1501 5569 3.038 0.837 0.132 0.037 33 3.3 medialorbitofrontal
- 7177 4852 19012 3.155 0.642 0.120 0.025 105 7.2 middletemporal
- 974 638 1869 2.552 0.629 0.083 0.015 5 0.4 parahippocampal
- 2506 1712 5755 2.954 0.582 0.121 0.023 26 2.2 paracentral
- 2007 1481 5153 2.991 0.578 0.128 0.026 35 2.3 parsopercularis
- 945 658 2796 3.089 0.707 0.133 0.031 14 1.2 parsorbitalis
- 2205 1555 5275 2.903 0.566 0.137 0.032 36 3.2 parstriangularis
- 2174 1537 3222 2.145 0.584 0.127 0.026 22 2.3 pericalcarine
- 6919 4731 13850 2.517 0.736 0.127 0.027 92 7.6 postcentral
- 1565 1041 3546 2.754 0.869 0.138 0.029 33 1.8 posteriorcingulate
- 7050 4616 14280 2.709 0.627 0.106 0.022 66 6.4 precentral
- 6743 4748 15266 2.693 0.637 0.132 0.030 108 8.5 precuneus
- 960 659 2274 3.187 0.754 0.131 0.030 14 1.3 rostralanteriorcingulate
- 5919 4138 14569 2.800 0.654 0.141 0.034 92 8.8 rostralmiddlefrontal
- 12511 8870 32038 2.987 0.688 0.133 0.030 173 14.9 superiorfrontal
- 6651 4618 13217 2.477 0.585 0.127 0.026 100 7.4 superiorparietal
- 6834 4653 17724 3.177 0.627 0.114 0.028 85 8.0 superiortemporal
- 5115 3562 12381 2.895 0.590 0.117 0.022 66 5.0 supramarginal
- 494 309 1055 2.782 0.552 0.125 0.032 7 0.6 transversetemporal
- 2912 2040 6857 3.376 0.738 0.120 0.038 38 4.8 insula
- PIDs (24457 24460) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 02:31:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- pctsurfcon --s 0050776 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 02:31:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts
- pctsurfcon --s 0050776 --rh-only
- Waiting for PID 24579 of (24579 24591) to complete...
- Waiting for PID 24591 of (24579 24591) to complete...
- pctsurfcon --s 0050776 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts/pctsurfcon.log
- Sun Oct 8 02:31:01 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-6.0.0/0050776/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-565 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-6.0.0/0050776/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24579/lh.wm.mgh --regheader 0050776 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 = 73702
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24579/lh.wm.mgh
- Dim: 136655 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24579/lh.gm.mgh --projfrac 0.3 --regheader 0050776 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 = 92389
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24579/lh.gm.mgh
- Dim: 136655 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24579/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24579/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.w-g.pct.mgh --annot 0050776 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/lh.w-g.pct.mgh --annot 0050776 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-565
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/lh.w-g.pct.mgh
- Vertex Area is 0.687155 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 0050776 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/scripts/pctsurfcon.log
- Sun Oct 8 02:31:01 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-6.0.0/0050776/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-565 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-6.0.0/0050776/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24591/rh.wm.mgh --regheader 0050776 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 = 73955
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24591/rh.wm.mgh
- Dim: 136122 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24591/rh.gm.mgh --projfrac 0.3 --regheader 0050776 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 = 91794
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24591/rh.gm.mgh
- Dim: 136122 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24591/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/tmp.pctsurfcon.24591/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.w-g.pct.mgh --annot 0050776 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/rh.w-g.pct.mgh --annot 0050776 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-565
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/rh.w-g.pct.mgh
- Vertex Area is 0.686278 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 (24579 24591) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 02:31:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 392 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 470 voxels changed to hypointensity...
- 932 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 02:31:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776
- mri_aparc2aseg --s 0050776 --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 02:31:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776
- mri_aparc2aseg --s 0050776 --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 02:31:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776
- mri_aparc2aseg --s 0050776 --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 24820 of (24820 24823 24826) to complete...
- Waiting for PID 24823 of (24820 24823 24826) to complete...
- Waiting for PID 24826 of (24820 24823 24826) to complete...
