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- Sat Oct 7 16:52:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0050750 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/Leuven_2/0050750/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0050750
- 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-540 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: 65993716 53846056 12147660 1752460 0 50048224
- -/+ buffers/cache: 3797832 62195884
- 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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: 2017/10/07-14:52:35-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-540 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-6.0.0/0050750
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/Leuven_2/0050750/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/Leuven_2/0050750/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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/Leuven_2/0050750/session_1/anat_1/mprage.nii.gz...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-0.998775, -0.0491878, -0.0054743)
- j_ras = (-0.0485166, 0.99494, -0.0879774)
- k_ras = (-0.009774, 0.0876038, 0.996107)
- writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 16:52:41 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/mri/rawavg.mgz...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-0.998775, -0.0491878, -0.0054743)
- j_ras = (-0.0485166, 0.99494, -0.0879774)
- k_ras = (-0.009774, 0.0876038, 0.996107)
- changing data type from float to uchar (noscale = 0)...
- MRIchangeType: Building histogram
- Reslicing using trilinear interpolation
- writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 16:52:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/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-540 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 16:52:52 CEST 2017
- Program nu_correct, built from:
- Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
- /usr/bin/bc
- tmpdir is ./tmp.mri_nu_correct.mni.1669
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.1669/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.1669/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, 5.00586e-09, 9.31323e-10)
- j_ras = (0, 0, -1)
- k_ras = (1.74623e-09, 1, 7.45058e-09)
- changing data type from uchar to float (noscale = 0)...
- writing to ./tmp.mri_nu_correct.mni.1669/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:52:54 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.1669/nu0.mnc ./tmp.mri_nu_correct.mni.1669/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.1669/0/ -iterations 1000 -distance 50
- [ntraut@tars-540:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/] [2017-10-07 16:52:55] 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.1669/0/ ./tmp.mri_nu_correct.mni.1669/nu0.mnc ./tmp.mri_nu_correct.mni.1669/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 33
- CV of field change: 0.000999611
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.1669/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.1669/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.1669/nu1.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 5.00586e-09, 9.31323e-10)
- j_ras = (0, 0, -1)
- k_ras = (1.74623e-09, 1, 7.45058e-09)
- 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 16:53:59 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 16:53:59 CEST 2017
- Ended at Sat Oct 7 16:54:29 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 16:54:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7266, pval=0.6675 >= threshold=0.0050)
- awk -f /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/transforms/talairach_avi.log
- TalAviQA: 0.97723
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 16:54:31 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-6.0.0/0050750/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-540 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 16:54:31 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.2417
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.2417/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.2417/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, 5.00586e-09, 9.31323e-10)
- j_ras = (0, 0, -1)
- k_ras = (1.74623e-09, 1, 7.45058e-09)
- changing data type from uchar to float (noscale = 0)...
- writing to ./tmp.mri_nu_correct.mni.2417/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:54:34 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.2417/nu0.mnc ./tmp.mri_nu_correct.mni.2417/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.2417/0/
- [ntraut@tars-540:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/] [2017-10-07 16:54:34] running:
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.2417/0/ ./tmp.mri_nu_correct.mni.2417/nu0.mnc ./tmp.mri_nu_correct.mni.2417/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 27
- CV of field change: 0.000960639
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 16:55:20 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.2417/nu1.mnc ./tmp.mri_nu_correct.mni.2417/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.2417/1/
- [ntraut@tars-540:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/] [2017-10-07 16:55:20] running:
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 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.2417/1/ ./tmp.mri_nu_correct.mni.2417/nu1.mnc ./tmp.mri_nu_correct.mni.2417/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: 0.000954767
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.2417/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.2417/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-6.0.0/0050750/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.2417/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.2417/ones.mgz
- sysname Linux
- hostname tars-540
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.2417/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.2417/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.2417/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.2417/sum.junk --avgwf ./tmp.mri_nu_correct.mni.2417/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.2417/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.2417/sum.junk --avgwf ./tmp.mri_nu_correct.mni.2417/input.mean.dat
- sysname Linux
- hostname tars-540
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.2417/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.2417/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.2417/ones.mgz --i ./tmp.mri_nu_correct.mni.2417/nu2.mnc --sum ./tmp.mri_nu_correct.mni.2417/sum.junk --avgwf ./tmp.mri_nu_correct.mni.2417/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.2417/ones.mgz --i ./tmp.mri_nu_correct.mni.2417/nu2.mnc --sum ./tmp.mri_nu_correct.mni.2417/sum.junk --avgwf ./tmp.mri_nu_correct.mni.2417/output.mean.dat
- sysname Linux
- hostname tars-540
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.2417/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.2417/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.2417/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.2417/nu2.mnc ./tmp.mri_nu_correct.mni.2417/nu2.mnc mul 1.06960097806968388267
- Saving result to './tmp.mri_nu_correct.mni.2417/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.2417/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.2417/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.2417/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 5.00586e-09, 9.31323e-10)
- j_ras = (0, 0, -1)
- k_ras = (1.74623e-09, 1, 7.45058e-09)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 8 seconds.
- mapping ( 9, 139) to ( 3, 110)
-
-
- Sat Oct 7 16:56:37 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 16:56:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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
- 1.12892 0.02962 -0.03454 -9.79909;
- -0.03565 1.05542 0.27351 -25.34316;
- 0.02626 -0.22579 1.00312 9.94508;
- 0.00000 0.00000 0.00000 1.00000;
- processing without aseg, no1d=0
- MRInormInit():
- INFO: Modifying talairach volume c_(r,a,s) based on average_305
- MRInormalize():
- MRIsplineNormalize(): npeaks = 16
- Starting OpenSpline(): npoints = 16
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Iterating 2 times
- ---------------------------------
- 3d normalization pass 1 of 2
- white matter peak found at 110
- white matter peak found at 109
- gm peak at 45 (45), valley at 27 (27)
- csf peak at 23, setting threshold to 37
- 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 45 (45), valley at 15 (15)
- csf peak at 23, setting threshold to 37
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 12 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 16:58:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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=11.0
- skull bounding box = (51, 34, 17) --> (205, 255, 236)
- using (102, 108, 127) as brain centroid...
- mean wm in atlas = 108, using box (83,81,100) --> (120, 135,154) to find MRI wm
- before smoothing, mri peak at 103
- robust fit to distribution - 103 +- 6.1
- after smoothing, mri peak at 103, scaling input intensities by 1.049
- scaling channel 0 by 1.04854
- initial log_p = -4.272
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.273814 @ (0.000, 0.000, 0.000)
- max log p = -4.206159 @ (-4.545, 4.545, -13.636)
- max log p = -4.108697 @ (2.273, -2.273, 6.818)
- max log p = -4.103994 @ (-1.136, 1.136, 1.136)
- max log p = -4.101005 @ (-0.568, 1.705, -1.705)
- max log p = -4.099584 @ (-0.284, -3.125, -0.852)
- Found translation: (-4.3, 2.0, -8.2): log p = -4.100
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.808, old_max_log_p =-4.100 (thresh=-4.1)
- 1.06375 0.00000 0.00000 -12.49382;
- 0.00000 1.11081 0.29764 -41.51353;
- 0.00000 -0.25882 0.96593 32.10440;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.808, old_max_log_p =-3.808 (thresh=-3.8)
- 1.06375 0.00000 0.00000 -12.49382;
- 0.00000 1.11081 0.29764 -41.51353;
- 0.00000 -0.25882 0.96593 32.10440;
- 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=-3.737, old_max_log_p =-3.808 (thresh=-3.8)
- 1.08303 -0.03891 -0.00809 -8.82328;
- 0.03159 1.06237 0.22074 -30.07398;
- 0.00000 -0.18896 1.00107 18.62321;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.737, old_max_log_p =-3.737 (thresh=-3.7)
- 1.08303 -0.03891 -0.00809 -8.82328;
- 0.03159 1.06237 0.22074 -30.07398;
- 0.00000 -0.18896 1.00107 18.62321;
- 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=-3.714, old_max_log_p =-3.737 (thresh=-3.7)
- 1.08078 -0.05110 -0.03641 -3.10704;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.711, old_max_log_p =-3.714 (thresh=-3.7)
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 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
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 008: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.711 (old=-4.272)
- transform before final EM align:
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 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
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = 4.1 tol 0.000000
- final transform:
- 1.07699 -0.05092 -0.03628 -2.65745;
- 0.04936 1.05965 0.23694 -34.84317;
- 0.02607 -0.20760 0.99796 18.59357;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1065.320046
- mri_em_register stimesec 1.126828
- 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 157579
- 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 207
- mri_em_register ru_nivcsw 4697
- registration took 9 minutes and 18 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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=129 y=109 z=114 r=91
- first estimation of the main basin volume: 3207206 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 18 found in the rest of the brain
- global maximum in x=148, y=103, z=72, Imax=255
- CSF=16, 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=9617178629 voxels, voxel volume =1.000
- = 9617178629 mmm3 = 9617178.624 cm3
- done.
- PostAnalyze...Basin Prior
- 38 basins merged thanks to atlas
- ***** 0 basin(s) merged in 1 iteration(s)
- ***** 0 voxel(s) added to the main basin
- done.
- Weighting the input with prior template
- ****************TEMPLATE DEFORMATION****************
- second estimation of the COG coord: x=128,y=115, z=106, r=10457 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=33 , nb = 45154
- RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=34 , nb = -1029843032
- LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=25 , nb = 1077470247
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=33 , nb = 1091671694
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=31 , nb = 1077005022
- OTHER CSF_MIN=5, CSF_intensity=18, CSF_MAX=35 , nb = 1077613969
- Problem with the least square interpolation in GM_MIN calculation.
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 33, 26, 21, 43
- after analyzing : 21, 26, 26, 30
- RIGHT_CER
- before analyzing : 34, 26, 17, 56
- after analyzing : 20, 26, 26, 33
- LEFT_CER
- before analyzing : 25, 23, 22, 50
- after analyzing : 23, 24, 25, 30
- RIGHT_BRAIN
- before analyzing : 33, 26, 21, 43
- after analyzing : 21, 26, 26, 30
- LEFT_BRAIN
- before analyzing : 31, 25, 21, 42
- after analyzing : 20, 25, 25, 29
- OTHER
- before analyzing : 35, 43, 58, 86
- after analyzing : 35, 53, 58, 61
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...71 iterations
- *********************VALIDATION*********************
- curvature mean = -0.012, std = 0.011
- curvature mean = 71.892, std = 6.951
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 2.42, sigma = 3.51
- after rotation: sse = 2.42, sigma = 3.51
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 2.42, its var is 2.85
- before Erosion-Dilatation 0.00% of inacurate vertices
- after Erosion-Dilatation 0.00% of inacurate vertices
- Validation of the shape of the surface done.
- Scaling of atlas fields onto current surface fields
- ********FINAL ITERATIVE TEMPLATE DEFORMATION********
- Compute Local values csf/gray
- Fine Segmentation...33 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1766724 voxels, voxel volume = 1.000 mm3
- = 1766724 mmm3 = 1766.724 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 22.595564
- mri_watershed stimesec 0.373943
- mri_watershed ru_maxrss 835308
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 216166
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 0
- mri_watershed ru_oublock 2832
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1352
- mri_watershed ru_nivcsw 44
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 17:08:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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=18.0
- skull bounding box = (61, 50, 34) --> (195, 194, 199)
- using (106, 98, 117) as brain centroid...
- mean wm in atlas = 107, using box (90,80,97) --> (122, 115,137) to find MRI wm
- before smoothing, mri peak at 102
- robust fit to distribution - 103 +- 5.8
- after smoothing, mri peak at 103, scaling input intensities by 1.039
- scaling channel 0 by 1.03883
- initial log_p = -3.921
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -3.924537 @ (0.000, 0.000, 0.000)
- max log p = -3.857328 @ (-4.545, 4.545, -4.545)
- max log p = -3.743552 @ (2.273, 2.273, -2.273)
- max log p = -3.704609 @ (1.136, -1.136, 1.136)
- max log p = -3.700269 @ (0.568, 0.568, -1.705)
- max log p = -3.700269 @ (0.000, 0.000, 0.000)
- Found translation: (-0.6, 6.2, -7.4): log p = -3.700
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.458, old_max_log_p =-3.700 (thresh=-3.7)
- 1.07500 0.00000 0.00000 -10.11609;
- 0.00000 1.03837 0.27823 -29.48032;
- 0.00000 -0.25882 0.96593 33.21516;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.458, old_max_log_p =-3.458 (thresh=-3.5)
- 1.07500 0.00000 0.00000 -10.11609;
- 0.00000 1.03837 0.27823 -29.48032;
- 0.00000 -0.25882 0.96593 33.21516;
- 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=-3.306, old_max_log_p =-3.458 (thresh=-3.5)
- 1.05409 0.00000 0.00000 -9.32885;
- 0.00000 1.03333 0.21044 -19.86788;
- 0.00000 -0.19749 1.01888 16.82209;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.303, old_max_log_p =-3.306 (thresh=-3.3)
- 1.07385 0.00000 0.00000 -11.88008;
- 0.00000 1.03333 0.21044 -19.86788;
- 0.00000 -0.19749 1.01888 16.82209;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.303, old_max_log_p =-3.303 (thresh=-3.3)
- 1.07385 0.00000 0.00000 -11.88008;
- 0.00000 1.03333 0.21044 -19.86788;
- 0.00000 -0.19749 1.01888 16.82209;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.261, old_max_log_p =-3.303 (thresh=-3.3)
- 1.07496 0.01693 0.00345 -14.30310;
- -0.01761 1.03397 0.21921 -19.08953;
- 0.00014 -0.20573 1.01592 18.52161;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.255, old_max_log_p =-3.261 (thresh=-3.3)
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.255, old_max_log_p =-3.255 (thresh=-3.3)
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 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
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.255 (old=-3.921)
- transform before final EM align:
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 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
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 012: -log(p) = 3.8 tol 0.000000
- final transform:
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1151.805898
- mri_em_register stimesec 1.956702
- mri_em_register ru_maxrss 600984
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 159471
- 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 227
- mri_em_register ru_nivcsw 9838
- registration took 9 minutes and 53 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 17:18:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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=18.0
- skull bounding box = (61, 50, 34) --> (195, 194, 199)
- using (106, 98, 117) as brain centroid...
- mean wm in atlas = 107, using box (90,80,97) --> (122, 115,137) to find MRI wm
- before smoothing, mri peak at 102
- robust fit to distribution - 103 +- 5.8
- after smoothing, mri peak at 103, scaling input intensities by 1.039
- scaling channel 0 by 1.03883
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.07370 0.01691 0.00344 -14.13781;
- -0.01767 1.03760 0.21998 -19.57639;
- 0.00014 -0.20525 1.01354 18.72533;
- 0.00000 0.00000 0.00000 1.00000;
- INFO: transform used
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (128, 50, 35) --> (190, 159, 194)
- Left_Cerebral_White_Matter: limiting intensities to 94.0 --> 132.0
- 0 of 1133 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (68, 51, 33) --> (131, 158, 195)
- Right_Cerebral_White_Matter: limiting intensities to 96.0 --> 132.0
- 0 of 810 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (130, 137, 62) --> (174, 178, 114)
- Left_Cerebellum_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 9 (0.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (87, 137, 59) --> (128, 175, 115)
- Right_Cerebellum_White_Matter: limiting intensities to 104.0 --> 132.0
- 0 of 7 (0.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 124, 96) --> (145, 191, 125)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 0 of 9 (0.0%) samples deleted
- using 1968 total control points for intensity normalization...
- bias field = 0.956 +- 0.046
- 11 of 1968 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (128, 50, 35) --> (190, 159, 194)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 4 of 1404 (0.3%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (68, 51, 33) --> (131, 158, 195)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 1 of 1220 (0.1%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (130, 137, 62) --> (174, 178, 114)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 8 of 77 (10.4%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (87, 137, 59) --> (128, 175, 115)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 8 of 65 (12.3%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 124, 96) --> (145, 191, 125)
- Brain_Stem: limiting intensities to 92.0 --> 132.0
- 43 of 86 (50.0%) samples deleted
- using 2852 total control points for intensity normalization...
- bias field = 1.005 +- 0.055
- 11 of 2770 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (128, 50, 35) --> (190, 159, 194)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 4 of 1446 (0.3%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (68, 51, 33) --> (131, 158, 195)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 1 of 1326 (0.1%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (130, 137, 62) --> (174, 178, 114)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 41 of 131 (31.3%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (87, 137, 59) --> (128, 175, 115)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 34 of 74 (45.9%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 124, 96) --> (145, 191, 125)
- Brain_Stem: limiting intensities to 89.0 --> 132.0
- 95 of 192 (49.5%) samples deleted
- using 3169 total control points for intensity normalization...
- bias field = 1.002 +- 0.048
- 1 of 2920 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 45 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 17:20:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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) = 1.18 (predicted orig area = 6.8)
- label assignment complete, 0 changed (0.00%)
- freeing gibbs priors...done.