- mri_aparc2aseg --s 0050776 --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 0050776
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/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-6.0.0/0050776/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 5.97
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 87
- rescaling Left_Cerebellum_Cortex from 60 --> 52
- rescaling Left_Thalamus from 94 --> 82
- rescaling Left_Thalamus_Proper from 84 --> 82
- rescaling Left_Caudate from 75 --> 63
- rescaling Left_Putamen from 80 --> 66
- rescaling Left_Pallidum from 98 --> 80
- rescaling Third_Ventricle from 25 --> 5
- rescaling Fourth_Ventricle from 22 --> 5
- rescaling Brain_Stem from 81 --> 82
- rescaling Left_Hippocampus from 57 --> 53
- rescaling Left_Amygdala from 56 --> 51
- rescaling CSF from 32 --> 7
- rescaling Left_Accumbens_area from 62 --> 50
- rescaling Left_VentralDC from 87 --> 86
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 48
- rescaling Right_Lateral_Ventricle from 13 --> 2
- rescaling Right_Inf_Lat_Vent from 25 --> 21
- rescaling Right_Cerebellum_White_Matter from 87 --> 88
- rescaling Right_Cerebellum_Cortex from 59 --> 51
- rescaling Right_Thalamus_Proper from 85 --> 79
- rescaling Right_Caudate from 62 --> 59
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 81
- rescaling Right_Hippocampus from 53 --> 50
- rescaling Right_Amygdala from 55 --> 51
- rescaling Right_Accumbens_area from 65 --> 58
- rescaling Right_VentralDC from 86 --> 87
- rescaling Fifth_Ventricle from 40 --> 7
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 44
- 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 = 584441
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 130 changed.
- pass 2: 8 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0050776 --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 0050776
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/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-6.0.0/0050776/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 5.97
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 87
- rescaling Left_Cerebellum_Cortex from 60 --> 52
- rescaling Left_Thalamus from 94 --> 82
- rescaling Left_Thalamus_Proper from 84 --> 82
- rescaling Left_Caudate from 75 --> 63
- rescaling Left_Putamen from 80 --> 66
- rescaling Left_Pallidum from 98 --> 80
- rescaling Third_Ventricle from 25 --> 5
- rescaling Fourth_Ventricle from 22 --> 5
- rescaling Brain_Stem from 81 --> 82
- rescaling Left_Hippocampus from 57 --> 53
- rescaling Left_Amygdala from 56 --> 51
- rescaling CSF from 32 --> 7
- rescaling Left_Accumbens_area from 62 --> 50
- rescaling Left_VentralDC from 87 --> 86
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 48
- rescaling Right_Lateral_Ventricle from 13 --> 2
- rescaling Right_Inf_Lat_Vent from 25 --> 21
- rescaling Right_Cerebellum_White_Matter from 87 --> 88
- rescaling Right_Cerebellum_Cortex from 59 --> 51
- rescaling Right_Thalamus_Proper from 85 --> 79
- rescaling Right_Caudate from 62 --> 59
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 81
- rescaling Right_Hippocampus from 53 --> 50
- rescaling Right_Amygdala from 55 --> 51
- rescaling Right_Accumbens_area from 65 --> 58
- rescaling Right_VentralDC from 86 --> 87
- rescaling Fifth_Ventricle from 40 --> 7
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 44
- 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 = 584447
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 130 changed.
- pass 2: 8 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0050776 --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 0050776
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/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-6.0.0/0050776/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 5.97
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 87
- rescaling Left_Cerebellum_Cortex from 60 --> 52
- rescaling Left_Thalamus from 94 --> 82
- rescaling Left_Thalamus_Proper from 84 --> 82
- rescaling Left_Caudate from 75 --> 63
- rescaling Left_Putamen from 80 --> 66
- rescaling Left_Pallidum from 98 --> 80
- rescaling Third_Ventricle from 25 --> 5
- rescaling Fourth_Ventricle from 22 --> 5
- rescaling Brain_Stem from 81 --> 82
- rescaling Left_Hippocampus from 57 --> 53
- rescaling Left_Amygdala from 56 --> 51
- rescaling CSF from 32 --> 7
- rescaling Left_Accumbens_area from 62 --> 50
- rescaling Left_VentralDC from 87 --> 86
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 48
- rescaling Right_Lateral_Ventricle from 13 --> 2
- rescaling Right_Inf_Lat_Vent from 25 --> 21
- rescaling Right_Cerebellum_White_Matter from 87 --> 88
- rescaling Right_Cerebellum_Cortex from 59 --> 51
- rescaling Right_Thalamus_Proper from 85 --> 79
- rescaling Right_Caudate from 62 --> 59
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 81
- rescaling Right_Hippocampus from 53 --> 50
- rescaling Right_Amygdala from 55 --> 51
- rescaling Right_Accumbens_area from 65 --> 58
- rescaling Right_VentralDC from 86 --> 87
- rescaling Fifth_Ventricle from 40 --> 7
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 44
- 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 = 584447
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 130 changed.
- pass 2: 8 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (24820 24823 24826) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 02:38:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 02:38:43 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-6.0.0/0050776/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-565 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-6.0.0/0050776/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-565
- 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 02:38:43 CEST 2017
- Ended at Sun Oct 8 02:38:49 CEST 2017
- Apas2aseg-Run-Time-Sec 6
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 02:38:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776
- 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 0050776
- $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 0050776
- sysname Linux
- hostname tars-565
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1414246 mm^3 (det: 1.377487 )
- Computing euler number
- orig.nofix lheno = -78, rheno = -62
- orig.nofix lhholes = 40, rhholes = 32
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 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 02:40:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776
- mri_aparc2aseg --s 0050776 --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 0050776
- 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-6.0.0/0050776/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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-6.0.0/0050776/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 7897 vertices from left hemi
- Ripped 7854 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-6.0.0/0050776/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 = 953958
- Used brute-force search on 577 voxels
- Fixing Parahip LH WM
- Found 4 clusters
- 0 k 2.000000
- 1 k 1.000000
- 2 k 1.000000
- 3 k 1232.000000
- Fixing Parahip RH WM
- Found 6 clusters
- 0 k 1221.000000
- 1 k 4.000000
- 2 k 3.000000
- 3 k 2.000000
- 4 k 1.000000
- 5 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 0050776 --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 0050776 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-565
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1414246 mm^3 (det: 1.377487 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 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-6.0.0/0050776/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 02:49:11 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 27736 of (27736 27742 27748 27753 27760) to complete...
- Waiting for PID 27742 of (27736 27742 27748 27753 27760) to complete...
- Waiting for PID 27748 of (27736 27742 27748 27753 27760) to complete...
- Waiting for PID 27753 of (27736 27742 27748 27753 27760) to complete...
- Waiting for PID 27760 of (27736 27742 27748 27753 27760) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 276
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4405
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 351
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8260
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 119
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4196
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 289
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6272
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 348
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6132
- mri_label2label: Done
- PIDs (27736 27742 27748 27753 27760) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 27840 of (27840 27846 27852 27857) to complete...
- Waiting for PID 27846 of (27840 27846 27852 27857) to complete...
- Waiting for PID 27852 of (27840 27846 27852 27857) to complete...
- Waiting for PID 27857 of (27840 27846 27852 27857) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 143
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4213
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 1294
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 14883
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 190
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4371
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 236
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 3658
- mri_label2label: Done
- PIDs (27840 27846 27852 27857) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 27911 of (27911 27917 27923 27929 27933) to complete...
- Waiting for PID 27917 of (27911 27917 27923 27929 27933) to complete...
- Waiting for PID 27923 of (27911 27917 27923 27929 27933) to complete...
- Waiting for PID 27929 of (27911 27917 27923 27929 27933) to complete...
- Waiting for PID 27933 of (27911 27917 27923 27929 27933) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 1266
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5907
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 2822
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 10936
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 462
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2480
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 54
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1344
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 49
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1248
- mri_label2label: Done
- PIDs (27911 27917 27923 27929 27933) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 28002 of (28002 28008 28014 28020 28026) to complete...
- Waiting for PID 28008 of (28002 28008 28014 28020 28026) to complete...
- Waiting for PID 28014 of (28002 28008 28014 28020 28026) to complete...
- Waiting for PID 28020 of (28002 28008 28014 28020 28026) to complete...
- Waiting for PID 28026 of (28002 28008 28014 28020 28026) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 84
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1098
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 86
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2178
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 55
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1559
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 90
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2086
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 116
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2435
- mri_label2label: Done
- PIDs (28002 28008 28014 28020 28026) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 28102 of (28102 28108 28114 28119) to complete...
- Waiting for PID 28108 of (28102 28108 28114 28119) to complete...