- average std[0] = 5.0
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.039
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.817, neg=0, invalid=762
- 0001: dt=164.684632, rms=0.751 (8.048%), neg=0, invalid=762
- 0002: dt=168.907216, rms=0.735 (2.117%), neg=0, invalid=762
- 0003: dt=177.852632, rms=0.729 (0.883%), neg=0, invalid=762
- 0004: dt=167.529412, rms=0.725 (0.581%), neg=0, invalid=762
- 0005: dt=295.936000, rms=0.721 (0.536%), neg=0, invalid=762
- 0006: dt=129.472000, rms=0.718 (0.412%), neg=0, invalid=762
- 0007: dt=369.920000, rms=0.715 (0.404%), neg=0, invalid=762
- 0008: dt=110.976000, rms=0.713 (0.279%), neg=0, invalid=762
- 0009: dt=1183.744000, rms=0.709 (0.624%), neg=0, invalid=762
- 0010: dt=110.976000, rms=0.705 (0.490%), neg=0, invalid=762
- 0011: dt=443.904000, rms=0.704 (0.168%), neg=0, invalid=762
- 0012: dt=443.904000, rms=0.704 (-1.213%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.704, neg=0, invalid=762
- 0013: dt=129.472000, rms=0.702 (0.308%), neg=0, invalid=762
- 0014: dt=517.888000, rms=0.701 (0.201%), neg=0, invalid=762
- 0015: dt=517.888000, rms=0.700 (0.090%), neg=0, invalid=762
- 0016: dt=517.888000, rms=0.700 (-0.675%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.702, neg=0, invalid=762
- 0017: dt=161.807910, rms=0.685 (2.465%), neg=0, invalid=762
- 0018: dt=85.595628, rms=0.673 (1.701%), neg=0, invalid=762
- 0019: dt=123.917448, rms=0.666 (1.163%), neg=0, invalid=762
- 0020: dt=73.228605, rms=0.660 (0.862%), neg=0, invalid=762
- 0021: dt=171.807487, rms=0.655 (0.793%), neg=0, invalid=762
- 0022: dt=62.208000, rms=0.650 (0.714%), neg=0, invalid=762
- 0023: dt=145.152000, rms=0.647 (0.528%), neg=0, invalid=762
- 0024: dt=83.067847, rms=0.644 (0.386%), neg=0, invalid=762
- 0025: dt=92.044944, rms=0.642 (0.264%), neg=0, invalid=762
- 0026: dt=103.680000, rms=0.640 (0.317%), neg=0, invalid=762
- 0027: dt=72.727273, rms=0.639 (0.230%), neg=0, invalid=762
- 0028: dt=72.727273, rms=0.637 (0.212%), neg=0, invalid=762
- 0029: dt=72.727273, rms=0.636 (0.302%), neg=0, invalid=762
- 0030: dt=72.727273, rms=0.633 (0.453%), neg=0, invalid=762
- 0031: dt=72.727273, rms=0.630 (0.471%), neg=0, invalid=762
- 0032: dt=72.727273, rms=0.626 (0.542%), neg=0, invalid=762
- 0033: dt=72.727273, rms=0.623 (0.482%), neg=0, invalid=762
- 0034: dt=72.727273, rms=0.620 (0.487%), neg=0, invalid=762
- 0035: dt=72.727273, rms=0.618 (0.410%), neg=0, invalid=762
- 0036: dt=72.727273, rms=0.615 (0.356%), neg=0, invalid=762
- 0037: dt=72.727273, rms=0.614 (0.315%), neg=0, invalid=762
- 0038: dt=72.727273, rms=0.612 (0.258%), neg=0, invalid=762
- 0039: dt=72.727273, rms=0.610 (0.246%), neg=0, invalid=762
- 0040: dt=72.727273, rms=0.609 (0.189%), neg=0, invalid=762
- 0041: dt=72.727273, rms=0.608 (0.173%), neg=0, invalid=762
- 0042: dt=72.727273, rms=0.607 (0.141%), neg=0, invalid=762
- 0043: dt=72.727273, rms=0.606 (0.160%), neg=0, invalid=762
- 0044: dt=72.727273, rms=0.606 (0.144%), neg=0, invalid=762
- 0045: dt=72.727273, rms=0.605 (0.137%), neg=0, invalid=762
- 0046: dt=72.727273, rms=0.604 (0.107%), neg=0, invalid=762
- 0047: dt=72.727273, rms=0.603 (0.108%), neg=0, invalid=762
- 0048: dt=72.727273, rms=0.603 (0.094%), neg=0, invalid=762
- 0049: dt=103.680000, rms=0.603 (0.017%), neg=0, invalid=762
- 0050: dt=103.680000, rms=0.603 (0.022%), neg=0, invalid=762
- 0051: dt=103.680000, rms=0.603 (0.020%), neg=0, invalid=762
- 0052: dt=103.680000, rms=0.602 (0.019%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.603, neg=0, invalid=762
- 0053: dt=36.288000, rms=0.602 (0.183%), neg=0, invalid=762
- 0054: dt=62.208000, rms=0.602 (0.046%), neg=0, invalid=762
- 0055: dt=62.208000, rms=0.601 (0.013%), neg=0, invalid=762
- 0056: dt=62.208000, rms=0.601 (-0.023%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.626, neg=0, invalid=762
- 0057: dt=0.000000, rms=0.626 (0.085%), neg=0, invalid=762
- 0058: dt=0.000000, rms=0.626 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.626, neg=0, invalid=762
- 0059: dt=0.175000, rms=0.626 (0.085%), neg=0, invalid=762
- 0060: dt=0.043750, rms=0.626 (-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=0.698, neg=0, invalid=762
- 0061: dt=5.627551, rms=0.674 (3.473%), neg=0, invalid=762
- 0062: dt=3.456000, rms=0.673 (0.207%), neg=0, invalid=762
- 0063: dt=3.456000, rms=0.673 (-0.066%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.673, neg=0, invalid=762
- 0064: dt=0.000000, rms=0.673 (0.058%), neg=0, invalid=762
- 0065: dt=0.000000, rms=0.673 (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=0.732, neg=0, invalid=762
- 0066: dt=1.280000, rms=0.728 (0.512%), neg=0, invalid=762
- 0067: dt=2.208633, rms=0.722 (0.859%), neg=0, invalid=762
- 0068: dt=0.256000, rms=0.722 (0.013%), neg=0, invalid=762
- 0069: dt=0.256000, rms=0.722 (0.013%), neg=0, invalid=762
- 0070: dt=0.256000, rms=0.722 (0.006%), neg=0, invalid=762
- 0071: dt=0.256000, rms=0.722 (0.000%), neg=0, invalid=762
- 0072: dt=1.948718, rms=0.720 (0.276%), neg=0, invalid=762
- 0073: dt=0.000000, rms=0.720 (0.000%), neg=0, invalid=762
- 0074: dt=0.100000, rms=0.720 (-0.005%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.720, neg=0, invalid=762
- 0075: dt=0.448000, rms=0.719 (0.087%), neg=0, invalid=762
- 0076: dt=0.768000, rms=0.719 (0.025%), neg=0, invalid=762
- 0077: dt=0.768000, rms=0.719 (0.022%), neg=0, invalid=762
- 0078: dt=0.768000, rms=0.719 (-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=0.685, neg=0, invalid=762
- 0079: dt=0.876173, rms=0.665 (2.866%), neg=0, invalid=762
- 0080: dt=0.080000, rms=0.664 (0.143%), neg=0, invalid=762
- 0081: dt=0.080000, rms=0.664 (-0.083%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.665, neg=0, invalid=762
- 0082: dt=0.028000, rms=0.664 (0.080%), neg=0, invalid=762
- 0083: dt=0.004000, rms=0.664 (0.001%), neg=0, invalid=762
- 0084: dt=0.004000, rms=0.664 (-0.001%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.18336 ( 8)
- Left_Lateral_Ventricle (4): linear fit = 0.32 x + 0.0 (451 voxels, overlap=0.004)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (451 voxels, peak = 6), gca=8.0
- gca peak = 0.15565 (16)
- mri peak = 0.14253 ( 8)
- Right_Lateral_Ventricle (43): linear fit = 0.44 x + 0.0 (638 voxels, overlap=0.267)
- Right_Lateral_Ventricle (43): linear fit = 0.44 x + 0.0 (638 voxels, peak = 7), gca=7.0
- gca peak = 0.26829 (96)
- mri peak = 0.08369 (93)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (949 voxels, overlap=1.004)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (949 voxels, peak = 92), gca=91.7
- gca peak = 0.20183 (93)
- mri peak = 0.06096 (94)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (740 voxels, overlap=0.923)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (740 voxels, peak = 92), gca=91.6
- gca peak = 0.21683 (55)
- mri peak = 0.07718 (60)
- Right_Hippocampus (53): linear fit = 0.96 x + 0.0 (698 voxels, overlap=0.998)
- Right_Hippocampus (53): linear fit = 0.96 x + 0.0 (698 voxels, peak = 53), gca=53.1
- gca peak = 0.30730 (58)
- mri peak = 0.08960 (57)
- Left_Hippocampus (17): linear fit = 0.96 x + 0.0 (787 voxels, overlap=1.000)
- Left_Hippocampus (17): linear fit = 0.96 x + 0.0 (787 voxels, peak = 56), gca=56.0
- gca peak = 0.11430 (101)
- mri peak = 0.07622 (106)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (59649 voxels, overlap=0.687)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (59649 voxels, peak = 107), gca=106.6
- gca peak = 0.12076 (102)
- mri peak = 0.07303 (108)
- Left_Cerebral_White_Matter (2): linear fit = 1.07 x + 0.0 (62615 voxels, overlap=0.587)
- Left_Cerebral_White_Matter (2): linear fit = 1.07 x + 0.0 (62615 voxels, peak = 109), gca=108.6
- gca peak = 0.14995 (59)
- mri peak = 0.06940 (41)
- Left_Cerebral_Cortex (3): linear fit = 0.74 x + 0.0 (27264 voxels, overlap=0.068)
- Left_Cerebral_Cortex (3): linear fit = 0.74 x + 0.0 (27264 voxels, peak = 43), gca=43.4
- gca peak = 0.15082 (58)
- mri peak = 0.05601 (42)
- Right_Cerebral_Cortex (42): linear fit = 0.76 x + 0.0 (27275 voxels, overlap=0.222)
- Right_Cerebral_Cortex (42): linear fit = 0.76 x + 0.0 (27275 voxels, peak = 44), gca=44.4
- gca peak = 0.14161 (67)
- mri peak = 0.10047 (66)
- Right_Caudate (50): linear fit = 0.98 x + 0.0 (823 voxels, overlap=0.896)
- Right_Caudate (50): linear fit = 0.98 x + 0.0 (823 voxels, peak = 65), gca=65.3
- gca peak = 0.15243 (71)
- mri peak = 0.09537 (72)
- Left_Caudate (11): linear fit = 0.94 x + 0.0 (1095 voxels, overlap=0.811)
- Left_Caudate (11): linear fit = 0.94 x + 0.0 (1095 voxels, peak = 67), gca=67.1
- gca peak = 0.13336 (57)
- mri peak = 0.03864 (51)
- Left_Cerebellum_Cortex (8): linear fit = 0.89 x + 0.0 (29887 voxels, overlap=0.680)
- Left_Cerebellum_Cortex (8): linear fit = 0.89 x + 0.0 (29887 voxels, peak = 51), gca=51.0
- gca peak = 0.13252 (56)
- mri peak = 0.03393 (49)
- Right_Cerebellum_Cortex (47): linear fit = 0.88 x + 0.0 (28352 voxels, overlap=0.329)
- Right_Cerebellum_Cortex (47): linear fit = 0.88 x + 0.0 (28352 voxels, peak = 49), gca=49.0
- gca peak = 0.18181 (84)
- mri peak = 0.06255 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 1.05 x + 0.0 (8615 voxels, overlap=0.730)
- Left_Cerebellum_White_Matter (7): linear fit = 1.05 x + 0.0 (8615 voxels, peak = 89), gca=88.6
- gca peak = 0.20573 (83)
- mri peak = 0.06073 (85)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (7368 voxels, overlap=0.872)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (7368 voxels, peak = 88), gca=87.6
- gca peak = 0.21969 (57)
- mri peak = 0.07062 (65)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (460 voxels, overlap=0.998)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (460 voxels, peak = 60), gca=59.6
- gca peak = 0.39313 (56)
- mri peak = 0.07307 (59)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (526 voxels, overlap=1.003)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (526 voxels, peak = 59), gca=58.5
- gca peak = 0.14181 (85)
- mri peak = 0.04639 (87)
- Left_Thalamus_Proper (10): linear fit = 1.07 x + 0.0 (5616 voxels, overlap=0.763)
- Left_Thalamus_Proper (10): linear fit = 1.07 x + 0.0 (5616 voxels, peak = 91), gca=90.5
- gca peak = 0.11978 (83)
- mri peak = 0.05363 (86)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (4668 voxels, overlap=0.929)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (4668 voxels, peak = 87), gca=86.7
- gca peak = 0.13399 (79)
- mri peak = 0.04617 (72)
- Left_Putamen (12): linear fit = 1.04 x + 0.0 (2358 voxels, overlap=0.864)
- Left_Putamen (12): linear fit = 1.04 x + 0.0 (2358 voxels, peak = 83), gca=82.6
- gca peak = 0.14159 (79)
- mri peak = 0.05602 (72)
- Right_Putamen (51): linear fit = 0.98 x + 0.0 (2430 voxels, overlap=0.923)
- Right_Putamen (51): linear fit = 0.98 x + 0.0 (2430 voxels, peak = 77), gca=77.0
- gca peak = 0.10025 (80)
- mri peak = 0.06503 (85)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (13034 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (13034 voxels, peak = 88), gca=87.6
- gca peak = 0.13281 (86)
- mri peak = 0.05710 (102)
- Right_VentralDC (60): linear fit = 1.14 x + 0.0 (1423 voxels, overlap=0.512)
- Right_VentralDC (60): linear fit = 1.14 x + 0.0 (1423 voxels, peak = 98), gca=98.5
- gca peak = 0.12801 (89)
- mri peak = 0.05647 (98)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1604 voxels, overlap=0.610)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1604 voxels, peak = 97), gca=97.5
- gca peak = 0.20494 (23)
- mri peak = 1.00000 (48)
- gca peak = 0.15061 (21)
- mri peak = 0.08719 (11)
- Fourth_Ventricle (15): linear fit = 0.47 x + 0.0 (428 voxels, overlap=0.108)
- Fourth_Ventricle (15): linear fit = 0.47 x + 0.0 (428 voxels, peak = 10), gca=10.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18056 (32)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak Third_Ventricle = 0.20494 (23)
- gca peak Fourth_Ventricle = 0.15061 (21)
- gca peak CSF = 0.20999 (34)
- gca peak Left_Accumbens_area = 0.39030 (62)
- gca peak Left_undetermined = 0.95280 (25)
- gca peak Left_vessel = 0.67734 (53)
- gca peak Left_choroid_plexus = 0.09433 (44)
- gca peak Right_Inf_Lat_Vent = 0.23544 (26)
- gca peak Right_Accumbens_area = 0.30312 (64)
- gca peak Right_vessel = 0.46315 (51)
- gca peak Right_choroid_plexus = 0.14086 (44)
- gca peak Fifth_Ventricle = 0.51669 (36)
- gca peak WM_hypointensities = 0.09722 (76)
- gca peak non_WM_hypointensities = 0.11899 (47)
- gca peak Optic_Chiasm = 0.39033 (72)
- label assignment complete, 0 changed (0.00%)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.92 x + 0.0
- estimating mean wm scale to be 1.06 x + 0.0
- estimating mean csf scale to be 0.42 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=0.721, neg=0, invalid=762
- 0085: dt=129.472000, rms=0.716 (0.626%), neg=0, invalid=762
- 0086: dt=221.952000, rms=0.713 (0.407%), neg=0, invalid=762
- 0087: dt=110.976000, rms=0.712 (0.158%), neg=0, invalid=762
- 0088: dt=129.472000, rms=0.711 (0.155%), neg=0, invalid=762
- 0089: dt=221.952000, rms=0.710 (0.123%), neg=0, invalid=762
- 0090: dt=129.472000, rms=0.709 (0.129%), neg=0, invalid=762
- 0091: dt=129.472000, rms=0.709 (0.068%), neg=0, invalid=762
- 0092: dt=129.472000, rms=0.708 (0.094%), neg=0, invalid=762
- 0093: dt=221.952000, rms=0.707 (0.068%), neg=0, invalid=762
- 0094: dt=129.472000, rms=0.707 (0.096%), neg=0, invalid=762
- 0095: dt=129.472000, rms=0.706 (0.041%), neg=0, invalid=762
- 0096: dt=129.472000, rms=0.706 (0.071%), neg=0, invalid=762
- 0097: dt=129.472000, rms=0.705 (0.088%), neg=0, invalid=762
- 0098: dt=129.472000, rms=0.705 (0.115%), neg=0, invalid=762
- 0099: dt=129.472000, rms=0.704 (0.121%), neg=0, invalid=762
- 0100: dt=129.472000, rms=0.703 (0.148%), neg=0, invalid=762
- 0101: dt=129.472000, rms=0.702 (0.125%), neg=0, invalid=762
- 0102: dt=129.472000, rms=0.701 (0.125%), neg=0, invalid=762
- 0103: dt=129.472000, rms=0.700 (0.108%), neg=0, invalid=762
- 0104: dt=129.472000, rms=0.699 (0.120%), neg=0, invalid=762
- 0105: dt=129.472000, rms=0.699 (0.104%), neg=0, invalid=762
- 0106: dt=129.472000, rms=0.698 (0.093%), neg=0, invalid=762
- 0107: dt=129.472000, rms=0.697 (0.077%), neg=0, invalid=762
- 0108: dt=129.472000, rms=0.697 (0.079%), neg=0, invalid=762
- 0109: dt=129.472000, rms=0.696 (0.074%), neg=0, invalid=762
- 0110: dt=129.472000, rms=0.696 (0.073%), neg=0, invalid=762
- 0111: dt=129.472000, rms=0.695 (0.065%), neg=0, invalid=762
- 0112: dt=129.472000, rms=0.695 (0.062%), neg=0, invalid=762
- 0113: dt=129.472000, rms=0.695 (0.062%), neg=0, invalid=762
- 0114: dt=129.472000, rms=0.694 (0.057%), neg=0, invalid=762
- 0115: dt=129.472000, rms=0.694 (0.052%), neg=0, invalid=762
- 0116: dt=129.472000, rms=0.693 (0.045%), neg=0, invalid=762
- 0117: dt=129.472000, rms=0.693 (0.049%), neg=0, invalid=762
- 0118: dt=129.472000, rms=0.693 (0.049%), neg=0, invalid=762
- 0119: dt=129.472000, rms=0.692 (0.048%), neg=0, invalid=762
- 0120: dt=129.472000, rms=0.692 (0.043%), neg=0, invalid=762
- 0121: dt=129.472000, rms=0.692 (0.045%), neg=0, invalid=762
- 0122: dt=129.472000, rms=0.691 (0.047%), neg=0, invalid=762
- 0123: dt=129.472000, rms=0.691 (0.048%), neg=0, invalid=762
- 0124: dt=129.472000, rms=0.691 (0.047%), neg=0, invalid=762