- Waiting for PID 28114 of (28102 28108 28114 28119) to complete...
- Waiting for PID 28119 of (28102 28108 28114 28119) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 58
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1607
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 644
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7679
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 54
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 1966
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 88
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1239
- mri_label2label: Done
- PIDs (28102 28108 28114 28119) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 28219 of (28219 28225 28231 28237 28242) to complete...
- Waiting for PID 28225 of (28219 28225 28231 28237 28242) to complete...
- Waiting for PID 28231 of (28219 28225 28231 28237 28242) to complete...
- Waiting for PID 28237 of (28219 28225 28231 28237 28242) to complete...
- Waiting for PID 28242 of (28219 28225 28231 28237 28242) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 899
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4304
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 1282
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4616
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 80
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 593
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 12
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 482
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136655
- Number of reverse mapping hits = 6
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 456
- mri_label2label: Done
- PIDs (28219 28225 28231 28237 28242) completed and logs appended.
- mris_label2annot --s 0050776 --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-6.0.0/0050776/label
- cmdline mris_label2annot --s 0050776 --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-565
- machine x86_64
- user ntraut
- subject 0050776
- 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-6.0.0/0050776/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 96816 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/lh.BA_exvivo.annot
- mris_label2annot --s 0050776 --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-6.0.0/0050776/label
- cmdline mris_label2annot --s 0050776 --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-565
- machine x86_64
- user ntraut
- subject 0050776
- 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-6.0.0/0050776/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 113220 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 295396
- Total vertex volume 290866 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 1125 715 2544 2.417 0.770 0.147 0.041 23 1.7 BA1_exvivo
- 3419 2304 6440 2.476 0.619 0.113 0.021 35 2.9 BA2_exvivo
- 1068 715 1099 1.778 0.459 0.123 0.025 9 1.0 BA3a_exvivo
- 2327 1620 4206 2.087 0.848 0.116 0.025 28 2.3 BA3b_exvivo
- 1507 1007 3792 2.887 0.635 0.116 0.027 17 1.8 BA4a_exvivo
- 1238 839 2070 2.463 0.535 0.101 0.016 8 0.9 BA4p_exvivo
- 10018 6978 23544 2.723 0.713 0.125 0.026 121 11.4 BA6_exvivo
- 1906 1350 4638 2.771 0.592 0.125 0.030 28 2.1 BA44_exvivo
- 2149 1555 5517 2.661 0.742 0.138 0.034 34 3.3 BA45_exvivo
- 3479 2503 5300 2.090 0.481 0.146 0.039 58 5.9 V1_exvivo
- 8377 5714 14612 2.287 0.576 0.155 0.035 165 12.6 V2_exvivo
- 2130 1403 4088 2.650 0.540 0.120 0.021 27 1.8 MT_exvivo
- 506 333 1461 3.220 0.862 0.128 0.033 9 0.8 perirhinal_exvivo
- 590 428 1305 2.895 0.907 0.118 0.039 7 0.9 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 0050776 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 295396
- Total vertex volume 290866 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 682 443 1439 2.353 0.590 0.155 0.045 14 1.1 BA1_exvivo
- 1376 925 2613 2.406 0.563 0.110 0.020 14 1.1 BA2_exvivo
- 912 604 819 1.683 0.357 0.126 0.026 8 0.9 BA3a_exvivo
- 1419 1007 1804 1.672 0.486 0.102 0.018 11 1.0 BA3b_exvivo
- 1448 969 3330 2.789 0.635 0.101 0.023 12 1.6 BA4a_exvivo
- 1039 716 1627 2.338 0.437 0.110 0.017 9 0.8 BA4p_exvivo
- 5655 3862 12817 2.678 0.694 0.119 0.024 62 5.7 BA6_exvivo
- 1158 828 2858 2.753 0.534 0.129 0.034 19 1.5 BA44_exvivo
- 832 610 2614 2.862 0.759 0.156 0.047 16 1.7 BA45_exvivo
- 3701 2666 5710 2.093 0.471 0.150 0.041 67 6.7 V1_exvivo
- 4205 2865 7489 2.292 0.600 0.164 0.039 91 7.0 V2_exvivo
- 504 346 1157 2.896 0.593 0.125 0.024 6 0.5 MT_exvivo
- 232 159 856 3.509 0.753 0.109 0.017 2 0.2 perirhinal_exvivo
- 272 205 708 3.090 0.891 0.100 0.027 2 0.2 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 02:52:09 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 28427 of (28427 28433 28439 28445 28450) to complete...
- Waiting for PID 28433 of (28427 28433 28439 28445 28450) to complete...
- Waiting for PID 28439 of (28427 28433 28439 28445 28450) to complete...
- Waiting for PID 28445 of (28427 28433 28439 28445 28450) to complete...
- Waiting for PID 28450 of (28427 28433 28439 28445 28450) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 278
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4240
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 337
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7024
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 125
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4105
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 265
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4787
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 416
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6163
- mri_label2label: Done
- PIDs (28427 28433 28439 28445 28450) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 28502 of (28502 28508 28514 28519) to complete...
- Waiting for PID 28508 of (28502 28508 28514 28519) to complete...
- Waiting for PID 28514 of (28502 28508 28514 28519) to complete...
- Waiting for PID 28519 of (28502 28508 28514 28519) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 211
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4684
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 882
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13138
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 492
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7404
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 691
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6046
- mri_label2label: Done
- PIDs (28502 28508 28514 28519) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 28598 of (28598 28604 28610 28616 28620) to complete...
- Waiting for PID 28604 of (28598 28604 28610 28616 28620) to complete...
- Waiting for PID 28610 of (28598 28604 28610 28616 28620) to complete...
- Waiting for PID 28616 of (28598 28604 28610 28616 28620) to complete...
- Waiting for PID 28620 of (28598 28604 28610 28616 28620) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 1288
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 6015
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 2345
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 10361
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 785
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2717
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 60
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1098
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 44
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 796
- mri_label2label: Done
- PIDs (28598 28604 28610 28616 28620) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 28672 of (28672 28678 28684 28689 28695) to complete...
- Waiting for PID 28678 of (28672 28678 28684 28689 28695) to complete...
- Waiting for PID 28684 of (28672 28678 28684 28689 28695) to complete...
- Waiting for PID 28689 of (28672 28678 28684 28689 28695) to complete...
- Waiting for PID 28695 of (28672 28678 28684 28689 28695) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 77
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 953
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 144
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 2832
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 35
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1733
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 156
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2339
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 113
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1501
- mri_label2label: Done
- PIDs (28672 28678 28684 28689 28695) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 28753 of (28753 28759 28765 28771) to complete...
- Waiting for PID 28759 of (28753 28759 28765 28771) to complete...
- Waiting for PID 28765 of (28753 28759 28765 28771) to complete...
- Waiting for PID 28771 of (28753 28759 28765 28771) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 95
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1584
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 521
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7480
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 105
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1117
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 171
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1349
- mri_label2label: Done
- PIDs (28753 28759 28765 28771) 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 0050776 --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 0050776 --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 0050776 --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 0050776 --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 0050776 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 28826 of (28826 28832 28838 28843 28850) to complete...
- Waiting for PID 28832 of (28826 28832 28838 28843 28850) to complete...
- Waiting for PID 28838 of (28826 28832 28838 28843 28850) to complete...
- Waiting for PID 28843 of (28826 28832 28838 28843 28850) to complete...
- Waiting for PID 28850 of (28826 28832 28838 28843 28850) 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 873
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4105
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 1170
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 4607
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 102
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 370
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 41
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 735
- 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 0050776 --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 = 0050776
- 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-6.0.0/0050776/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 136122
- Number of reverse mapping hits = 20
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 311
- mri_label2label: Done
- PIDs (28826 28832 28838 28843 28850) completed and logs appended.