- 0125: dt=129.472000, rms=0.691 (0.046%), neg=0, invalid=762
- 0126: dt=129.472000, rms=0.690 (0.042%), neg=0, invalid=762
- 0127: dt=129.472000, rms=0.690 (0.041%), neg=0, invalid=762
- 0128: dt=129.472000, rms=0.690 (0.048%), neg=0, invalid=762
- 0129: dt=129.472000, rms=0.689 (0.047%), neg=0, invalid=762
- 0130: dt=129.472000, rms=0.689 (0.044%), neg=0, invalid=762
- 0131: dt=129.472000, rms=0.689 (0.036%), neg=0, invalid=762
- 0132: dt=129.472000, rms=0.689 (0.029%), neg=0, invalid=762
- 0133: dt=129.472000, rms=0.688 (0.031%), neg=0, invalid=762
- 0134: dt=129.472000, rms=0.688 (0.032%), neg=0, invalid=762
- 0135: dt=129.472000, rms=0.688 (0.034%), neg=0, invalid=762
- 0136: dt=129.472000, rms=0.688 (0.033%), neg=0, invalid=762
- 0137: dt=129.472000, rms=0.687 (0.030%), neg=0, invalid=762
- 0138: dt=129.472000, rms=0.687 (0.030%), neg=0, invalid=762
- 0139: dt=129.472000, rms=0.687 (0.022%), neg=0, invalid=762
- 0140: dt=129.472000, rms=0.687 (0.021%), neg=0, invalid=762
- 0141: dt=517.888000, rms=0.687 (0.021%), neg=0, invalid=762
- 0142: dt=27.744000, rms=0.687 (0.001%), neg=0, invalid=762
- 0143: dt=27.744000, rms=0.687 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.688, neg=0, invalid=762
- 0144: dt=369.920000, rms=0.686 (0.211%), neg=0, invalid=762
- 0145: dt=92.480000, rms=0.686 (0.045%), neg=0, invalid=762
- 0146: dt=92.480000, rms=0.686 (0.011%), neg=0, invalid=762
- 0147: dt=92.480000, rms=0.686 (0.018%), neg=0, invalid=762
- 0148: dt=92.480000, rms=0.685 (0.025%), neg=0, invalid=762
- 0149: dt=92.480000, rms=0.685 (0.031%), neg=0, invalid=762
- 0150: dt=92.480000, rms=0.685 (0.035%), neg=0, invalid=762
- 0151: dt=92.480000, rms=0.685 (0.038%), neg=0, invalid=762
- 0152: dt=92.480000, rms=0.684 (0.035%), neg=0, invalid=762
- 0153: dt=92.480000, rms=0.684 (0.031%), neg=0, invalid=762
- 0154: dt=92.480000, rms=0.684 (0.030%), neg=0, invalid=762
- 0155: dt=92.480000, rms=0.684 (0.031%), neg=0, invalid=762
- 0156: dt=92.480000, rms=0.684 (0.031%), neg=0, invalid=762
- 0157: dt=92.480000, rms=0.683 (0.027%), neg=0, invalid=762
- 0158: dt=92.480000, rms=0.683 (0.023%), neg=0, invalid=762
- 0159: dt=92.480000, rms=0.683 (0.023%), neg=0, invalid=762
- 0160: dt=517.888000, rms=0.683 (0.017%), neg=0, invalid=762
- 0161: dt=517.888000, rms=0.683 (-0.055%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.684, neg=0, invalid=762
- 0162: dt=145.152000, rms=0.677 (1.008%), neg=0, invalid=762
- 0163: dt=331.776000, rms=0.669 (1.309%), neg=0, invalid=762
- 0164: dt=61.886792, rms=0.663 (0.831%), neg=0, invalid=762
- 0165: dt=124.416000, rms=0.661 (0.347%), neg=0, invalid=762
- 0166: dt=66.254743, rms=0.659 (0.298%), neg=0, invalid=762
- 0167: dt=145.152000, rms=0.657 (0.307%), neg=0, invalid=762
- 0168: dt=36.288000, rms=0.655 (0.243%), neg=0, invalid=762
- 0169: dt=331.776000, rms=0.652 (0.462%), neg=0, invalid=762
- 0170: dt=36.288000, rms=0.650 (0.375%), neg=0, invalid=762
- 0171: dt=145.152000, rms=0.648 (0.216%), neg=0, invalid=762
- 0172: dt=36.288000, rms=0.647 (0.152%), neg=0, invalid=762
- 0173: dt=331.776000, rms=0.645 (0.286%), neg=0, invalid=762
- 0174: dt=36.288000, rms=0.644 (0.269%), neg=0, invalid=762
- 0175: dt=124.416000, rms=0.643 (0.154%), neg=0, invalid=762
- 0176: dt=62.208000, rms=0.642 (0.126%), neg=0, invalid=762
- 0177: dt=145.152000, rms=0.641 (0.170%), neg=0, invalid=762
- 0178: dt=62.208000, rms=0.640 (0.083%), neg=0, invalid=762
- 0179: dt=145.152000, rms=0.639 (0.148%), neg=0, invalid=762
- 0180: dt=36.288000, rms=0.639 (0.071%), neg=0, invalid=762
- 0181: dt=414.720000, rms=0.637 (0.217%), neg=0, invalid=762
- 0182: dt=36.288000, rms=0.636 (0.220%), neg=0, invalid=762
- 0183: dt=124.416000, rms=0.635 (0.115%), neg=0, invalid=762
- 0184: dt=36.288000, rms=0.635 (0.059%), neg=0, invalid=762
- 0185: dt=145.152000, rms=0.634 (0.088%), neg=0, invalid=762
- 0186: dt=62.208000, rms=0.634 (0.077%), neg=0, invalid=762
- 0187: dt=82.944000, rms=0.634 (0.057%), neg=0, invalid=762
- 0188: dt=103.680000, rms=0.633 (0.087%), neg=0, invalid=762
- 0189: dt=36.288000, rms=0.633 (0.047%), neg=0, invalid=762
- 0190: dt=36.288000, rms=0.633 (0.030%), neg=0, invalid=762
- 0191: dt=36.288000, rms=0.632 (0.046%), neg=0, invalid=762
- 0192: dt=36.288000, rms=0.632 (0.073%), neg=0, invalid=762
- 0193: dt=36.288000, rms=0.631 (0.098%), neg=0, invalid=762
- 0194: dt=36.288000, rms=0.630 (0.110%), neg=0, invalid=762
- 0195: dt=36.288000, rms=0.630 (0.125%), neg=0, invalid=762
- 0196: dt=36.288000, rms=0.629 (0.137%), neg=0, invalid=762
- 0197: dt=36.288000, rms=0.628 (0.136%), neg=0, invalid=762
- 0198: dt=36.288000, rms=0.627 (0.145%), neg=0, invalid=762
- 0199: dt=36.288000, rms=0.626 (0.148%), neg=0, invalid=762
- 0200: dt=36.288000, rms=0.625 (0.151%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.624 (0.145%), neg=0, invalid=762
- 0202: dt=36.288000, rms=0.623 (0.140%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.623 (0.130%), neg=0, invalid=762
- 0204: dt=36.288000, rms=0.622 (0.123%), neg=0, invalid=762
- 0205: dt=36.288000, rms=0.621 (0.123%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.620 (0.118%), neg=0, invalid=762
- 0207: dt=36.288000, rms=0.620 (0.113%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.619 (0.100%), neg=0, invalid=762
- 0209: dt=36.288000, rms=0.618 (0.098%), neg=0, invalid=762
- 0210: dt=36.288000, rms=0.618 (0.094%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.617 (0.099%), neg=0, invalid=762
- 0212: dt=36.288000, rms=0.617 (0.096%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.616 (0.087%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.616 (0.072%), neg=0, invalid=762
- 0215: dt=36.288000, rms=0.615 (0.073%), neg=0, invalid=762
- 0216: dt=36.288000, rms=0.615 (0.084%), neg=0, invalid=762
- 0217: dt=36.288000, rms=0.614 (0.079%), neg=0, invalid=762
- 0218: dt=36.288000, rms=0.614 (0.079%), neg=0, invalid=762
- 0219: dt=36.288000, rms=0.613 (0.072%), neg=0, invalid=762
- 0220: dt=36.288000, rms=0.613 (0.064%), neg=0, invalid=762
- 0221: dt=36.288000, rms=0.613 (0.060%), neg=0, invalid=762
- 0222: dt=36.288000, rms=0.612 (0.064%), neg=0, invalid=762
- 0223: dt=36.288000, rms=0.612 (0.065%), neg=0, invalid=762
- 0224: dt=36.288000, rms=0.611 (0.065%), neg=0, invalid=762
- 0225: dt=36.288000, rms=0.611 (0.064%), neg=0, invalid=762
- 0226: dt=36.288000, rms=0.611 (0.054%), neg=0, invalid=762
- 0227: dt=36.288000, rms=0.610 (0.051%), neg=0, invalid=762
- 0228: dt=36.288000, rms=0.610 (0.051%), neg=0, invalid=762
- 0229: dt=36.288000, rms=0.610 (0.057%), neg=0, invalid=762
- 0230: dt=36.288000, rms=0.609 (0.049%), neg=0, invalid=762
- 0231: dt=36.288000, rms=0.609 (0.048%), neg=0, invalid=762
- 0232: dt=36.288000, rms=0.609 (0.049%), neg=0, invalid=762
- 0233: dt=36.288000, rms=0.608 (0.049%), neg=0, invalid=762
- 0234: dt=36.288000, rms=0.608 (0.045%), neg=0, invalid=762
- 0235: dt=36.288000, rms=0.608 (0.047%), neg=0, invalid=762
- 0236: dt=36.288000, rms=0.608 (0.047%), neg=0, invalid=762
- 0237: dt=36.288000, rms=0.607 (0.045%), neg=0, invalid=762
- 0238: dt=36.288000, rms=0.607 (0.044%), neg=0, invalid=762
- 0239: dt=36.288000, rms=0.607 (0.048%), neg=0, invalid=762
- 0240: dt=36.288000, rms=0.607 (0.042%), neg=0, invalid=762
- 0241: dt=36.288000, rms=0.606 (0.043%), neg=0, invalid=762
- 0242: dt=36.288000, rms=0.606 (0.040%), neg=0, invalid=762
- 0243: dt=36.288000, rms=0.606 (0.041%), neg=0, invalid=762
- 0244: dt=36.288000, rms=0.606 (0.036%), neg=0, invalid=762
- 0245: dt=36.288000, rms=0.605 (0.041%), neg=0, invalid=762
- 0246: dt=36.288000, rms=0.605 (0.003%), neg=0, invalid=762
- 0247: dt=36.288000, rms=0.605 (0.006%), neg=0, invalid=762
- 0248: dt=18.144000, rms=0.605 (0.000%), neg=0, invalid=762
- 0249: dt=2.268000, rms=0.605 (0.000%), neg=0, invalid=762
- 0250: dt=1.134000, rms=0.605 (0.001%), neg=0, invalid=762
- 0251: dt=0.141750, rms=0.605 (0.000%), neg=0, invalid=762
- 0252: dt=0.035437, rms=0.605 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.606, neg=0, invalid=762
- 0253: dt=145.152000, rms=0.603 (0.523%), neg=0, invalid=762
- 0254: dt=62.208000, rms=0.603 (0.082%), neg=0, invalid=762
- 0255: dt=124.416000, rms=0.602 (0.090%), neg=0, invalid=762
- 0256: dt=36.288000, rms=0.602 (0.059%), neg=0, invalid=762
- 0257: dt=497.664000, rms=0.601 (0.176%), neg=0, invalid=762
- 0258: dt=36.288000, rms=0.600 (0.097%), neg=0, invalid=762
- 0259: dt=103.680000, rms=0.600 (0.038%), neg=0, invalid=762
- 0260: dt=103.680000, rms=0.600 (0.022%), neg=0, invalid=762
- 0261: dt=103.680000, rms=0.599 (0.069%), neg=0, invalid=762
- 0262: dt=103.680000, rms=0.599 (0.072%), neg=0, invalid=762
- 0263: dt=103.680000, rms=0.598 (0.077%), neg=0, invalid=762
- 0264: dt=103.680000, rms=0.598 (0.090%), neg=0, invalid=762
- 0265: dt=103.680000, rms=0.597 (0.104%), neg=0, invalid=762
- 0266: dt=103.680000, rms=0.597 (0.095%), neg=0, invalid=762
- 0267: dt=103.680000, rms=0.596 (0.079%), neg=0, invalid=762
- 0268: dt=103.680000, rms=0.596 (0.080%), neg=0, invalid=762
- 0269: dt=103.680000, rms=0.595 (0.084%), neg=0, invalid=762
- 0270: dt=103.680000, rms=0.595 (0.084%), neg=0, invalid=762
- 0271: dt=103.680000, rms=0.594 (0.069%), neg=0, invalid=762
- 0272: dt=103.680000, rms=0.594 (0.067%), neg=0, invalid=762
- 0273: dt=103.680000, rms=0.593 (0.075%), neg=0, invalid=762
- 0274: dt=103.680000, rms=0.593 (0.077%), neg=0, invalid=762
- 0275: dt=103.680000, rms=0.593 (0.079%), neg=0, invalid=762
- 0276: dt=103.680000, rms=0.592 (0.075%), neg=0, invalid=762
- 0277: dt=103.680000, rms=0.592 (0.061%), neg=0, invalid=762
- 0278: dt=103.680000, rms=0.591 (0.057%), neg=0, invalid=762
- 0279: dt=103.680000, rms=0.591 (0.086%), neg=0, invalid=762
- 0280: dt=103.680000, rms=0.590 (0.062%), neg=0, invalid=762
- 0281: dt=103.680000, rms=0.590 (0.043%), neg=0, invalid=762
- 0282: dt=103.680000, rms=0.590 (0.073%), neg=0, invalid=762
- 0283: dt=103.680000, rms=0.589 (0.060%), neg=0, invalid=762
- 0284: dt=103.680000, rms=0.589 (0.044%), neg=0, invalid=762
- 0285: dt=103.680000, rms=0.589 (0.074%), neg=0, invalid=762
- 0286: dt=103.680000, rms=0.588 (0.051%), neg=0, invalid=762
- 0287: dt=103.680000, rms=0.588 (0.053%), neg=0, invalid=762
- 0288: dt=103.680000, rms=0.588 (0.058%), neg=0, invalid=762
- 0289: dt=103.680000, rms=0.588 (0.051%), neg=0, invalid=762
- 0290: dt=103.680000, rms=0.587 (0.054%), neg=0, invalid=762
- 0291: dt=103.680000, rms=0.587 (0.041%), neg=0, invalid=762
- 0292: dt=103.680000, rms=0.587 (0.032%), neg=0, invalid=762
- 0293: dt=103.680000, rms=0.586 (0.070%), neg=0, invalid=762
- 0294: dt=103.680000, rms=0.586 (0.042%), neg=0, invalid=762
- 0295: dt=103.680000, rms=0.586 (0.031%), neg=0, invalid=762
- 0296: dt=103.680000, rms=0.586 (0.040%), neg=0, invalid=762
- 0297: dt=103.680000, rms=0.585 (0.049%), neg=0, invalid=762
- 0298: dt=103.680000, rms=0.585 (0.037%), neg=0, invalid=762
- 0299: dt=103.680000, rms=0.585 (0.033%), neg=0, invalid=762
- 0300: dt=103.680000, rms=0.585 (0.048%), neg=0, invalid=762
- 0301: dt=103.680000, rms=0.585 (0.025%), neg=0, invalid=762
- 0302: dt=103.680000, rms=0.584 (0.032%), neg=0, invalid=762
- 0303: dt=103.680000, rms=0.584 (0.046%), neg=0, invalid=762
- 0304: dt=103.680000, rms=0.584 (0.027%), neg=0, invalid=762
- 0305: dt=103.680000, rms=0.584 (0.037%), neg=0, invalid=762
- 0306: dt=103.680000, rms=0.584 (0.032%), neg=0, invalid=762
- 0307: dt=103.680000, rms=0.583 (0.023%), neg=0, invalid=762
- 0308: dt=103.680000, rms=0.583 (0.035%), neg=0, invalid=762
- 0309: dt=103.680000, rms=0.583 (0.040%), neg=0, invalid=762
- 0310: dt=103.680000, rms=0.583 (0.023%), neg=0, invalid=762
- 0311: dt=103.680000, rms=0.583 (0.026%), neg=0, invalid=762
- 0312: dt=103.680000, rms=0.583 (0.027%), neg=0, invalid=762
- 0313: dt=103.680000, rms=0.582 (0.025%), neg=0, invalid=762
- 0314: dt=103.680000, rms=0.582 (0.036%), neg=0, invalid=762
- 0315: dt=103.680000, rms=0.582 (0.031%), neg=0, invalid=762
- 0316: dt=103.680000, rms=0.582 (0.020%), neg=0, invalid=762
- 0317: dt=103.680000, rms=0.582 (0.031%), neg=0, invalid=762
- 0318: dt=103.680000, rms=0.582 (0.015%), neg=0, invalid=762
- 0319: dt=103.680000, rms=0.582 (0.017%), neg=0, invalid=762
- 0320: dt=103.680000, rms=0.581 (0.033%), neg=0, invalid=762
- 0321: dt=103.680000, rms=0.581 (0.021%), neg=0, invalid=762
- 0322: dt=103.680000, rms=0.581 (0.026%), neg=0, invalid=762
- 0323: dt=103.680000, rms=0.581 (0.016%), neg=0, invalid=762
- 0324: dt=103.680000, rms=0.581 (0.001%), neg=0, invalid=762
- 0325: dt=62.208000, rms=0.581 (0.032%), neg=0, invalid=762
- 0326: dt=0.007594, rms=0.581 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.590, neg=0, invalid=762
- 0327: dt=25.600000, rms=0.588 (0.351%), neg=0, invalid=762
- 0328: dt=44.800000, rms=0.587 (0.213%), neg=0, invalid=762
- 0329: dt=44.800000, rms=0.584 (0.367%), neg=0, invalid=762
- 0330: dt=67.111111, rms=0.582 (0.346%), neg=0, invalid=762
- 0331: dt=11.200000, rms=0.581 (0.225%), neg=0, invalid=762
- 0332: dt=8.000000, rms=0.580 (0.124%), neg=0, invalid=762
- 0333: dt=0.700000, rms=0.580 (0.012%), neg=0, invalid=762
- 0334: dt=0.350000, rms=0.580 (0.006%), neg=0, invalid=762
- 0335: dt=0.175000, rms=0.580 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.582, neg=0, invalid=762
- 0336: dt=53.384615, rms=0.576 (0.902%), neg=0, invalid=762
- 0337: dt=32.000000, rms=0.574 (0.411%), neg=0, invalid=762
- 0338: dt=32.000000, rms=0.573 (0.216%), neg=0, invalid=762
- 0339: dt=38.400000, rms=0.571 (0.222%), neg=0, invalid=762
- 0340: dt=25.600000, rms=0.570 (0.179%), neg=0, invalid=762
- 0341: dt=38.400000, rms=0.569 (0.203%), neg=0, invalid=762
- 0342: dt=11.200000, rms=0.569 (0.107%), neg=0, invalid=762
- 0343: dt=153.600000, rms=0.566 (0.422%), neg=0, invalid=762
- 0344: dt=20.235294, rms=0.564 (0.348%), neg=0, invalid=762
- 0345: dt=25.600000, rms=0.564 (0.101%), neg=0, invalid=762
- 0346: dt=38.400000, rms=0.563 (0.126%), neg=0, invalid=762
- 0347: dt=11.200000, rms=0.563 (0.081%), neg=0, invalid=762
- 0348: dt=153.600000, rms=0.561 (0.244%), neg=0, invalid=762
- 0349: dt=11.200000, rms=0.560 (0.228%), neg=0, invalid=762
- 0350: dt=32.000000, rms=0.559 (0.108%), neg=0, invalid=762
- 0351: dt=11.200000, rms=0.559 (0.060%), neg=0, invalid=762
- 0352: dt=128.000000, rms=0.558 (0.161%), neg=0, invalid=762
- 0353: dt=20.506122, rms=0.557 (0.184%), neg=0, invalid=762
- 0354: dt=32.000000, rms=0.557 (0.060%), neg=0, invalid=762
- 0355: dt=32.000000, rms=0.556 (0.092%), neg=0, invalid=762
- 0356: dt=11.200000, rms=0.556 (0.037%), neg=0, invalid=762
- 0357: dt=11.200000, rms=0.556 (0.024%), neg=0, invalid=762
- 0358: dt=11.200000, rms=0.556 (0.044%), neg=0, invalid=762
- 0359: dt=11.200000, rms=0.555 (0.057%), neg=0, invalid=762
- 0360: dt=11.200000, rms=0.555 (0.074%), neg=0, invalid=762
- 0361: dt=11.200000, rms=0.554 (0.093%), neg=0, invalid=762
- 0362: dt=11.200000, rms=0.554 (0.095%), neg=0, invalid=762
- 0363: dt=11.200000, rms=0.553 (0.111%), neg=0, invalid=762
- 0364: dt=11.200000, rms=0.553 (0.115%), neg=0, invalid=762
- 0365: dt=11.200000, rms=0.552 (0.117%), neg=0, invalid=762
- 0366: dt=11.200000, rms=0.551 (0.123%), neg=0, invalid=762
- 0367: dt=11.200000, rms=0.551 (0.127%), neg=0, invalid=762
- 0368: dt=11.200000, rms=0.550 (0.125%), neg=0, invalid=762
- 0369: dt=11.200000, rms=0.549 (0.121%), neg=0, invalid=762
- 0370: dt=11.200000, rms=0.549 (0.125%), neg=0, invalid=762
- 0371: dt=11.200000, rms=0.548 (0.124%), neg=0, invalid=762
- 0372: dt=11.200000, rms=0.547 (0.122%), neg=0, invalid=762
- 0373: dt=11.200000, rms=0.547 (0.113%), neg=0, invalid=762
- 0374: dt=11.200000, rms=0.547 (0.011%), neg=0, invalid=762
- 0375: dt=11.200000, rms=0.546 (0.020%), neg=0, invalid=762
- 0376: dt=5.600000, rms=0.546 (0.002%), neg=0, invalid=762
- 0377: dt=2.400000, rms=0.546 (0.002%), neg=0, invalid=762
- 0378: dt=0.150000, rms=0.546 (-0.002%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.565, neg=0, invalid=762
- 0379: dt=0.000000, rms=0.564 (0.154%), neg=0, invalid=762
- 0380: dt=0.000000, rms=0.564 (0.000%), neg=0, invalid=762
- 0381: dt=0.150000, rms=0.564 (-0.015%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.565, neg=0, invalid=762
- 0382: dt=0.000000, rms=0.564 (0.154%), neg=0, invalid=762
- 0383: dt=0.000000, rms=0.564 (0.000%), neg=0, invalid=762
- 0384: dt=0.150000, rms=0.564 (-0.015%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.600, neg=0, invalid=762
- 0385: dt=1.280000, rms=0.597 (0.494%), neg=0, invalid=762
- 0386: dt=0.000000, rms=0.597 (-0.002%), neg=0, invalid=762
- 0387: dt=0.100000, rms=0.597 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.597, neg=0, invalid=762
- 0388: dt=0.448000, rms=0.596 (0.184%), neg=0, invalid=762
- 0389: dt=0.192000, rms=0.596 (0.007%), neg=0, invalid=762
- 0390: dt=0.192000, rms=0.596 (-0.003%), 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=0.553, neg=0, invalid=762
- 0391: dt=0.320000, rms=0.540 (2.329%), neg=0, invalid=762
- 0392: dt=0.384000, rms=0.533 (1.230%), neg=0, invalid=762
- 0393: dt=0.320000, rms=0.531 (0.425%), neg=0, invalid=762
- 0394: dt=0.320000, rms=0.529 (0.265%), neg=0, invalid=762
- 0395: dt=0.320000, rms=0.529 (0.187%), neg=0, invalid=762
- 0396: dt=0.320000, rms=0.528 (0.139%), neg=0, invalid=762
- 0397: dt=0.320000, rms=0.527 (0.109%), neg=0, invalid=762
- 0398: dt=0.320000, rms=0.527 (0.092%), neg=0, invalid=762
- 0399: dt=0.320000, rms=0.526 (0.067%), neg=0, invalid=762
- 0400: dt=0.320000, rms=0.526 (0.063%), neg=0, invalid=762
- 0401: dt=0.320000, rms=0.526 (0.052%), neg=0, invalid=762
- 0402: dt=0.320000, rms=0.526 (0.042%), neg=0, invalid=762
- 0403: dt=0.320000, rms=0.525 (0.039%), neg=0, invalid=762
- 0404: dt=0.320000, rms=0.525 (0.069%), neg=0, invalid=762
- 0405: dt=0.320000, rms=0.525 (0.024%), neg=0, invalid=762
- 0406: dt=0.320000, rms=0.525 (0.046%), neg=0, invalid=762
- 0407: dt=0.320000, rms=0.524 (0.018%), neg=0, invalid=762
- 0408: dt=0.320000, rms=0.524 (0.038%), neg=0, invalid=762
- 0409: dt=0.320000, rms=0.524 (0.012%), neg=0, invalid=762
- 0410: dt=0.320000, rms=0.524 (0.016%), neg=0, invalid=762
- 0411: dt=0.320000, rms=0.524 (0.013%), neg=0, invalid=762
- 0412: dt=0.112000, rms=0.524 (0.004%), neg=0, invalid=762
- 0413: dt=0.112000, rms=0.524 (0.006%), neg=0, invalid=762
- 0414: dt=0.112000, rms=0.524 (0.014%), neg=0, invalid=762
- 0415: dt=0.112000, rms=0.524 (0.006%), neg=0, invalid=762
- 0416: dt=0.112000, rms=0.524 (0.012%), neg=0, invalid=762
- 0417: dt=0.112000, rms=0.524 (0.011%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.525, neg=0, invalid=762
- 0418: dt=0.112000, rms=0.523 (0.421%), neg=0, invalid=762
- 0419: dt=0.197917, rms=0.521 (0.324%), neg=0, invalid=762
- 0420: dt=0.112000, rms=0.520 (0.113%), neg=0, invalid=762
- 0421: dt=0.112000, rms=0.520 (0.083%), neg=0, invalid=762
- 0422: dt=0.112000, rms=0.519 (0.066%), neg=0, invalid=762
- 0423: dt=0.112000, rms=0.519 (0.047%), neg=0, invalid=762
- 0424: dt=0.112000, rms=0.519 (0.042%), neg=0, invalid=762
- 0425: dt=0.112000, rms=0.519 (0.060%), neg=0, invalid=762
- 0426: dt=0.112000, rms=0.518 (0.070%), neg=0, invalid=762
- 0427: dt=0.112000, rms=0.518 (0.061%), neg=0, invalid=762
- 0428: dt=0.112000, rms=0.518 (0.040%), neg=0, invalid=762
- 0429: dt=0.112000, rms=0.518 (0.007%), neg=0, invalid=762
- 0430: dt=0.112000, rms=0.518 (-0.022%), neg=0, invalid=762
- 0431: dt=0.000000, rms=0.518 (0.000%), 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=0.516, neg=0, invalid=762
- 0432: dt=0.000000, rms=0.515 (0.183%), neg=0, invalid=762
- 0433: dt=0.000000, rms=0.515 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.516, neg=0, invalid=762
- 0434: dt=295.936000, rms=0.515 (0.212%), neg=0, invalid=762
- 0435: dt=110.976000, rms=0.515 (0.020%), neg=0, invalid=762
- 0436: dt=110.976000, rms=0.515 (0.011%), neg=0, invalid=762
- 0437: dt=110.976000, rms=0.515 (0.006%), neg=0, invalid=762
- 0438: dt=110.976000, rms=0.515 (0.024%), neg=0, invalid=762
- 0439: dt=110.976000, rms=0.515 (0.017%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.516, neg=0, invalid=762
- 0440: dt=31.104000, rms=0.515 (0.223%), neg=0, invalid=762
- 0441: dt=36.288000, rms=0.515 (0.022%), neg=0, invalid=762
- 0442: dt=36.288000, rms=0.515 (0.011%), neg=0, invalid=762
- 0443: dt=36.288000, rms=0.515 (-0.018%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.516, neg=0, invalid=762
- 0444: dt=124.416000, rms=0.513 (0.509%), neg=0, invalid=762
- 0445: dt=36.288000, rms=0.512 (0.096%), neg=0, invalid=762
- 0446: dt=36.288000, rms=0.512 (0.045%), neg=0, invalid=762
- 0447: dt=36.288000, rms=0.512 (0.065%), neg=0, invalid=762
- 0448: dt=36.288000, rms=0.511 (0.080%), neg=0, invalid=762
- 0449: dt=36.288000, rms=0.511 (0.092%), neg=0, invalid=762
- 0450: dt=36.288000, rms=0.510 (0.099%), neg=0, invalid=762
- 0451: dt=36.288000, rms=0.510 (0.090%), neg=0, invalid=762
- 0452: dt=36.288000, rms=0.510 (0.072%), neg=0, invalid=762
- 0453: dt=36.288000, rms=0.510 (0.017%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.511, neg=0, invalid=762
- 0454: dt=38.400000, rms=0.507 (0.670%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 7 iterations, nbhd size=1, neg = 0
- 0455: dt=66.105263, rms=0.505 (0.398%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0456: dt=25.600000, rms=0.504 (0.314%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0457: dt=38.400000, rms=0.503 (0.178%), neg=0, invalid=762
- 0458: dt=38.400000, rms=0.502 (0.151%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 8 iterations, nbhd size=1, neg = 0
- 0459: dt=38.400000, rms=0.500 (0.341%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 9 iterations, nbhd size=1, neg = 0
- 0460: dt=38.400000, rms=0.500 (0.173%), neg=0, invalid=762
- iter 0, gcam->neg = 10
- after 8 iterations, nbhd size=1, neg = 0
- 0461: dt=38.400000, rms=0.498 (0.334%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 9 iterations, nbhd size=1, neg = 0
- 0462: dt=38.400000, rms=0.497 (0.158%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 4 iterations, nbhd size=0, neg = 0
- 0463: dt=38.400000, rms=0.496 (0.256%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 10 iterations, nbhd size=1, neg = 0
- 0464: dt=38.400000, rms=0.495 (0.178%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 11 iterations, nbhd size=1, neg = 0
- 0465: dt=38.400000, rms=0.494 (0.243%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 8 iterations, nbhd size=1, neg = 0
- 0466: dt=38.400000, rms=0.493 (0.211%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0467: dt=38.400000, rms=0.492 (0.147%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 11 iterations, nbhd size=1, neg = 0
- 0468: dt=38.400000, rms=0.491 (0.199%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 1 iterations, nbhd size=0, neg = 0
- 0469: dt=38.400000, rms=0.490 (0.195%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 1 iterations, nbhd size=0, neg = 0
- 0470: dt=38.400000, rms=0.489 (0.153%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 4 iterations, nbhd size=0, neg = 0
- 0471: dt=38.400000, rms=0.489 (0.059%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 11 iterations, nbhd size=1, neg = 0
- 0472: dt=38.400000, rms=0.488 (0.148%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0473: dt=38.400000, rms=0.488 (0.078%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 4 iterations, nbhd size=0, neg = 0
- 0474: dt=38.400000, rms=0.487 (0.138%), neg=0, invalid=762
- 0475: dt=38.400000, rms=0.487 (-0.095%), neg=0, invalid=762
- 0476: dt=11.200000, rms=0.487 (0.043%), neg=0, invalid=762
- 0477: dt=25.600000, rms=0.487 (0.014%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.488, neg=0, invalid=762
- 0478: dt=69.097345, rms=0.483 (0.940%), neg=0, invalid=762
- 0479: dt=11.200000, rms=0.483 (0.157%), neg=0, invalid=762
- 0480: dt=11.200000, rms=0.482 (0.066%), neg=0, invalid=762
- 0481: dt=11.200000, rms=0.482 (0.069%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0482: dt=11.200000, rms=0.482 (0.047%), neg=0, invalid=762
- 0483: dt=11.200000, rms=0.482 (0.061%), neg=0, invalid=762
- 0484: dt=11.200000, rms=0.481 (0.083%), neg=0, invalid=762
- 0485: dt=11.200000, rms=0.481 (0.088%), neg=0, invalid=762
- 0486: dt=11.200000, rms=0.480 (0.068%), neg=0, invalid=762
- 0487: dt=32.000000, rms=0.480 (0.032%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.490, neg=0, invalid=762
- 0488: dt=2.880000, rms=0.488 (0.242%), neg=0, invalid=762
- 0489: dt=1.008000, rms=0.488 (0.007%), neg=0, invalid=762
- 0490: dt=1.008000, rms=0.488 (0.001%), neg=0, invalid=762
- 0491: dt=1.008000, rms=0.488 (-0.013%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.489, neg=0, invalid=762
- 0492: dt=6.933333, rms=0.488 (0.343%), neg=0, invalid=762
- 0493: dt=7.333333, rms=0.487 (0.052%), neg=0, invalid=762
- 0494: dt=7.333333, rms=0.487 (0.045%), neg=0, invalid=762
- 0495: dt=7.333333, rms=0.487 (0.001%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0496: dt=7.333333, rms=0.487 (-0.077%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.493, neg=0, invalid=762
- 0497: dt=0.000000, rms=0.492 (0.208%), neg=0, invalid=762
- 0498: dt=0.000000, rms=0.492 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.493, neg=0, invalid=762
- 0499: dt=0.000000, rms=0.492 (0.208%), neg=0, invalid=762
- 0500: dt=0.000000, rms=0.492 (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=0.485, neg=0, invalid=762
- iter 0, gcam->neg = 888
- after 17 iterations, nbhd size=1, neg = 0
- 0501: dt=2.282389, rms=0.448 (7.572%), neg=0, invalid=762
- 0502: dt=0.096000, rms=0.448 (0.080%), neg=0, invalid=762
- 0503: dt=0.096000, rms=0.448 (-0.077%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.449, neg=0, invalid=762
- 0504: dt=0.080000, rms=0.448 (0.315%), neg=0, invalid=762
- 0505: dt=0.001750, rms=0.448 (-0.001%), neg=0, invalid=762
- 0506: dt=0.001750, rms=0.448 (0.000%), neg=0, invalid=762
- 0507: dt=0.001750, rms=0.448 (-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=0.432, neg=0, invalid=762
- 0508: dt=0.000000, rms=0.432 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0509: dt=32.368000, rms=0.432 (0.003%), neg=0, invalid=762
- 0510: dt=27.744000, rms=0.432 (0.001%), neg=0, invalid=762
- 0511: dt=27.744000, rms=0.432 (0.000%), neg=0, invalid=762
- 0512: dt=27.744000, rms=0.432 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0513: dt=0.000000, rms=0.432 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0514: dt=82.944000, rms=0.432 (0.037%), neg=0, invalid=762
- 0515: dt=124.416000, rms=0.432 (0.048%), neg=0, invalid=762
- 0516: dt=31.104000, rms=0.431 (0.007%), neg=0, invalid=762
- 0517: dt=31.104000, rms=0.431 (0.005%), neg=0, invalid=762
- 0518: dt=31.104000, rms=0.431 (0.008%), neg=0, invalid=762
- 0519: dt=31.104000, rms=0.431 (0.012%), neg=0, invalid=762
- 0520: dt=31.104000, rms=0.431 (0.014%), neg=0, invalid=762
- 0521: dt=31.104000, rms=0.431 (0.014%), neg=0, invalid=762
- 0522: dt=31.104000, rms=0.431 (0.011%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0523: dt=11.200000, rms=0.432 (0.051%), neg=0, invalid=762
- 0524: dt=8.000000, rms=0.432 (0.011%), neg=0, invalid=762
- 0525: dt=8.000000, rms=0.432 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0526: dt=87.646910, rms=0.429 (0.623%), neg=0, invalid=762
- 0527: dt=25.600000, rms=0.428 (0.221%), neg=0, invalid=762
- 0528: dt=25.600000, rms=0.428 (0.087%), neg=0, invalid=762
- 0529: dt=25.600000, rms=0.427 (0.118%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0530: dt=25.600000, rms=0.427 (0.155%), neg=0, invalid=762
- 0531: dt=25.600000, rms=0.426 (0.170%), neg=0, invalid=762
- 0532: dt=25.600000, rms=0.425 (0.188%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0533: dt=25.600000, rms=0.424 (0.167%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0534: dt=25.600000, rms=0.424 (0.149%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0535: dt=25.600000, rms=0.423 (0.119%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 7 iterations, nbhd size=1, neg = 0
- 0536: dt=25.600000, rms=0.423 (0.091%), neg=0, invalid=762
- 0537: dt=44.800000, rms=0.423 (0.025%), neg=0, invalid=762
- 0538: dt=44.800000, rms=0.423 (-0.007%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.427, neg=0, invalid=762
- 0539: dt=2.304000, rms=0.427 (0.015%), neg=0, invalid=762
- 0540: dt=0.576000, rms=0.427 (0.001%), neg=0, invalid=762
- 0541: dt=0.576000, rms=0.427 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.427, neg=0, invalid=762
- 0542: dt=8.258065, rms=0.427 (0.078%), neg=0, invalid=762
- 0543: dt=11.750000, rms=0.426 (0.060%), neg=0, invalid=762
- 0544: dt=11.750000, rms=0.426 (0.076%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0545: dt=11.750000, rms=0.426 (0.106%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 11 iterations, nbhd size=1, neg = 0
- 0546: dt=11.750000, rms=0.425 (0.117%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 3 iterations, nbhd size=0, neg = 0
- 0547: dt=11.750000, rms=0.424 (0.196%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 2 iterations, nbhd size=0, neg = 0
- 0548: dt=11.750000, rms=0.423 (0.236%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 5 iterations, nbhd size=0, neg = 0
- 0549: dt=11.750000, rms=0.422 (0.189%), neg=0, invalid=762
- iter 0, gcam->neg = 29
- after 5 iterations, nbhd size=0, neg = 0
- 0550: dt=11.750000, rms=0.422 (0.115%), neg=0, invalid=762
- iter 0, gcam->neg = 24
- after 14 iterations, nbhd size=1, neg = 0
- 0551: dt=11.750000, rms=0.422 (-0.062%), neg=0, invalid=762
- 0552: dt=0.001688, rms=0.422 (0.000%), neg=0, invalid=762
- 0553: dt=0.000000, rms=0.422 (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=0.429, neg=0, invalid=762
- 0554: dt=0.000000, rms=0.429 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.429, neg=0, invalid=762
- 0555: dt=0.000000, rms=0.429 (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=0.417, neg=0, invalid=762
- iter 0, gcam->neg = 977
- after 16 iterations, nbhd size=1, neg = 0
- 0556: dt=1.498062, rms=0.406 (2.762%), neg=0, invalid=762
- 0557: dt=0.000013, rms=0.406 (0.000%), neg=0, invalid=762
- 0558: dt=0.000013, rms=0.406 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.406, neg=0, invalid=762
- 0559: dt=0.064000, rms=0.405 (0.031%), neg=0, invalid=762
- 0560: dt=0.020000, rms=0.405 (0.002%), neg=0, invalid=762
- 0561: dt=0.020000, rms=0.405 (-0.001%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 2 hours, 26 minutes and 19 seconds.