- mris_label2annot --s 0050776 --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-6.0.0/0050776/label
- cmdline mris_label2annot --s 0050776 --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-565
- machine x86_64
- user ntraut
- subject 0050776
- 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-6.0.0/0050776/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 96111 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/label/rh.BA_exvivo.annot
- mris_label2annot --s 0050776 --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-6.0.0/0050776/label
- cmdline mris_label2annot --s 0050776 --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-565
- machine x86_64
- user ntraut
- subject 0050776
- 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-6.0.0/0050776/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 113141 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/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 0050776 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 303143
- Total vertex volume 298357 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 934 572 2161 2.765 0.648 0.152 0.041 17 1.5 BA1_exvivo
- 3069 2152 5990 2.575 0.609 0.122 0.025 39 3.2 BA2_exvivo
- 1112 738 1182 1.955 0.448 0.120 0.024 9 1.0 BA3a_exvivo
- 2021 1391 3397 2.108 0.672 0.114 0.021 21 1.6 BA3b_exvivo
- 1666 1088 3779 2.876 0.554 0.101 0.025 13 1.6 BA4a_exvivo
- 1289 871 2129 2.477 0.423 0.098 0.018 9 1.0 BA4p_exvivo
- 7774 5293 19639 3.004 0.687 0.123 0.027 94 8.2 BA6_exvivo
- 3107 2222 7007 2.847 0.553 0.116 0.022 42 2.9 BA44_exvivo
- 3985 2802 10205 2.911 0.640 0.138 0.031 64 5.3 BA45_exvivo
- 3807 2757 6938 2.207 0.595 0.146 0.035 65 5.5 V1_exvivo
- 7882 5413 15512 2.449 0.610 0.153 0.035 135 11.4 V2_exvivo
- 2539 1712 5129 2.758 0.464 0.128 0.026 34 2.6 MT_exvivo
- 506 335 1745 3.366 0.744 0.126 0.032 6 0.6 perirhinal_exvivo
- 320 232 879 3.027 0.790 0.124 0.031 4 0.3 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 0050776 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050776/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 303143
- Total vertex volume 298357 (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) = 1414246 mm^3 (det: 1.377487 )
- lhCtxGM: 290522.669 290301.000 diff= 221.7 pctdiff= 0.076
- rhCtxGM: 297769.177 297167.000 diff= 602.2 pctdiff= 0.202
- lhCtxWM: 185330.836 185153.000 diff= 177.8 pctdiff= 0.096
- rhCtxWM: 183610.661 183826.000 diff= -215.3 pctdiff=-0.117
- SubCortGMVol 59435.000
- SupraTentVol 1028259.343 (1025996.000) diff=2263.343 pctdiff=0.220
- SupraTentVolNotVent 1018165.343 (1015902.000) diff=2263.343 pctdiff=0.222
- BrainSegVol 1163566.000 (1161054.000) diff=2512.000 pctdiff=0.216
- BrainSegVolNotVent 1150020.000 (1150707.343) diff=-687.343 pctdiff=-0.060
- BrainSegVolNotVent 1150020.000
- CerebellumVol 134019.000
- VentChorVol 10094.000
- 3rd4th5thCSF 3452.000
- CSFVol 940.000, OptChiasmVol 99.000
- MaskVol 1495206.000
- 624 382 1602 2.733 0.750 0.148 0.039 11 0.9 BA1_exvivo
- 1798 1256 3805 2.649 0.628 0.123 0.024 24 1.9 BA2_exvivo
- 995 665 934 1.885 0.362 0.125 0.025 8 1.0 BA3a_exvivo
- 1631 1135 2361 1.927 0.566 0.106 0.017 15 1.2 BA3b_exvivo
- 1000 660 2536 3.076 0.676 0.120 0.034 11 1.3 BA4a_exvivo
- 1087 728 1798 2.554 0.400 0.087 0.014 5 0.6 BA4p_exvivo
- 5238 3524 12972 2.949 0.682 0.120 0.026 61 5.0 BA6_exvivo
- 816 647 2475 2.895 0.584 0.165 0.038 26 1.5 BA44_exvivo
- 1055 758 2991 3.066 0.478 0.142 0.032 18 1.5 BA45_exvivo
- 3660 2632 6438 2.197 0.592 0.141 0.032 58 4.9 V1_exvivo
- 4184 2933 8438 2.449 0.630 0.167 0.042 85 7.0 V2_exvivo
- 360 225 798 2.694 0.406 0.116 0.021 6 0.3 MT_exvivo
- 316 203 1010 3.353 0.668 0.117 0.033 3 0.4 perirhinal_exvivo
- 217 160 634 3.237 0.760 0.144 0.035 3 0.3 entorhinal_exvivo
- Started at Sat Oct 7 16:25:00 CEST 2017
- Ended at Sun Oct 8 02:55:07 CEST 2017
- #@#%# recon-all-run-time-hours 10.502
- recon-all -s 0050776 finished without error at Sun Oct 8 02:55:07 CEST 2017
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