- mri_ca_register utimesec 9524.458062
- mri_ca_register stimesec 9.812508
- mri_ca_register ru_maxrss 1335004
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 3743978
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 62736
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 4241
- mri_ca_register ru_nivcsw 41527
- FSRUNTIME@ mri_ca_register 2.4385 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 19:46:28 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-540
- 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-6.0.0/0050750/mri
- mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz
- == Number of threads available to mri_ca_label for OpenMP = 2 ==
- relabeling unlikely voxels with window_size = 9 and prior threshold 0.30
- using Gibbs prior factor = 0.500
- renormalizing sequences with structure alignment, equivalent to:
- -renormalize
- -renormalize_mean 0.500
- -regularize 0.500
- reading 1 input volumes
- reading classifier array from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
- reading input volume from norm.mgz
- average std[0] = 7.3
- reading transform from transforms/talairach.m3z
- setting orig areas to linear transform determinant scaled 6.79
- 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 = 0.13940 ( 3)
- Left_Lateral_Ventricle (4): linear fit = 0.09 x + 0.0 (1070 voxels, overlap=0.007)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (1070 voxels, peak = 2), gca=8.0
- gca peak = 0.17677 (13)
- mri peak = 0.10599 ( 3)
- Right_Lateral_Ventricle (43): linear fit = 0.08 x + 0.0 (1231 voxels, overlap=0.008)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (1231 voxels, peak = 1), gca=5.2
- gca peak = 0.28129 (95)
- mri peak = 0.09184 (93)
- Right_Pallidum (52): linear fit = 0.96 x + 0.0 (778 voxels, overlap=1.017)
- Right_Pallidum (52): linear fit = 0.96 x + 0.0 (778 voxels, peak = 92), gca=91.7
- gca peak = 0.16930 (96)
- mri peak = 0.10729 (95)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (784 voxels, overlap=0.870)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (784 voxels, peak = 95), gca=94.6
- gca peak = 0.24553 (55)
- mri peak = 0.08864 (57)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (954 voxels, overlap=1.009)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (954 voxels, peak = 52), gca=52.0
- gca peak = 0.30264 (59)
- mri peak = 0.09237 (57)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (940 voxels, overlap=1.009)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (940 voxels, peak = 55), gca=55.2
- gca peak = 0.07580 (103)
- mri peak = 0.07926 (106)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (42162 voxels, overlap=0.643)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (42162 voxels, peak = 107), gca=106.6
- gca peak = 0.07714 (104)
- mri peak = 0.07918 (108)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (44235 voxels, overlap=0.567)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (44235 voxels, peak = 109), gca=108.7
- gca peak = 0.09712 (58)
- mri peak = 0.06356 (41)
- Left_Cerebral_Cortex (3): linear fit = 0.75 x + 0.0 (37728 voxels, overlap=0.278)
- Left_Cerebral_Cortex (3): linear fit = 0.75 x + 0.0 (37728 voxels, peak = 43), gca=43.2
- gca peak = 0.11620 (58)
- mri peak = 0.05599 (42)
- Right_Cerebral_Cortex (42): linear fit = 0.75 x + 0.0 (36741 voxels, overlap=0.261)
- Right_Cerebral_Cortex (42): linear fit = 0.75 x + 0.0 (36741 voxels, peak = 44), gca=43.8
- gca peak = 0.30970 (66)
- mri peak = 0.09476 (66)
- Right_Caudate (50): linear fit = 0.99 x + 0.0 (1298 voxels, overlap=1.008)
- Right_Caudate (50): linear fit = 0.99 x + 0.0 (1298 voxels, peak = 65), gca=65.0
- gca peak = 0.15280 (69)
- mri peak = 0.10427 (69)
- Left_Caudate (11): linear fit = 0.93 x + 0.0 (1168 voxels, overlap=0.590)
- Left_Caudate (11): linear fit = 0.93 x + 0.0 (1168 voxels, peak = 64), gca=63.8
- gca peak = 0.13902 (56)
- mri peak = 0.04432 (51)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (24367 voxels, overlap=0.925)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (24367 voxels, peak = 53), gca=52.9
- gca peak = 0.14777 (55)
- mri peak = 0.04553 (51)
- Right_Cerebellum_Cortex (47): linear fit = 0.89 x + 0.0 (22879 voxels, overlap=0.774)
- Right_Cerebellum_Cortex (47): linear fit = 0.89 x + 0.0 (22879 voxels, peak = 49), gca=49.2
- gca peak = 0.16765 (84)
- mri peak = 0.07477 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (6678 voxels, overlap=0.729)
- Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (6678 voxels, peak = 89), gca=89.5
- gca peak = 0.18739 (84)
- mri peak = 0.06981 (88)
- Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (6038 voxels, overlap=0.862)
- Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (6038 voxels, peak = 89), gca=89.5
- gca peak = 0.29869 (57)
- mri peak = 0.08199 (61)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (662 voxels, overlap=1.032)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (662 voxels, peak = 60), gca=59.6
- gca peak = 0.33601 (57)
- mri peak = 0.06929 (56)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (690 voxels, overlap=1.032)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (690 voxels, peak = 60), gca=59.6
- gca peak = 0.11131 (90)
- mri peak = 0.06840 (87)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4553 voxels, overlap=0.974)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4553 voxels, peak = 91), gca=91.3
- gca peak = 0.11793 (83)
- mri peak = 0.06103 (87)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (4555 voxels, overlap=0.979)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (4555 voxels, peak = 87), gca=86.7
- gca peak = 0.08324 (81)
- mri peak = 0.05634 (72)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (2674 voxels, overlap=0.925)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (2674 voxels, peak = 79), gca=79.0
- gca peak = 0.10360 (77)
- mri peak = 0.05700 (71)
- Right_Putamen (51): linear fit = 0.96 x + 0.0 (2424 voxels, overlap=0.856)
- Right_Putamen (51): linear fit = 0.96 x + 0.0 (2424 voxels, peak = 74), gca=74.3
- gca peak = 0.08424 (78)
- mri peak = 0.06534 (85)
- Brain_Stem (16): linear fit = 1.12 x + 0.0 (12561 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.12 x + 0.0 (12561 voxels, peak = 88), gca=87.8
- gca peak = 0.12631 (89)
- mri peak = 0.05698 (96)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1574 voxels, overlap=0.550)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1574 voxels, peak = 100), gca=100.1
- gca peak = 0.14500 (87)
- mri peak = 0.05138 (98)
- Left_VentralDC (28): linear fit = 1.13 x + 0.0 (1661 voxels, overlap=0.514)
- Left_VentralDC (28): linear fit = 1.13 x + 0.0 (1661 voxels, peak = 99), gca=98.7
- gca peak = 0.14975 (24)
- mri peak = 0.11155 ( 7)
- gca peak = 0.19357 (14)
- mri peak = 0.11908 ( 5)
- Fourth_Ventricle (15): linear fit = 0.28 x + 0.0 (156 voxels, overlap=0.058)
- Fourth_Ventricle (15): linear fit = 0.28 x + 0.0 (156 voxels, peak = 4), gca=4.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak Fourth_Ventricle = 0.19357 (14)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.91 x + 0.0
- estimating mean wm scale to be 1.04 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 = 0.13940 ( 3)
- Left_Lateral_Ventricle (4): linear fit = 0.28 x + 0.0 (1070 voxels, overlap=0.923)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (1070 voxels, peak = 2), gca=2.8
- gca peak = 0.30173 ( 5)
- mri peak = 0.10599 ( 3)
- Right_Lateral_Ventricle (43): linear fit = 0.63 x + 0.0 (1231 voxels, overlap=0.871)
- Right_Lateral_Ventricle (43): linear fit = 0.63 x + 0.0 (1231 voxels, peak = 3), gca=3.2
- gca peak = 0.26756 (90)
- mri peak = 0.09184 (93)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (778 voxels, overlap=1.008)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (778 voxels, peak = 90), gca=89.6
- gca peak = 0.18436 (95)
- mri peak = 0.10729 (95)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (784 voxels, overlap=1.002)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (784 voxels, peak = 95), gca=94.5
- gca peak = 0.27737 (52)
- mri peak = 0.08864 (57)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (954 voxels, overlap=1.006)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (954 voxels, peak = 52), gca=52.0
- gca peak = 0.26463 (55)
- mri peak = 0.09237 (57)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (940 voxels, overlap=0.999)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (940 voxels, peak = 55), gca=55.0
- gca peak = 0.07501 (106)
- mri peak = 0.07926 (106)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (42162 voxels, overlap=0.793)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (42162 voxels, peak = 106), gca=106.0
- gca peak = 0.07788 (109)
- mri peak = 0.07918 (108)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (44235 voxels, overlap=0.761)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (44235 voxels, peak = 109), gca=109.0
- gca peak = 0.13076 (43)
- mri peak = 0.06356 (41)
- Left_Cerebral_Cortex (3): linear fit = 1.03 x + 0.0 (37728 voxels, overlap=0.944)
- Left_Cerebral_Cortex (3): linear fit = 1.03 x + 0.0 (37728 voxels, peak = 45), gca=44.5
- gca peak = 0.15264 (44)
- mri peak = 0.05599 (42)
- Right_Cerebral_Cortex (42): linear fit = 1.03 x + 0.0 (36741 voxels, overlap=0.955)
- Right_Cerebral_Cortex (42): linear fit = 1.03 x + 0.0 (36741 voxels, peak = 46), gca=45.5
- gca peak = 0.31027 (65)
- mri peak = 0.09476 (66)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (1298 voxels, overlap=1.008)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (1298 voxels, peak = 65), gca=65.0
- gca peak = 0.13777 (72)
- mri peak = 0.10427 (69)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (1168 voxels, overlap=0.990)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (1168 voxels, peak = 72), gca=72.0
- gca peak = 0.14779 (52)
- mri peak = 0.04432 (51)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (24367 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (24367 voxels, peak = 50), gca=50.2
- gca peak = 0.16597 (49)
- mri peak = 0.04553 (51)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (22879 voxels, overlap=1.000)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (22879 voxels, peak = 49), gca=49.0
- gca peak = 0.15948 (90)
- mri peak = 0.07477 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (6678 voxels, overlap=0.960)
- Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (6678 voxels, peak = 89), gca=88.7
- gca peak = 0.15042 (90)
- mri peak = 0.06981 (88)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (6038 voxels, overlap=0.988)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (6038 voxels, peak = 88), gca=87.8
- gca peak = 0.31733 (61)
- mri peak = 0.08199 (61)
- Left_Amygdala (18): linear fit = 1.01 x + 0.0 (662 voxels, overlap=1.015)
- Left_Amygdala (18): linear fit = 1.01 x + 0.0 (662 voxels, peak = 62), gca=61.9
- gca peak = 0.32226 (60)
- mri peak = 0.06929 (56)
- Right_Amygdala (54): linear fit = 1.02 x + 0.0 (690 voxels, overlap=1.014)
- Right_Amygdala (54): linear fit = 1.02 x + 0.0 (690 voxels, peak = 62), gca=61.5
- gca peak = 0.10566 (90)
- mri peak = 0.06840 (87)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4553 voxels, overlap=0.991)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4553 voxels, peak = 91), gca=91.3
- gca peak = 0.09554 (90)
- mri peak = 0.06103 (87)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4555 voxels, overlap=0.993)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4555 voxels, peak = 90), gca=90.0
- gca peak = 0.08313 (79)
- mri peak = 0.05634 (72)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (2674 voxels, overlap=0.923)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (2674 voxels, peak = 78), gca=77.8
- gca peak = 0.09182 (72)
- mri peak = 0.05700 (71)
- Right_Putamen (51): linear fit = 0.99 x + 0.0 (2424 voxels, overlap=0.920)
- Right_Putamen (51): linear fit = 0.99 x + 0.0 (2424 voxels, peak = 71), gca=70.9
- gca peak = 0.07952 (88)
- mri peak = 0.06534 (85)
- Brain_Stem (16): linear fit = 0.99 x + 0.0 (12561 voxels, overlap=0.825)
- Brain_Stem (16): linear fit = 0.99 x + 0.0 (12561 voxels, peak = 87), gca=86.7
- gca peak = 0.10013 (100)
- mri peak = 0.05698 (96)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1574 voxels, overlap=0.870)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1574 voxels, peak = 100), gca=100.5
- gca peak = 0.15404 (97)
- mri peak = 0.05138 (98)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1661 voxels, overlap=0.941)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1661 voxels, peak = 97), gca=97.5
- gca peak = 0.33708 (10)
- mri peak = 0.11155 ( 7)
- gca peak = 0.45928 ( 6)
- mri peak = 0.11908 ( 5)
- Fourth_Ventricle (15): linear fit = 0.73 x + 0.0 (156 voxels, overlap=0.422)
- Fourth_Ventricle (15): linear fit = 0.73 x + 0.0 (156 voxels, peak = 4), gca=4.4
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.17854 (25)
- gca peak Left_Thalamus = 0.64095 (88)
- gca peak Third_Ventricle = 0.33708 (10)
- gca peak CSF = 0.26605 (13)
- gca peak Left_Accumbens_area = 0.54646 (57)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.67383 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24804 (22)
- gca peak Right_Accumbens_area = 0.45106 (64)
- gca peak Right_vessel = 0.71728 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65560 (13)
- gca peak WM_hypointensities = 0.06831 (79)
- gca peak non_WM_hypointensities = 0.09816 (45)
- gca peak Optic_Chiasm = 0.59400 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.02 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.59 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
- 61927 voxels changed in iteration 0 of unlikely voxel relabeling
- 110 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
- 24624 gm and wm labels changed (%24 to gray, %76 to white out of all changed labels)
- 333 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 76303 changed. image ll: -2.143, PF=0.500
- pass 2: 23456 changed. image ll: -2.142, PF=0.500
- pass 3: 8681 changed.
- pass 4: 3618 changed.
- 37100 voxels changed in iteration 0 of unlikely voxel relabeling
- 374 voxels changed in iteration 1 of unlikely voxel relabeling
- 27 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 5962 voxels changed in iteration 0 of unlikely voxel relabeling
- 85 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
- 4967 voxels changed in iteration 0 of unlikely voxel relabeling
- 45 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 4509 voxels changed in iteration 0 of unlikely voxel relabeling
- 43 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 3769.489950
- mri_ca_label stimesec 1.423783
- mri_ca_label ru_maxrss 2102892
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 697281
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 62728
- mri_ca_label ru_oublock 504
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 288
- mri_ca_label ru_nivcsw 5184
- auto-labeling took 62 minutes and 5 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/transforms/cc_up.lta 0050750
- 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-6.0.0/0050750/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/norm.mgz
- 23542 voxels in left wm, 54242 in right wm, xrange [122, 130]
- searching rotation angles z=[-6 8], y=[-9 5]
-
searching scale 1 Z rot -6.5
searching scale 1 Z rot -6.2
searching scale 1 Z rot -6.0
searching scale 1 Z rot -5.7
searching scale 1 Z rot -5.5
searching scale 1 Z rot -5.2
searching scale 1 Z rot -5.0
searching scale 1 Z rot -4.7
searching scale 1 Z rot -4.5
searching scale 1 Z rot -4.2
searching scale 1 Z rot -4.0
searching scale 1 Z rot -3.7
searching scale 1 Z rot -3.5
searching scale 1 Z rot -3.2
searching scale 1 Z rot -3.0
searching scale 1 Z rot -2.7
searching scale 1 Z rot -2.5
searching scale 1 Z rot -2.2
searching scale 1 Z rot -2.0
searching scale 1 Z rot -1.7
searching scale 1 Z rot -1.5
searching scale 1 Z rot -1.2
searching scale 1 Z rot -1.0
searching scale 1 Z rot -0.7
searching scale 1 Z rot -0.5
searching scale 1 Z rot -0.2
searching scale 1 Z rot 0.0
searching scale 1 Z rot 0.3
searching scale 1 Z rot 0.5
searching scale 1 Z rot 0.8
searching scale 1 Z rot 1.0
searching scale 1 Z rot 1.3
searching scale 1 Z rot 1.5
searching scale 1 Z rot 1.8
searching scale 1 Z rot 2.0
searching scale 1 Z rot 2.3
searching scale 1 Z rot 2.5
searching scale 1 Z rot 2.8
searching scale 1 Z rot 3.0
searching scale 1 Z rot 3.3
searching scale 1 Z rot 3.5
searching scale 1 Z rot 3.8
searching scale 1 Z rot 4.0
searching scale 1 Z rot 4.3
searching scale 1 Z rot 4.5
searching scale 1 Z rot 4.8
searching scale 1 Z rot 5.0
searching scale 1 Z rot 5.3
searching scale 1 Z rot 5.5
searching scale 1 Z rot 5.8
searching scale 1 Z rot 6.0
searching scale 1 Z rot 6.3
searching scale 1 Z rot 6.5
searching scale 1 Z rot 6.8
searching scale 1 Z rot 7.0 global minimum found at slice 127.0, rotations (-1.64, 0.28)
- final transformation (x=127.0, yr=-1.644, zr=0.276):
- 0.99958 -0.00482 -0.02869 4.51957;
- 0.00481 0.99999 -0.00014 27.40418;
- 0.02869 0.00000 0.99959 20.39857;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [126, 130] in xformed coordinates
- best xformed slice 128
- cc center is found at 128 100 104
- eigenvectors:
- 0.00055 0.00039 1.00000;
- -0.10824 -0.99412 0.00045;
- 0.99412 -0.10824 -0.00050;
- error in mid anterior detected - correcting...
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/aseg.auto.mgz...
- corpus callosum segmentation took 0.7 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 20:49:16 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 20:49:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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...
- 1400 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 45 (45), valley at 16 (16)
- csf peak at 23, setting threshold to 37
- 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 46 (46), valley at 17 (17)
- csf peak at 24, setting threshold to 38
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 2 minutes and 52 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 20:52:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1722888 voxels in mask (pct= 10.27)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 20:52:11 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 (106.0): 106.2 +- 4.8 [79.0 --> 125.0]
- GM (67.0) : 66.1 +- 9.6 [30.0 --> 95.0]
- setting bottom of white matter range to 75.7
- setting top of gray matter range to 85.3
- 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...
- 3632 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 3643 filled
- 1067 bright non-wm voxels segmented.
- 2066 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 0.44 minutes
- reading wm segmentation from wm.seg.mgz...
- 35 voxels added to wm to prevent paths from MTL structures to cortex
- 3357 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 53805 voxels turned on, 36449 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 98 new 98
- 115,126,128 old 98 new 98
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 11 found - 11 modified | TOTAL: 11
- pass 2 (xy+): 0 found - 11 modified | TOTAL: 11
- pass 1 (xy-): 18 found - 18 modified | TOTAL: 29
- pass 2 (xy-): 0 found - 18 modified | TOTAL: 29
- pass 1 (yz+): 20 found - 20 modified | TOTAL: 49
- pass 2 (yz+): 0 found - 20 modified | TOTAL: 49
- pass 1 (yz-): 26 found - 26 modified | TOTAL: 75
- pass 2 (yz-): 0 found - 26 modified | TOTAL: 75
- pass 1 (xz+): 27 found - 27 modified | TOTAL: 102
- pass 2 (xz+): 0 found - 27 modified | TOTAL: 102
- pass 1 (xz-): 15 found - 15 modified | TOTAL: 117
- pass 2 (xz-): 0 found - 15 modified | TOTAL: 117
- Iteration Number : 1
- pass 1 (+++): 8 found - 8 modified | TOTAL: 8
- pass 2 (+++): 0 found - 8 modified | TOTAL: 8
- pass 1 (+++): 16 found - 16 modified | TOTAL: 24
- pass 2 (+++): 0 found - 16 modified | TOTAL: 24
- pass 1 (+++): 17 found - 17 modified | TOTAL: 41
- pass 2 (+++): 0 found - 17 modified | TOTAL: 41
- pass 1 (+++): 19 found - 19 modified | TOTAL: 60
- pass 2 (+++): 0 found - 19 modified | TOTAL: 60
- Iteration Number : 1
- pass 1 (++): 99 found - 99 modified | TOTAL: 99
- pass 2 (++): 0 found - 99 modified | TOTAL: 99
- pass 1 (+-): 100 found - 100 modified | TOTAL: 199
- pass 2 (+-): 0 found - 100 modified | TOTAL: 199
- pass 1 (--): 74 found - 74 modified | TOTAL: 273
- pass 2 (--): 1 found - 75 modified | TOTAL: 274
- pass 3 (--): 0 found - 75 modified | TOTAL: 274
- pass 1 (-+): 90 found - 90 modified | TOTAL: 364
- pass 2 (-+): 0 found - 90 modified | TOTAL: 364
- Iteration Number : 2
- pass 1 (xy+): 3 found - 3 modified | TOTAL: 3
- pass 2 (xy+): 0 found - 3 modified | TOTAL: 3
- pass 1 (xy-): 5 found - 5 modified | TOTAL: 8
- pass 2 (xy-): 0 found - 5 modified | TOTAL: 8
- pass 1 (yz+): 3 found - 3 modified | TOTAL: 11
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 11
- pass 1 (yz-): 5 found - 5 modified | TOTAL: 16
- pass 2 (yz-): 0 found - 5 modified | TOTAL: 16
- pass 1 (xz+): 3 found - 3 modified | TOTAL: 19
- pass 2 (xz+): 0 found - 3 modified | TOTAL: 19
- pass 1 (xz-): 2 found - 2 modified | TOTAL: 21
- pass 2 (xz-): 0 found - 2 modified | TOTAL: 21
- 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 (++): 2 found - 2 modified | TOTAL: 2
- pass 2 (++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+-): 1 found - 1 modified | TOTAL: 3
- pass 2 (+-): 0 found - 1 modified | TOTAL: 3
- pass 1 (--): 0 found - 0 modified | TOTAL: 3
- pass 1 (-+): 2 found - 2 modified | TOTAL: 5
- pass 2 (-+): 0 found - 2 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+): 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 = 567 (out of 577790: 0.098133)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 20:53:57 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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
- 1.07370 0.01691 0.00344 -14.13783;
- -0.01767 1.03760 0.21998 -19.57637;
- 0.00014 -0.20525 1.01354 18.72534;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.07370 0.01691 0.00344 -14.13783;
- -0.01767 1.03760 0.21998 -19.57637;
- 0.00014 -0.20525 1.01354 18.72534;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 1399 (min = 350, max = 1400), aspect = 0.50 (min = 0.10, max = 0.75)
- no need to search
- using seed (126, 122, 151), TAL = (2.0, 23.0, 6.0)
- talairach voxel to voxel transform
- 0.93111 -0.01515 0.00012 12.86493;
- 0.01523 0.92384 -0.20057 22.05638;
- 0.00295 0.18709 0.94602 -14.01035;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (126, 122, 151) --> (2.0, 23.0, 6.0)
- done.
- writing output to filled.mgz...
- filling took 0.6 minutes
- talairach cc position changed to (2.00, 23.00, 6.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(20.00, 23.00, 6.00) SRC: (111.60, 106.12, 151.98)
- search lh wm seed point around talairach space (-16.00, 23.00, 6.00), SRC: (145.12, 106.67, 152.09)
- compute mri_fill using aseg
- Erasing Brain Stem and Cerebellum ...
- Define left and right masks using aseg:
- Building Voronoi diagram ...
- Using the Voronoi diagram to separate WM into two hemispheres ...
- Find the largest connected component for each hemisphere ...
- #--------------------------------------------
- #@# Tessellate lh Sat Oct 7 20:54:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 2
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 2
- pass 1 (xz-): 2 found - 2 modified | TOTAL: 4
- pass 2 (xz-): 0 found - 2 modified | TOTAL: 4
- 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 (+++): 0 found - 0 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 1
- pass 1 (++): 2 found - 2 modified | TOTAL: 2
- pass 2 (++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+-): 0 found - 0 modified | TOTAL: 2
- pass 1 (--): 0 found - 0 modified | TOTAL: 2
- pass 1 (-+): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 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 : 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 (-+): 1 found - 1 modified | TOTAL: 1
- pass 2 (-+): 0 found - 1 modified | TOTAL: 1
- 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 = 10 (out of 279827: 0.003574)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 40: 2633 vertices, 2815 faces
- slice 50: 10555 vertices, 10897 faces
- slice 60: 21730 vertices, 22135 faces
- slice 70: 33340 vertices, 33748 faces
- slice 80: 45458 vertices, 45878 faces
- slice 90: 57202 vertices, 57616 faces
- slice 100: 69863 vertices, 70320 faces
- slice 110: 81500 vertices, 81917 faces
- slice 120: 92740 vertices, 93191 faces
- slice 130: 103887 vertices, 104312 faces
- slice 140: 113791 vertices, 114149 faces
- slice 150: 121857 vertices, 122184 faces
- slice 160: 129453 vertices, 129787 faces
- slice 170: 135793 vertices, 136073 faces
- slice 180: 140894 vertices, 141134 faces
- slice 190: 144400 vertices, 144581 faces
- slice 200: 145306 vertices, 145380 faces
- slice 210: 145306 vertices, 145380 faces
- slice 220: 145306 vertices, 145380 faces
- slice 230: 145306 vertices, 145380 faces
- slice 240: 145306 vertices, 145380 faces
- slice 250: 145306 vertices, 145380 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...
- 145306 voxel in cpt #1: X=-74 [v=145306,e=436140,f=290760] located at (-26.545834, -23.816422, 21.178843)
- For the whole surface: X=-74 [v=145306,e=436140,f=290760]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 20:54:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 4 found - 4 modified | TOTAL: 4
- pass 2 (yz+): 0 found - 4 modified | TOTAL: 4
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 4
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 4
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 4
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 4 (out of 276063: 0.001449)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 40: 910 vertices, 994 faces
- slice 50: 6845 vertices, 7169 faces
- slice 60: 16711 vertices, 17111 faces
- slice 70: 28266 vertices, 28672 faces
- slice 80: 40256 vertices, 40629 faces
- slice 90: 52343 vertices, 52711 faces
- slice 100: 63732 vertices, 64136 faces
- slice 110: 76149 vertices, 76588 faces
- slice 120: 87623 vertices, 88013 faces
- slice 130: 98951 vertices, 99386 faces
- slice 140: 110267 vertices, 110682 faces
- slice 150: 118976 vertices, 119275 faces
- slice 160: 126195 vertices, 126500 faces
- slice 170: 133396 vertices, 133670 faces
- slice 180: 139226 vertices, 139458 faces
- slice 190: 143524 vertices, 143716 faces
- slice 200: 144894 vertices, 144958 faces
- slice 210: 144894 vertices, 144958 faces
- slice 220: 144894 vertices, 144958 faces
- slice 230: 144894 vertices, 144958 faces
- slice 240: 144894 vertices, 144958 faces
- slice 250: 144894 vertices, 144958 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...
- 144894 voxel in cpt #1: X=-64 [v=144894,e=434874,f=289916] located at (27.677950, -19.839296, 21.416201)
- For the whole surface: X=-64 [v=144894,e=434874,f=289916]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 20:54:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 20:54:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 20919 of (20919 20922) to complete...
- Waiting for PID 20922 of (20919 20922) 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 (20919 20922) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 20:54:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 20:54:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 20966 of (20966 20969) to complete...
- Waiting for PID 20969 of (20966 20969) to complete...
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- Not saving sulc
- Reading ../surf/lh.smoothwm.nofix
- avg radius = 48.5 mm, total surface area = 77174 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.157 (target=0.015)
step 005: RMS=0.121 (target=0.015)
step 010: RMS=0.090 (target=0.015)
step 015: RMS=0.076 (target=0.015)
step 020: RMS=0.065 (target=0.015)
step 025: RMS=0.057 (target=0.015)
step 030: RMS=0.051 (target=0.015)
step 035: RMS=0.045 (target=0.015)
step 040: RMS=0.042 (target=0.015)
step 045: RMS=0.041 (target=0.015)
step 050: RMS=0.040 (target=0.015)
step 055: RMS=0.040 (target=0.015)
step 060: RMS=0.039 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 42.011613
- mris_inflate stimesec 0.106983
- mris_inflate ru_maxrss 211940
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 30438
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 10224
- mris_inflate ru_oublock 10240
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 3492
- mris_inflate ru_nivcsw 3298
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 47.5 mm, total surface area = 75948 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.159 (target=0.015)
step 005: RMS=0.120 (target=0.015)
step 010: RMS=0.090 (target=0.015)
step 015: RMS=0.077 (target=0.015)
step 020: RMS=0.066 (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=0.047 (target=0.015)
step 045: RMS=0.045 (target=0.015)
step 050: RMS=0.044 (target=0.015)
step 055: RMS=0.043 (target=0.015)
step 060: RMS=0.042 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 42.103599
- mris_inflate stimesec 0.098984
- mris_inflate ru_maxrss 211800
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 30402
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 10200
- mris_inflate ru_oublock 10216
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2224
- mris_inflate ru_nivcsw 4017
- PIDs (20966 20969) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 20:55:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 20:55:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 21037 of (21037 21041) to complete...
- Waiting for PID 21041 of (21037 21041) to complete...
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- doing quick spherical unfolding.
- setting seed for random number genererator to 1234
- $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- reading original vertex positions...
- unfolding cortex into spherical form...
- surface projected - minimizing metric distortion...
- vertex spacing 0.95 +- 0.56 (0.00-->6.67) (max @ vno 58114 --> 58115)
- face area 0.03 +- 0.03 (-0.11-->0.75)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.309...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=176.140, avgs=0
- 005/300: dt: 0.9000, rms radial error=175.882, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.326, avgs=0
- 015/300: dt: 0.9000, rms radial error=174.594, avgs=0
- 020/300: dt: 0.9000, rms radial error=173.762, avgs=0
- 025/300: dt: 0.9000, rms radial error=172.872, avgs=0
- 030/300: dt: 0.9000, rms radial error=171.950, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.012, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.066, avgs=0
- 045/300: dt: 0.9000, rms radial error=169.119, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.176, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.236, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.300, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.367, avgs=0
- 070/300: dt: 0.9000, rms radial error=164.440, avgs=0
- 075/300: dt: 0.9000, rms radial error=163.516, avgs=0
- 080/300: dt: 0.9000, rms radial error=162.599, avgs=0
- 085/300: dt: 0.9000, rms radial error=161.686, avgs=0
- 090/300: dt: 0.9000, rms radial error=160.779, avgs=0
- 095/300: dt: 0.9000, rms radial error=159.876, avgs=0
- 100/300: dt: 0.9000, rms radial error=158.979, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.086, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.198, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.315, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.436, avgs=0
- 125/300: dt: 0.9000, rms radial error=154.563, avgs=0
- 130/300: dt: 0.9000, rms radial error=153.694, avgs=0
- 135/300: dt: 0.9000, rms radial error=152.830, avgs=0
- 140/300: dt: 0.9000, rms radial error=151.970, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.116, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.266, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.420, avgs=0
- 160/300: dt: 0.9000, rms radial error=148.580, avgs=0
- 165/300: dt: 0.9000, rms radial error=147.744, avgs=0
- 170/300: dt: 0.9000, rms radial error=146.912, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.085, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.262, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.444, avgs=0
- 190/300: dt: 0.9000, rms radial error=143.631, avgs=0
- 195/300: dt: 0.9000, rms radial error=142.822, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.017, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.217, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.421, avgs=0
- 215/300: dt: 0.9000, rms radial error=139.630, avgs=0
- 220/300: dt: 0.9000, rms radial error=138.843, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.060, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.282, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.508, avgs=0
- 240/300: dt: 0.9000, rms radial error=135.738, avgs=0
- 245/300: dt: 0.9000, rms radial error=134.973, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.212, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.456, avgs=0
- 260/300: dt: 0.9000, rms radial error=132.703, avgs=0
- 265/300: dt: 0.9000, rms radial error=131.955, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.211, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.471, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.735, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.003, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.276, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.552, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.833, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 17050.65
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
- epoch 2 (K=40.0), pass 1, starting sse = 2887.70
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00031
- epoch 3 (K=160.0), pass 1, starting sse = 300.92
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.10/12 = 0.00830
- epoch 4 (K=640.0), pass 1, starting sse = 21.68
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.24/17 = 0.01429
- final distance error %25.97
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.07 hours
- mris_sphere utimesec 275.022190
- mris_sphere stimesec 0.170974
- mris_sphere ru_maxrss 212140
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 30485
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10264
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 9058
- mris_sphere ru_nivcsw 20374
- FSRUNTIME@ mris_sphere 0.0750 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 0.96 +- 0.57 (0.00-->7.40) (max @ vno 55082 --> 56147)
- face area 0.03 +- 0.03 (-0.09-->0.79)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.315...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=175.939, avgs=0
- 005/300: dt: 0.9000, rms radial error=175.680, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.124, avgs=0
- 015/300: dt: 0.9000, rms radial error=174.394, avgs=0
- 020/300: dt: 0.9000, rms radial error=173.567, avgs=0
- 025/300: dt: 0.9000, rms radial error=172.683, avgs=0
- 030/300: dt: 0.9000, rms radial error=171.768, avgs=0
- 035/300: dt: 0.9000, rms radial error=170.836, avgs=0
- 040/300: dt: 0.9000, rms radial error=169.897, avgs=0
- 045/300: dt: 0.9000, rms radial error=168.955, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.015, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.077, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.143, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.214, avgs=0
- 070/300: dt: 0.9000, rms radial error=164.289, avgs=0
- 075/300: dt: 0.9000, rms radial error=163.368, avgs=0
- 080/300: dt: 0.9000, rms radial error=162.453, avgs=0
- 085/300: dt: 0.9000, rms radial error=161.542, avgs=0
- 090/300: dt: 0.9000, rms radial error=160.637, avgs=0
- 095/300: dt: 0.9000, rms radial error=159.737, avgs=0
- 100/300: dt: 0.9000, rms radial error=158.842, avgs=0
- 105/300: dt: 0.9000, rms radial error=157.952, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.067, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.187, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.311, avgs=0
- 125/300: dt: 0.9000, rms radial error=154.441, avgs=0
- 130/300: dt: 0.9000, rms radial error=153.575, avgs=0
- 135/300: dt: 0.9000, rms radial error=152.714, avgs=0
- 140/300: dt: 0.9000, rms radial error=151.857, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.006, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.159, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.317, avgs=0
- 160/300: dt: 0.9000, rms radial error=148.479, avgs=0
- 165/300: dt: 0.9000, rms radial error=147.646, avgs=0
- 170/300: dt: 0.9000, rms radial error=146.818, avgs=0
- 175/300: dt: 0.9000, rms radial error=145.994, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.174, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.359, avgs=0
- 190/300: dt: 0.9000, rms radial error=143.548, avgs=0
- 195/300: dt: 0.9000, rms radial error=142.741, avgs=0
- 200/300: dt: 0.9000, rms radial error=141.939, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.142, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.348, avgs=0
- 215/300: dt: 0.9000, rms radial error=139.559, avgs=0
- 220/300: dt: 0.9000, rms radial error=138.775, avgs=0
- 225/300: dt: 0.9000, rms radial error=137.994, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.218, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.447, avgs=0
- 240/300: dt: 0.9000, rms radial error=135.680, avgs=0
- 245/300: dt: 0.9000, rms radial error=134.917, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.158, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.403, avgs=0
- 260/300: dt: 0.9000, rms radial error=132.653, avgs=0
- 265/300: dt: 0.9000, rms radial error=131.907, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.165, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.427, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.694, avgs=0
- 285/300: dt: 0.9000, rms radial error=128.964, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.238, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.517, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.799, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 16910.71
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00007
- epoch 2 (K=40.0), pass 1, starting sse = 2824.96
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00022
- epoch 3 (K=160.0), pass 1, starting sse = 291.40
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.10/11 = 0.00933
- epoch 4 (K=640.0), pass 1, starting sse = 19.86
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.19/15 = 0.01292
- final distance error %25.63
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.07 hours
- mris_sphere utimesec 261.709214
- mris_sphere stimesec 0.173973
- mris_sphere ru_maxrss 211988
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 30446
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10240
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8998
- mris_sphere ru_nivcsw 20512
- FSRUNTIME@ mris_sphere 0.0727 hours 1 threads
- PIDs (21037 21041) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 21:00:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 21:00:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 21:00:06 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050750 lh
- #@# Fix Topology rh Sat Oct 7 21:00:06 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050750 rh
- Waiting for PID 21264 of (21264 21267) to complete...
- Waiting for PID 21267 of (21264 21267) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050750 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=-74 (nv=145306, nf=290760, ne=436140, g=38)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 10 iterations
- marking ambiguous vertices...
- 5054 ambiguous faces found in tessellation
- segmenting defects...
- 42 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- 42 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.6836 (-4.8418)
- -vertex loglikelihood: -6.5785 (-3.2892)
- -normal dot loglikelihood: -3.6107 (-3.6107)
- -quad curv loglikelihood: -6.3693 (-3.1846)
- Total Loglikelihood : -26.2420
- CORRECTING DEFECT 0 (vertices=73, convex hull=103, v0=97)
- After retessellation of defect 0 (v0=97), euler #=-39 (142206,425292,283047) : difference with theory (-39) = 0
- CORRECTING DEFECT 1 (vertices=142, convex hull=112, v0=4257)
- After retessellation of defect 1 (v0=4257), euler #=-38 (142241,425447,283168) : difference with theory (-38) = 0
- CORRECTING DEFECT 2 (vertices=82, convex hull=78, v0=5136)
- After retessellation of defect 2 (v0=5136), euler #=-37 (142264,425549,283248) : difference with theory (-37) = 0
- CORRECTING DEFECT 3 (vertices=41, convex hull=80, v0=6023)
- After retessellation of defect 3 (v0=6023), euler #=-36 (142284,425643,283323) : difference with theory (-36) = 0
- CORRECTING DEFECT 4 (vertices=193, convex hull=64, v0=10191)
- After retessellation of defect 4 (v0=10191), euler #=-35 (142299,425713,283379) : difference with theory (-35) = 0
- CORRECTING DEFECT 5 (vertices=31, convex hull=58, v0=15824)
- After retessellation of defect 5 (v0=15824), euler #=-34 (142313,425778,283431) : difference with theory (-34) = 0
- CORRECTING DEFECT 6 (vertices=126, convex hull=94, v0=18879)
- After retessellation of defect 6 (v0=18879), euler #=-33 (142338,425892,283521) : difference with theory (-33) = 0
- CORRECTING DEFECT 7 (vertices=33, convex hull=76, v0=19452)
- After retessellation of defect 7 (v0=19452), euler #=-32 (142362,425994,283600) : difference with theory (-32) = 0
- CORRECTING DEFECT 8 (vertices=70, convex hull=104, v0=32961)
- After retessellation of defect 8 (v0=32961), euler #=-31 (142390,426121,283700) : difference with theory (-31) = 0
- CORRECTING DEFECT 9 (vertices=12, convex hull=26, v0=37782)
- After retessellation of defect 9 (v0=37782), euler #=-30 (142391,426133,283712) : difference with theory (-30) = 0
- CORRECTING DEFECT 10 (vertices=38, convex hull=54, v0=41020)
- After retessellation of defect 10 (v0=41020), euler #=-29 (142400,426182,283753) : difference with theory (-29) = 0
- CORRECTING DEFECT 11 (vertices=20, convex hull=51, v0=46843)
- After retessellation of defect 11 (v0=46843), euler #=-28 (142412,426239,283799) : difference with theory (-28) = 0
- CORRECTING DEFECT 12 (vertices=97, convex hull=128, v0=50525)
- After retessellation of defect 12 (v0=50525), euler #=-27 (142468,426469,283974) : difference with theory (-27) = 0
- CORRECTING DEFECT 13 (vertices=18, convex hull=20, v0=59679)
- After retessellation of defect 13 (v0=59679), euler #=-26 (142470,426478,283982) : difference with theory (-26) = 0
- CORRECTING DEFECT 14 (vertices=39, convex hull=53, v0=60920)
- After retessellation of defect 14 (v0=60920), euler #=-25 (142487,426551,284039) : difference with theory (-25) = 0
- CORRECTING DEFECT 15 (vertices=66, convex hull=89, v0=65716)
- After retessellation of defect 15 (v0=65716), euler #=-24 (142509,426651,284118) : difference with theory (-24) = 0
- CORRECTING DEFECT 16 (vertices=40, convex hull=70, v0=67209)
- After retessellation of defect 16 (v0=67209), euler #=-23 (142529,426740,284188) : difference with theory (-23) = 0
- CORRECTING DEFECT 17 (vertices=7, convex hull=21, v0=70637)
- After retessellation of defect 17 (v0=70637), euler #=-22 (142530,426748,284196) : difference with theory (-22) = 0
- CORRECTING DEFECT 18 (vertices=39, convex hull=85, v0=81530)
- After retessellation of defect 18 (v0=81530), euler #=-21 (142547,426836,284268) : difference with theory (-21) = 0
- CORRECTING DEFECT 19 (vertices=94, convex hull=106, v0=82641)
- After retessellation of defect 19 (v0=82641), euler #=-20 (142587,427001,284394) : difference with theory (-20) = 0
- CORRECTING DEFECT 20 (vertices=20, convex hull=51, v0=94477)
- After retessellation of defect 20 (v0=94477), euler #=-19 (142596,427048,284433) : difference with theory (-19) = 0
- CORRECTING DEFECT 21 (vertices=106, convex hull=119, v0=103834)
- After retessellation of defect 21 (v0=103834), euler #=-18 (142629,427197,284550) : difference with theory (-18) = 0
- CORRECTING DEFECT 22 (vertices=39, convex hull=31, v0=105603)
- After retessellation of defect 22 (v0=105603), euler #=-17 (142635,427225,284573) : difference with theory (-17) = 0
- CORRECTING DEFECT 23 (vertices=6, convex hull=30, v0=107887)
- After retessellation of defect 23 (v0=107887), euler #=-16 (142638,427242,284588) : difference with theory (-16) = 0
- CORRECTING DEFECT 24 (vertices=5, convex hull=28, v0=109974)
- After retessellation of defect 24 (v0=109974), euler #=-15 (142640,427254,284599) : difference with theory (-15) = 0
- CORRECTING DEFECT 25 (vertices=125, convex hull=59, v0=110871)
- After retessellation of defect 25 (v0=110871), euler #=-14 (142649,427305,284642) : difference with theory (-14) = 0
- CORRECTING DEFECT 26 (vertices=133, convex hull=100, v0=111995)
- After retessellation of defect 26 (v0=111995), euler #=-13 (142679,427441,284749) : difference with theory (-13) = 0
- CORRECTING DEFECT 27 (vertices=659, convex hull=301, v0=112630)
- After retessellation of defect 27 (v0=112630), euler #=-12 (142768,427860,285080) : difference with theory (-12) = 0
- CORRECTING DEFECT 28 (vertices=21, convex hull=26, v0=114375)
- After retessellation of defect 28 (v0=114375), euler #=-11 (142774,427885,285100) : difference with theory (-11) = 0
- CORRECTING DEFECT 29 (vertices=6, convex hull=34, v0=117917)
- After retessellation of defect 29 (v0=117917), euler #=-10 (142775,427900,285115) : difference with theory (-10) = 0
- CORRECTING DEFECT 30 (vertices=187, convex hull=124, v0=127727)
- After retessellation of defect 30 (v0=127727), euler #=-9 (142823,428110,285278) : difference with theory (-9) = 0
- CORRECTING DEFECT 31 (vertices=29, convex hull=71, v0=128786)
- After retessellation of defect 31 (v0=128786), euler #=-8 (142836,428180,285336) : difference with theory (-8) = 0
- CORRECTING DEFECT 32 (vertices=58, convex hull=76, v0=129683)
- After retessellation of defect 32 (v0=129683), euler #=-7 (142864,428294,285423) : difference with theory (-7) = 0
- CORRECTING DEFECT 33 (vertices=57, convex hull=89, v0=130009)
- After retessellation of defect 33 (v0=130009), euler #=-6 (142877,428372,285489) : difference with theory (-6) = 0
- CORRECTING DEFECT 34 (vertices=54, convex hull=78, v0=130911)
- After retessellation of defect 34 (v0=130911), euler #=-5 (142894,428456,285557) : difference with theory (-5) = 0
- CORRECTING DEFECT 35 (vertices=121, convex hull=112, v0=133625)
- After retessellation of defect 35 (v0=133625), euler #=-4 (142935,428633,285694) : difference with theory (-4) = 0
- CORRECTING DEFECT 36 (vertices=41, convex hull=80, v0=136330)
- After retessellation of defect 36 (v0=136330), euler #=-3 (142961,428745,285781) : difference with theory (-3) = 0
- CORRECTING DEFECT 37 (vertices=41, convex hull=88, v0=138075)
- After retessellation of defect 37 (v0=138075), euler #=-2 (142985,428853,285866) : difference with theory (-2) = 0
- CORRECTING DEFECT 38 (vertices=27, convex hull=50, v0=140558)
- After retessellation of defect 38 (v0=140558), euler #=-1 (142996,428907,285910) : difference with theory (-1) = 0
- CORRECTING DEFECT 39 (vertices=8, convex hull=28, v0=142181)
- After retessellation of defect 39 (v0=142181), euler #=0 (142997,428919,285922) : difference with theory (0) = 0
- CORRECTING DEFECT 40 (vertices=99, convex hull=116, v0=142878)
- After retessellation of defect 40 (v0=142878), euler #=1 (143020,429045,286026) : difference with theory (1) = 0
- CORRECTING DEFECT 41 (vertices=25, convex hull=27, v0=144860)
- After retessellation of defect 41 (v0=144860), euler #=2 (143025,429069,286046) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.89 +- 0.24 (0.07-->10.92) (max @ vno 118438 --> 125560)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.89 +- 0.24 (0.07-->10.92) (max @ vno 118438 --> 125560)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 150 mutations (35.7%), 270 crossovers (64.3%), 185 vertices were eliminated
- building final representation...
- 2281 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=143025, nf=286046, ne=429069, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 25.8 minutes
- 0 defective edges
- removing intersecting faces
- 000: 336 intersecting
- 001: 21 intersecting
- mris_fix_topology utimesec 1549.117498
- mris_fix_topology stimesec 0.395939
- mris_fix_topology ru_maxrss 448776
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 57321
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 10224
- mris_fix_topology ru_oublock 13712
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 584
- mris_fix_topology ru_nivcsw 4306
- FSRUNTIME@ mris_fix_topology lh 0.4301 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050750 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=-64 (nv=144894, nf=289916, ne=434874, g=33)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 10 iterations
- marking ambiguous vertices...
- 4611 ambiguous faces found in tessellation
- segmenting defects...
- 44 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 40 into 39
- 43 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.5933 (-4.7966)
- -vertex loglikelihood: -6.6080 (-3.3040)
- -normal dot loglikelihood: -3.6639 (-3.6639)
- -quad curv loglikelihood: -6.5499 (-3.2749)
- Total Loglikelihood : -26.4150
- CORRECTING DEFECT 0 (vertices=25, convex hull=24, v0=0)
- After retessellation of defect 0 (v0=0), euler #=-40 (142055,425005,282910) : difference with theory (-40) = 0
- CORRECTING DEFECT 1 (vertices=191, convex hull=76, v0=11075)
- After retessellation of defect 1 (v0=11075), euler #=-39 (142077,425099,282983) : difference with theory (-39) = 0
- CORRECTING DEFECT 2 (vertices=62, convex hull=64, v0=32958)
- After retessellation of defect 2 (v0=32958), euler #=-38 (142101,425201,283062) : difference with theory (-38) = 0
- CORRECTING DEFECT 3 (vertices=22, convex hull=42, v0=45373)
- After retessellation of defect 3 (v0=45373), euler #=-37 (142113,425252,283102) : difference with theory (-37) = 0
- CORRECTING DEFECT 4 (vertices=21, convex hull=31, v0=56142)
- After retessellation of defect 4 (v0=56142), euler #=-36 (142116,425272,283120) : difference with theory (-36) = 0
- CORRECTING DEFECT 5 (vertices=48, convex hull=71, v0=61268)
- After retessellation of defect 5 (v0=61268), euler #=-35 (142142,425380,283203) : difference with theory (-35) = 0
- CORRECTING DEFECT 6 (vertices=111, convex hull=89, v0=62172)
- After retessellation of defect 6 (v0=62172), euler #=-34 (142176,425521,283311) : difference with theory (-34) = 0
- CORRECTING DEFECT 7 (vertices=61, convex hull=77, v0=62849)
- After retessellation of defect 7 (v0=62849), euler #=-33 (142203,425629,283393) : difference with theory (-33) = 0
- CORRECTING DEFECT 8 (vertices=15, convex hull=22, v0=63299)
- After retessellation of defect 8 (v0=63299), euler #=-32 (142205,425641,283404) : difference with theory (-32) = 0
- CORRECTING DEFECT 9 (vertices=67, convex hull=79, v0=73404)
- After retessellation of defect 9 (v0=73404), euler #=-31 (142233,425755,283491) : difference with theory (-31) = 0
- CORRECTING DEFECT 10 (vertices=31, convex hull=77, v0=79095)
- After retessellation of defect 10 (v0=79095), euler #=-30 (142251,425840,283559) : difference with theory (-30) = 0
- CORRECTING DEFECT 11 (vertices=151, convex hull=57, v0=92955)
- After retessellation of defect 11 (v0=92955), euler #=-29 (142272,425925,283624) : difference with theory (-29) = 0
- CORRECTING DEFECT 12 (vertices=40, convex hull=67, v0=93278)
- After retessellation of defect 12 (v0=93278), euler #=-28 (142295,426020,283697) : difference with theory (-28) = 0
- CORRECTING DEFECT 13 (vertices=19, convex hull=34, v0=94462)
- After retessellation of defect 13 (v0=94462), euler #=-27 (142296,426036,283713) : difference with theory (-27) = 0
- CORRECTING DEFECT 14 (vertices=192, convex hull=116, v0=97374)
- After retessellation of defect 14 (v0=97374), euler #=-26 (142349,426245,283870) : difference with theory (-26) = 0
- CORRECTING DEFECT 15 (vertices=6, convex hull=37, v0=97501)
- After retessellation of defect 15 (v0=97501), euler #=-25 (142351,426260,283884) : difference with theory (-25) = 0
- CORRECTING DEFECT 16 (vertices=121, convex hull=49, v0=97772)
- After retessellation of defect 16 (v0=97772), euler #=-24 (142365,426321,283932) : difference with theory (-24) = 0
- CORRECTING DEFECT 17 (vertices=48, convex hull=70, v0=99966)
- After retessellation of defect 17 (v0=99966), euler #=-23 (142394,426438,284021) : difference with theory (-23) = 0
- CORRECTING DEFECT 18 (vertices=69, convex hull=50, v0=104337)
- After retessellation of defect 18 (v0=104337), euler #=-22 (142408,426503,284073) : difference with theory (-22) = 0
- CORRECTING DEFECT 19 (vertices=199, convex hull=177, v0=104484)
- After retessellation of defect 19 (v0=104484), euler #=-22 (142487,426835,284326) : difference with theory (-21) = 1
- CORRECTING DEFECT 20 (vertices=7, convex hull=28, v0=105154)
- After retessellation of defect 20 (v0=105154), euler #=-21 (142490,426853,284342) : difference with theory (-20) = 1
- CORRECTING DEFECT 21 (vertices=93, convex hull=43, v0=106568)
- After retessellation of defect 21 (v0=106568), euler #=-20 (142498,426894,284376) : difference with theory (-19) = 1
- CORRECTING DEFECT 22 (vertices=41, convex hull=77, v0=110827)
- After retessellation of defect 22 (v0=110827), euler #=-19 (142519,426989,284451) : difference with theory (-18) = 1
- CORRECTING DEFECT 23 (vertices=30, convex hull=33, v0=111096)
- After retessellation of defect 23 (v0=111096), euler #=-18 (142520,427005,284467) : difference with theory (-17) = 1
- CORRECTING DEFECT 24 (vertices=29, convex hull=26, v0=111284)
- After retessellation of defect 24 (v0=111284), euler #=-17 (142523,427020,284480) : difference with theory (-16) = 1
- CORRECTING DEFECT 25 (vertices=304, convex hull=115, v0=112171)
- After retessellation of defect 25 (v0=112171), euler #=-16 (142579,427237,284642) : difference with theory (-15) = 1
- CORRECTING DEFECT 26 (vertices=44, convex hull=39, v0=113259)
- After retessellation of defect 26 (v0=113259), euler #=-15 (142587,427275,284673) : difference with theory (-14) = 1
- CORRECTING DEFECT 27 (vertices=32, convex hull=31, v0=113314)
- After retessellation of defect 27 (v0=113314), euler #=-14 (142591,427300,284695) : difference with theory (-13) = 1
- CORRECTING DEFECT 28 (vertices=13, convex hull=28, v0=116550)
- After retessellation of defect 28 (v0=116550), euler #=-13 (142595,427322,284714) : difference with theory (-12) = 1
- CORRECTING DEFECT 29 (vertices=221, convex hull=213, v0=121131)
- After retessellation of defect 29 (v0=121131), euler #=-12 (142678,427687,284997) : difference with theory (-11) = 1
- CORRECTING DEFECT 30 (vertices=42, convex hull=61, v0=123213)
- After retessellation of defect 30 (v0=123213), euler #=-11 (142707,427798,285080) : difference with theory (-10) = 1
- CORRECTING DEFECT 31 (vertices=5, convex hull=20, v0=126247)
- After retessellation of defect 31 (v0=126247), euler #=-10 (142707,427803,285086) : difference with theory (-9) = 1
- CORRECTING DEFECT 32 (vertices=7, convex hull=21, v0=126960)
- After retessellation of defect 32 (v0=126960), euler #=-9 (142708,427811,285094) : difference with theory (-8) = 1
- CORRECTING DEFECT 33 (vertices=33, convex hull=74, v0=128680)
- After retessellation of defect 33 (v0=128680), euler #=-8 (142728,427906,285170) : difference with theory (-7) = 1
- CORRECTING DEFECT 34 (vertices=52, convex hull=79, v0=129921)
- After retessellation of defect 34 (v0=129921), euler #=-7 (142747,427999,285245) : difference with theory (-6) = 1
- CORRECTING DEFECT 35 (vertices=34, convex hull=67, v0=131992)
- After retessellation of defect 35 (v0=131992), euler #=-6 (142759,428064,285299) : difference with theory (-5) = 1
- CORRECTING DEFECT 36 (vertices=166, convex hull=133, v0=134047)
- After retessellation of defect 36 (v0=134047), euler #=-5 (142795,428231,285431) : difference with theory (-4) = 1
- CORRECTING DEFECT 37 (vertices=7, convex hull=41, v0=136242)
- After retessellation of defect 37 (v0=136242), euler #=-4 (142798,428252,285450) : difference with theory (-3) = 1
- CORRECTING DEFECT 38 (vertices=29, convex hull=51, v0=136387)
- After retessellation of defect 38 (v0=136387), euler #=-3 (142812,428313,285498) : difference with theory (-2) = 1
- CORRECTING DEFECT 39 (vertices=56, convex hull=98, v0=137864)
- After retessellation of defect 39 (v0=137864), euler #=-1 (142834,428426,285591) : difference with theory (-1) = 0
- CORRECTING DEFECT 40 (vertices=35, convex hull=55, v0=141582)
- After retessellation of defect 40 (v0=141582), euler #=0 (142844,428478,285634) : difference with theory (0) = 0
- CORRECTING DEFECT 41 (vertices=30, convex hull=72, v0=142050)
- After retessellation of defect 41 (v0=142050), euler #=1 (142860,428550,285691) : difference with theory (1) = 0
- CORRECTING DEFECT 42 (vertices=29, convex hull=61, v0=143930)
- After retessellation of defect 42 (v0=143930), euler #=2 (142876,428622,285748) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.22 (0.02-->9.49) (max @ vno 132144 --> 136510)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.22 (0.02-->9.49) (max @ vno 132144 --> 136510)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 145 mutations (34.6%), 274 crossovers (65.4%), 57 vertices were eliminated
- building final representation...
- 2018 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=142876, nf=285748, ne=428622, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 19.5 minutes
- 0 defective edges
- removing intersecting faces
- 000: 192 intersecting
- 001: 2 intersecting
- mris_fix_topology utimesec 1171.144958
- mris_fix_topology stimesec 0.170974
- mris_fix_topology ru_maxrss 446892
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56467
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 20400
- mris_fix_topology ru_oublock 13656
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 628
- mris_fix_topology ru_nivcsw 3289
- FSRUNTIME@ mris_fix_topology rh 0.3252 hours 1 threads
- PIDs (21264 21267) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 143025 - 429069 + 286046 = 2 --> 0 holes
- F =2V-4: 286046 = 286050-4 (0)
- 2E=3F: 858138 = 858138 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 142876 - 428622 + 285748 = 2 --> 0 holes
- F =2V-4: 285748 = 285752-4 (0)
- 2E=3F: 857244 = 857244 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 31 intersecting
- 001: 3 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 31 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sat Oct 7 21:26:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050750 lh
- #--------------------------------------------
- #@# Make White Surf rh Sat Oct 7 21:26:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050750 rh
- Waiting for PID 23169 of (23169 23172) to complete...
- Waiting for PID 23172 of (23169 23172) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050750 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-6.0.0/0050750/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- 17276 bright wm thresholded.
- 1249 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.orig...
- computing class statistics...
- border white: 265437 voxels (1.58%)
- border gray 306999 voxels (1.83%)
- WM (96.0): 96.5 +- 9.6 [70.0 --> 110.0]
- GM (63.0) : 62.7 +- 11.6 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 44.4 (was 70)
- setting MAX_BORDER_WHITE to 112.6 (was 105)
- setting MIN_BORDER_WHITE to 56.0 (was 85)
- setting MAX_CSF to 32.7 (was 40)
- setting MAX_GRAY to 93.4 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 44.4 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 21.1 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.05-->4.04) (max @ vno 117688 --> 118438)
- face area 0.28 +- 0.12 (0.00-->3.29)
- mean absolute distance = 0.61 +- 0.71
- 3863 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=103+-7.8, GM=56+-7.8
- mean inside = 90.9, mean outside = 67.4
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=72.1, 47 (47) missing vertices, mean dist 0.3 [0.4 (%33.4)->0.7 (%66.6))]
- %75 local maxima, %20 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 +- 0.26 (0.13-->4.28) (max @ vno 118425 --> 118438)
- face area 0.28 +- 0.13 (0.00-->3.07)
- mean absolute distance = 0.25 +- 0.47
- 1930 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=5271825.0, rms=13.138
- 001: dt: 0.5000, sse=3005785.2, rms=9.489 (27.779%)
- 002: dt: 0.5000, sse=2013719.1, rms=7.324 (22.815%)
- 003: dt: 0.5000, sse=1508228.5, rms=5.917 (19.212%)
- 004: dt: 0.5000, sse=1277168.9, rms=5.148 (12.994%)
- 005: dt: 0.5000, sse=1174616.0, rms=4.759 (7.560%)
- 006: dt: 0.5000, sse=1131625.9, rms=4.588 (3.581%)
- 007: dt: 0.5000, sse=1108851.1, rms=4.491 (2.120%)
- rms = 4.44, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1098067.9, rms=4.443 (1.064%)
- 009: dt: 0.2500, sse=795530.4, rms=2.852 (35.812%)
- 010: dt: 0.2500, sse=730558.0, rms=2.382 (16.484%)
- 011: dt: 0.2500, sse=713016.9, rms=2.235 (6.176%)
- 012: dt: 0.2500, sse=702743.1, rms=2.135 (4.459%)
- rms = 2.09, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=696518.9, rms=2.086 (2.306%)
- 014: dt: 0.1250, sse=673976.6, rms=1.862 (10.730%)
- rms = 1.83, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=670945.9, rms=1.834 (1.532%)
- positioning took 1.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=74.6, 46 (3) missing vertices, mean dist -0.1 [0.3 (%69.3)->0.2 (%30.7))]
- %79 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.93 +- 0.25 (0.08-->4.35) (max @ vno 118425 --> 118438)
- face area 0.36 +- 0.17 (0.00-->4.17)
- mean absolute distance = 0.21 +- 0.38
- 2178 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1229511.0, rms=4.259
- 016: dt: 0.5000, sse=1060756.0, rms=3.457 (18.830%)
- rms = 4.16, time step reduction 1 of 3 to 0.250...
- 017: dt: 0.2500, sse=877236.9, rms=2.276 (34.160%)
- 018: dt: 0.2500, sse=829630.3, rms=1.849 (18.749%)
- 019: dt: 0.2500, sse=812019.8, rms=1.664 (10.014%)
- rms = 1.64, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=809809.9, rms=1.643 (1.274%)
- 021: dt: 0.1250, sse=798838.6, rms=1.507 (8.265%)
- rms = 1.50, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=797913.9, rms=1.496 (0.718%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 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 3 vertex label from ripped group
- mean border=76.5, 42 (2) missing vertices, mean dist -0.1 [0.2 (%64.5)->0.2 (%35.5))]
- %83 local maxima, %11 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.92 +- 0.25 (0.14-->4.35) (max @ vno 118425 --> 118438)
- face area 0.36 +- 0.17 (0.00-->4.21)
- mean absolute distance = 0.21 +- 0.34
- 2466 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=939422.2, rms=2.762
- rms = 3.43, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=823934.1, rms=1.825 (33.919%)
- 024: dt: 0.2500, sse=788027.9, rms=1.422 (22.101%)
- rms = 1.40, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.2500, sse=787901.2, rms=1.404 (1.246%)
- 026: dt: 0.1250, sse=779684.1, rms=1.313 (6.453%)
- rms = 1.31, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=779613.6, rms=1.314 (-0.040%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=77.4, 39 (1) missing vertices, mean dist -0.0 [0.2 (%55.1)->0.2 (%44.9))]
- %85 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=809463.2, rms=1.747
- rms = 2.52, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=761423.1, rms=1.138 (34.856%)
- 029: dt: 0.2500, sse=751407.6, rms=0.976 (14.230%)
- rms = 0.97, time step reduction 2 of 3 to 0.125...
- 030: dt: 0.2500, sse=749454.6, rms=0.973 (0.297%)
- rms = 0.96, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=747903.9, rms=0.956 (1.776%)
- positioning took 0.5 minutes
- generating cortex label...
- 6 non-cortical segments detected
- only using segment with 7737 vertices
- erasing segment 0 (vno[0] = 46564)
- erasing segment 2 (vno[0] = 105308)
- erasing segment 3 (vno[0] = 109291)
- erasing segment 4 (vno[0] = 112899)
- erasing segment 5 (vno[0] = 116145)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.area
- vertex spacing 0.92 +- 0.26 (0.05-->4.28) (max @ vno 118425 --> 118438)
- face area 0.35 +- 0.16 (0.00-->4.03)
- refinement took 5.3 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050750 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-6.0.0/0050750/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- 17276 bright wm thresholded.
- 1249 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.orig...
- computing class statistics...
- border white: 265437 voxels (1.58%)
- border gray 306999 voxels (1.83%)
- WM (96.0): 96.5 +- 9.6 [70.0 --> 110.0]
- GM (63.0) : 62.7 +- 11.6 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 43.4 (was 70)
- setting MAX_BORDER_WHITE to 111.6 (was 105)
- setting MIN_BORDER_WHITE to 55.0 (was 85)
- setting MAX_CSF to 31.7 (was 40)
- setting MAX_GRAY to 92.4 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 43.4 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 20.1 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.02-->4.30) (max @ vno 130905 --> 135482)
- face area 0.28 +- 0.12 (0.00-->2.47)
- mean absolute distance = 0.63 +- 0.72
- 3664 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=102+-7.0, GM=55+-9.6
- mean inside = 90.9, mean outside = 67.5
- smoothing surface for 5 iterations...
- 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 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=71.9, 66 (66) missing vertices, mean dist 0.4 [0.4 (%33.2)->0.7 (%66.8))]
- %80 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.93 +- 0.26 (0.14-->3.79) (max @ vno 130905 --> 135482)
- face area 0.28 +- 0.13 (0.00-->2.89)
- mean absolute distance = 0.25 +- 0.46
- 1792 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=5437863.0, rms=13.354
- 001: dt: 0.5000, sse=3160110.5, rms=9.776 (26.795%)
- 002: dt: 0.5000, sse=2122772.5, rms=7.592 (22.335%)
- 003: dt: 0.5000, sse=1566823.0, rms=6.105 (19.591%)
- 004: dt: 0.5000, sse=1300604.0, rms=5.242 (14.144%)
- 005: dt: 0.5000, sse=1174655.9, rms=4.776 (8.891%)
- 006: dt: 0.5000, sse=1123815.0, rms=4.572 (4.261%)
- 007: dt: 0.5000, sse=1097647.1, rms=4.459 (2.468%)
- rms = 4.41, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1086866.9, rms=4.410 (1.109%)
- 009: dt: 0.2500, sse=787550.8, rms=2.830 (35.823%)
- 010: dt: 0.2500, sse=722971.9, rms=2.362 (16.549%)
- 011: dt: 0.2500, sse=706203.1, rms=2.220 (5.986%)
- 012: dt: 0.2500, sse=695499.6, rms=2.127 (4.194%)
- rms = 2.08, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=691120.6, rms=2.083 (2.058%)
- 014: dt: 0.1250, sse=669167.0, rms=1.872 (10.164%)
- rms = 1.85, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=666902.3, rms=1.847 (1.322%)
- positioning took 1.6 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 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=74.4, 75 (7) missing vertices, mean dist -0.1 [0.3 (%69.2)->0.2 (%30.8))]
- %83 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.93 +- 0.25 (0.10-->3.68) (max @ vno 130905 --> 135482)
- face area 0.36 +- 0.17 (0.00-->3.56)
- mean absolute distance = 0.21 +- 0.37
- 2429 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1237341.6, rms=4.274
- 016: dt: 0.5000, sse=1063422.2, rms=3.458 (19.084%)
- rms = 4.14, time step reduction 1 of 3 to 0.250...
- 017: dt: 0.2500, sse=880677.6, rms=2.282 (34.009%)
- 018: dt: 0.2500, sse=832537.7, rms=1.849 (18.970%)
- 019: dt: 0.2500, sse=814467.4, rms=1.668 (9.781%)
- rms = 1.65, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=814086.2, rms=1.647 (1.306%)
- 021: dt: 0.1250, sse=801645.6, rms=1.514 (8.034%)
- rms = 1.50, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=801109.9, rms=1.504 (0.660%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=76.3, 68 (5) missing vertices, mean dist -0.1 [0.2 (%64.7)->0.2 (%35.3))]
- %86 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.92 +- 0.25 (0.07-->3.66) (max @ vno 130905 --> 135482)
- face area 0.36 +- 0.16 (0.00-->3.41)
- mean absolute distance = 0.21 +- 0.32
- 2805 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=935604.3, rms=2.739
- rms = 3.38, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=822372.9, rms=1.825 (33.375%)
- 024: dt: 0.2500, sse=789042.7, rms=1.418 (22.275%)
- rms = 1.41, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.2500, sse=785546.5, rms=1.407 (0.800%)
- 026: dt: 0.1250, sse=778368.8, rms=1.316 (6.419%)
- rms = 1.32, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=778594.1, rms=1.320 (-0.239%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=77.1, 70 (4) missing vertices, mean dist -0.0 [0.2 (%55.0)->0.2 (%45.0))]
- %87 local maxima, % 7 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-6.0.0/0050750/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=802229.0, rms=1.699
- rms = 2.43, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=758485.6, rms=1.131 (33.457%)
- 029: dt: 0.2500, sse=750351.8, rms=0.982 (13.146%)
- rms = 0.98, time step reduction 2 of 3 to 0.125...
- rms = 0.98, time step reduction 3 of 3 to 0.062...
- 030: dt: 0.1250, sse=748955.0, rms=0.976 (0.572%)
- positioning took 0.5 minutes
- generating cortex label...
- 5 non-cortical segments detected
- only using segment with 7953 vertices
- erasing segment 0 (vno[0] = 41902)
- erasing segment 2 (vno[0] = 105129)
- erasing segment 3 (vno[0] = 108396)
- erasing segment 4 (vno[0] = 112326)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.area
- vertex spacing 0.92 +- 0.25 (0.02-->3.61) (max @ vno 130905 --> 135482)
- face area 0.35 +- 0.16 (0.00-->3.26)
- refinement took 5.4 minutes
- PIDs (23169 23172) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sat Oct 7 21:31:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sat Oct 7 21:31:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 23398 of (23398 23401) to complete...
- Waiting for PID 23401 of (23398 23401) 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 (23398 23401) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sat Oct 7 21:31:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sat Oct 7 21:31:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 23446 of (23446 23449) to complete...
- Waiting for PID 23449 of (23446 23449) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 48.5 mm, total surface area = 90922 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.183 (target=0.015)
step 005: RMS=0.128 (target=0.015)
step 010: RMS=0.095 (target=0.015)
step 015: RMS=0.078 (target=0.015)
step 020: RMS=0.065 (target=0.015)
step 025: RMS=0.054 (target=0.015)
step 030: RMS=0.045 (target=0.015)
step 035: RMS=0.038 (target=0.015)
step 040: RMS=0.033 (target=0.015)
step 045: RMS=0.030 (target=0.015)
step 050: RMS=0.028 (target=0.015)
step 055: RMS=0.026 (target=0.015)
step 060: RMS=0.024 (target=0.015)
- inflation complete.
- inflation took 0.8 minutes
- mris_inflate utimesec 45.561073
- mris_inflate stimesec 0.099984
- mris_inflate ru_maxrss 208744
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 30277
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11200
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2105
- mris_inflate ru_nivcsw 3370
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 47.7 mm, total surface area = 90106 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.187 (target=0.015)
step 005: RMS=0.129 (target=0.015)
step 010: RMS=0.098 (target=0.015)
step 015: RMS=0.080 (target=0.015)
step 020: RMS=0.066 (target=0.015)
step 025: RMS=0.056 (target=0.015)
step 030: RMS=0.048 (target=0.015)
step 035: RMS=0.041 (target=0.015)
step 040: RMS=0.035 (target=0.015)
step 045: RMS=0.031 (target=0.015)
step 050: RMS=0.029 (target=0.015)
step 055: RMS=0.028 (target=0.015)
step 060: RMS=0.026 (target=0.015)
- inflation complete.
- inflation took 0.8 minutes
- mris_inflate utimesec 45.581070
- mris_inflate stimesec 0.114982
- mris_inflate ru_maxrss 208952
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 30839
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 10056
- mris_inflate ru_oublock 11192
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2365
- mris_inflate ru_nivcsw 3429
- PIDs (23446 23449) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sat Oct 7 21:32:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 21:32:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 23551 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23554 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23557 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23560 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23563 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23566 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23569 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23572 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23575 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23578 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23582 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- Waiting for PID 23585 of (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = -36.485*4pi (-458.489) --> 37 handles
- ICI = 189.7, FI = 1867.5, variation=30660.762
- 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
- 188 vertices thresholded to be in k1 ~ [-1.06 0.23], k2 ~ [-0.28 0.18]
- total integrated curvature = 0.515*4pi (6.471) --> 0 handles
- ICI = 1.5, FI = 8.8, variation=153.998
- 150 vertices thresholded to be in [-0.06 0.01]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.002
- 109 vertices thresholded to be in [-0.29 0.11]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.015, std = 0.021
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 22.888*4pi (287.618) --> -22 handles
- ICI = 195.8, FI = 1859.2, variation=29566.691
- 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
- 171 vertices thresholded to be in k1 ~ [-0.42 0.88], k2 ~ [-0.23 0.13]
- total integrated curvature = 0.397*4pi (4.986) --> 1 handles
- ICI = 1.4, FI = 9.3, variation=159.895
- 145 vertices thresholded to be in [-0.05 0.02]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 112 vertices thresholded to be in [-0.19 0.17]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.015, std = 0.022
- done.
- PIDs (23551 23554 23557 23560 23563 23566 23569 23572 23575 23578 23582 23585) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sat Oct 7 21:33:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0050750 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 [ 0050750/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 [ 277 ]
- Gb_filter = 0
- WARN: S lookup min: -0.720491
- WARN: S explicit min: 0.000000 vertex = 1408
- #-----------------------------------------
- #@# Curvature Stats rh Sat Oct 7 21:33:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0050750 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 [ 0050750/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 [ 304 ]
- Gb_filter = 0
- WARN: S lookup min: -0.767007
- WARN: S explicit min: 0.000000 vertex = 420
- #--------------------------------------------
- #@# Sphere lh Sat Oct 7 21:33:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sat Oct 7 21:33:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 23724 of (23724 23727) to complete...
- Waiting for PID 23727 of (23724 23727) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0.284...
- 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 %20.31
- pass 1: epoch 2 of 3 starting distance error %20.25
- unfolding complete - removing small folds...
- starting distance error %20.13
- removing remaining folds...
- final distance error %20.16
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 82 negative triangles
- 285: dt=0.9900, 82 negative triangles
- 286: dt=0.9900, 30 negative triangles
- 287: dt=0.9900, 21 negative triangles
- 288: dt=0.9900, 12 negative triangles
- 289: dt=0.9900, 8 negative triangles
- 290: dt=0.9900, 4 negative triangles
- 291: dt=0.9900, 2 negative triangles
- 292: dt=0.9900, 1 negative triangles
- 293: dt=0.9900, 1 negative triangles
- 294: dt=0.9900, 1 negative triangles
- 295: dt=0.9900, 2 negative triangles
- 296: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.15 hours
- mris_sphere utimesec 4351.074536
- mris_sphere stimesec 1.432782
- mris_sphere ru_maxrss 294032
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 51744
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10088
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 151197
- mris_sphere ru_nivcsw 322877
- FSRUNTIME@ mris_sphere 1.1460 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0.288...
- 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 %20.50
- pass 1: epoch 2 of 3 starting distance error %20.43
- unfolding complete - removing small folds...
- starting distance error %20.24
- removing remaining folds...
- final distance error %20.27
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 90 negative triangles
- 254: dt=0.9900, 90 negative triangles
- 255: dt=0.9900, 48 negative triangles
- 256: dt=0.9900, 32 negative triangles
- 257: dt=0.9900, 25 negative triangles
- 258: dt=0.9900, 18 negative triangles
- 259: dt=0.9900, 23 negative triangles
- 260: dt=0.9900, 20 negative triangles
- 261: dt=0.9900, 13 negative triangles
- 262: dt=0.9900, 17 negative triangles
- 263: dt=0.9900, 13 negative triangles
- 264: dt=0.9900, 11 negative triangles
- 265: dt=0.9900, 10 negative triangles
- 266: dt=0.9900, 13 negative triangles
- 267: dt=0.9900, 9 negative triangles
- 268: dt=0.9900, 4 negative triangles
- 269: dt=0.9900, 8 negative triangles
- 270: dt=0.9900, 3 negative triangles
- 271: dt=0.9900, 1 negative triangles
- 272: dt=0.9900, 2 negative triangles
- 273: dt=0.9900, 3 negative triangles
- 274: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.06 hours
- mris_sphere utimesec 3809.138922
- mris_sphere stimesec 1.646749
- mris_sphere ru_maxrss 296092
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 51761
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10088
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 154426
- mris_sphere ru_nivcsw 318715
- FSRUNTIME@ mris_sphere 1.0577 hours 1 threads
- PIDs (23724 23727) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sat Oct 7 22:42:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg
- #--------------------------------------------
- #@# Surf Reg rh Sat Oct 7 22:42:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 27278 of (27278 27281) to complete...
- Waiting for PID 27281 of (27278 27281) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 = 5.709
- curvature mean = 0.040, std = 0.821
- curvature mean = 0.008, std = 0.857
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 0.00) sse = 330321.3, tmin=1.0954
- d=32.00 min @ (-8.00, -8.00, 0.00) sse = 223654.4, tmin=2.1959
- d=16.00 min @ (0.00, 0.00, 4.00) sse = 217280.4, tmin=3.3052
- d=8.00 min @ (0.00, 0.00, -2.00) sse = 211870.0, tmin=4.4438
- d=4.00 min @ (-1.00, 0.00, 0.00) sse = 210909.9, tmin=5.5979
- d=2.00 min @ (0.00, -0.50, 0.50) sse = 210595.0, tmin=6.7412
- d=1.00 min @ (0.25, 0.25, 0.00) sse = 210485.1, tmin=7.8902
- d=0.50 min @ (0.12, 0.12, -0.12) sse = 210442.3, tmin=9.0485
- 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 9.05 min
- curvature mean = 0.023, std = 0.836
- curvature mean = 0.004, std = 0.945
- curvature mean = 0.023, std = 0.847
- curvature mean = 0.002, std = 0.978
- curvature mean = 0.022, std = 0.850
- curvature mean = 0.000, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.024, std = 0.274
- curvature mean = 0.044, std = 0.248
- curvature mean = 0.055, std = 0.354
- curvature mean = 0.042, std = 0.304
- curvature mean = 0.041, std = 0.550
- curvature mean = 0.041, std = 0.329
- curvature mean = 0.024, std = 0.697
- curvature mean = 0.041, std = 0.341
- curvature mean = 0.009, std = 0.809
- MRISregister() return, current seed 0
- -01: dt=0.0000, 35 negative triangles
- 116: dt=0.9900, 35 negative triangles
- expanding nbhd size to 1
- 117: dt=0.9900, 43 negative triangles
- 118: dt=0.9900, 28 negative triangles
- 119: dt=0.9900, 37 negative triangles
- 120: dt=0.9900, 28 negative triangles
- 121: dt=0.9900, 38 negative triangles
- 122: dt=0.9900, 22 negative triangles
- 123: dt=0.9900, 27 negative triangles
- 124: dt=0.9900, 21 negative triangles
- 125: dt=0.9900, 21 negative triangles
- 126: dt=0.9900, 14 negative triangles
- 127: dt=0.9900, 14 negative triangles
- 128: dt=0.9900, 12 negative triangles
- 129: dt=0.9900, 17 negative triangles
- 130: dt=0.9900, 16 negative triangles
- 131: dt=0.9900, 12 negative triangles
- 132: dt=0.9900, 12 negative triangles
- 133: dt=0.9900, 11 negative triangles
- 134: dt=0.9900, 6 negative triangles
- 135: dt=0.9900, 6 negative triangles
- 136: dt=0.9900, 6 negative triangles
- 137: dt=0.9900, 7 negative triangles
- 138: dt=0.9900, 6 negative triangles
- 139: dt=0.9900, 7 negative triangles
- 140: dt=0.9900, 6 negative triangles
- 141: dt=0.9900, 6 negative triangles
- 142: dt=0.9900, 4 negative triangles
- 143: dt=0.9900, 4 negative triangles
- 144: dt=0.9900, 2 negative triangles
- 145: dt=0.9900, 3 negative triangles
- 146: dt=0.9900, 2 negative triangles
- 147: dt=0.9900, 2 negative triangles
- 148: dt=0.9900, 2 negative triangles
- 149: dt=0.9900, 1 negative triangles
- 150: dt=0.9900, 1 negative triangles
- 151: dt=0.9900, 2 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.35 hours
- mris_register utimesec 4955.095710
- mris_register stimesec 3.135523
- mris_register ru_maxrss 262984
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 36450
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 10064
- mris_register ru_oublock 10160
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 362195
- mris_register ru_nivcsw 218161
- FSRUNTIME@ mris_register 1.3537 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 = 5.736
- curvature mean = 0.036, std = 0.813
- curvature mean = 0.007, std = 0.863
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 0.00) sse = 368960.4, tmin=1.0955
- d=32.00 min @ (-8.00, -8.00, 8.00) sse = 237942.6, tmin=2.1968
- d=16.00 min @ (0.00, 4.00, 0.00) sse = 223147.4, tmin=3.3101
- d=8.00 min @ (-2.00, -2.00, -2.00) sse = 212211.3, tmin=4.4488
- d=4.00 min @ (1.00, 0.00, 1.00) sse = 208355.6, tmin=5.6056
- d=2.00 min @ (-0.50, 0.00, 0.00) sse = 208353.4, tmin=6.7551
- d=1.00 min @ (0.25, 0.00, 0.00) sse = 208158.5, tmin=7.9061
- d=0.50 min @ (-0.12, -0.12, 0.00) sse = 208116.4, tmin=9.0598
- 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 9.06 min
- curvature mean = 0.018, std = 0.828
- curvature mean = 0.003, std = 0.949
- curvature mean = 0.016, std = 0.839
- curvature mean = 0.001, std = 0.980
- curvature mean = 0.015, std = 0.841
- curvature mean = 0.000, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.024, std = 0.281
- curvature mean = 0.041, std = 0.242
- curvature mean = 0.052, std = 0.356
- curvature mean = 0.036, std = 0.299
- curvature mean = 0.039, std = 0.545
- curvature mean = 0.036, std = 0.324
- curvature mean = 0.023, std = 0.692
- curvature mean = 0.036, std = 0.336
- curvature mean = 0.007, std = 0.804
- MRISregister() return, current seed 0
- -01: dt=0.0000, 115 negative triangles
- 119: dt=0.9900, 115 negative triangles
- 120: dt=0.9405, 143 negative triangles
- expanding nbhd size to 1
- 121: dt=0.9900, 144 negative triangles
- 122: dt=0.9900, 112 negative triangles
- 123: dt=0.9900, 112 negative triangles
- 124: dt=0.9900, 104 negative triangles
- 125: dt=0.9900, 100 negative triangles
- 126: dt=0.9900, 94 negative triangles
- 127: dt=0.9900, 91 negative triangles
- 128: dt=0.9900, 87 negative triangles
- 129: dt=0.9900, 78 negative triangles
- 130: dt=0.9900, 66 negative triangles
- 131: dt=0.9900, 57 negative triangles
- 132: dt=0.9900, 60 negative triangles
- 133: dt=0.9900, 57 negative triangles
- 134: dt=0.9900, 58 negative triangles
- 135: dt=0.9900, 55 negative triangles
- 136: dt=0.9900, 54 negative triangles
- 137: dt=0.9900, 57 negative triangles
- 138: dt=0.9900, 58 negative triangles
- 139: dt=0.9900, 56 negative triangles
- 140: dt=0.9900, 61 negative triangles
- 141: dt=0.9900, 60 negative triangles
- 142: dt=0.9900, 55 negative triangles
- 143: dt=0.9900, 59 negative triangles
- 144: dt=0.9900, 57 negative triangles
- 145: dt=0.9900, 56 negative triangles
- 146: dt=0.9405, 57 negative triangles
- 147: dt=0.9405, 56 negative triangles
- 148: dt=0.9405, 54 negative triangles
- 149: dt=0.9405, 56 negative triangles
- 150: dt=0.9405, 55 negative triangles
- 151: dt=0.9405, 52 negative triangles
- 152: dt=0.9405, 51 negative triangles
- 153: dt=0.9405, 52 negative triangles
- 154: dt=0.9405, 51 negative triangles
- 155: dt=0.9405, 49 negative triangles
- 156: dt=0.9405, 50 negative triangles
- 157: dt=0.9405, 52 negative triangles
- 158: dt=0.9405, 48 negative triangles
- 159: dt=0.9405, 50 negative triangles
- 160: dt=0.9405, 47 negative triangles
- 161: dt=0.9405, 48 negative triangles
- 162: dt=0.9405, 49 negative triangles
- 163: dt=0.9405, 48 negative triangles
- 164: dt=0.9405, 47 negative triangles
- 165: dt=0.9405, 47 negative triangles
- 166: dt=0.9405, 49 negative triangles
- 167: dt=0.9405, 49 negative triangles
- 168: dt=0.9405, 45 negative triangles
- 169: dt=0.9405, 48 negative triangles
- 170: dt=0.9405, 43 negative triangles
- 171: dt=0.9405, 42 negative triangles
- 172: dt=0.9405, 43 negative triangles
- 173: dt=0.9405, 38 negative triangles
- 174: dt=0.9405, 40 negative triangles
- 175: dt=0.9405, 40 negative triangles
- 176: dt=0.9405, 41 negative triangles
- 177: dt=0.9405, 40 negative triangles
- 178: dt=0.9405, 40 negative triangles
- 179: dt=0.9405, 40 negative triangles
- 180: dt=0.9405, 38 negative triangles
- 181: dt=0.9405, 38 negative triangles
- 182: dt=0.9405, 35 negative triangles
- 183: dt=0.9405, 33 negative triangles
- 184: dt=0.9405, 33 negative triangles
- 185: dt=0.9405, 30 negative triangles
- 186: dt=0.9405, 31 negative triangles
- 187: dt=0.9405, 33 negative triangles
- 188: dt=0.9405, 31 negative triangles
- 189: dt=0.9405, 32 negative triangles
- 190: dt=0.9405, 36 negative triangles
- 191: dt=0.9405, 32 negative triangles
- 192: dt=0.9405, 34 negative triangles
- 193: dt=0.9405, 32 negative triangles
- 194: dt=0.9405, 25 negative triangles
- 195: dt=0.9405, 23 negative triangles
- 196: dt=0.9405, 24 negative triangles
- 197: dt=0.9405, 21 negative triangles
- 198: dt=0.9405, 20 negative triangles
- 199: dt=0.9405, 21 negative triangles
- 200: dt=0.9405, 21 negative triangles
- 201: dt=0.9405, 20 negative triangles
- 202: dt=0.9405, 20 negative triangles
- 203: dt=0.9405, 20 negative triangles
- 204: dt=0.9405, 16 negative triangles
- 205: dt=0.9405, 14 negative triangles
- 206: dt=0.9405, 13 negative triangles
- 207: dt=0.9405, 12 negative triangles
- 208: dt=0.9405, 12 negative triangles
- 209: dt=0.9405, 10 negative triangles
- 210: dt=0.9405, 10 negative triangles
- 211: dt=0.9405, 10 negative triangles
- 212: dt=0.9405, 7 negative triangles
- 213: dt=0.9405, 8 negative triangles
- 214: dt=0.9405, 7 negative triangles
- 215: dt=0.9405, 7 negative triangles
- 216: dt=0.9405, 7 negative triangles
- 217: dt=0.9405, 5 negative triangles
- 218: dt=0.9405, 6 negative triangles
- 219: dt=0.9405, 5 negative triangles
- 220: dt=0.9405, 5 negative triangles
- 221: dt=0.9405, 5 negative triangles
- 222: dt=0.9405, 4 negative triangles
- 223: dt=0.9405, 4 negative triangles
- 224: dt=0.9405, 2 negative triangles
- 225: dt=0.9405, 3 negative triangles
- 226: dt=0.9405, 1 negative triangles
- 227: dt=0.9405, 3 negative triangles
- 228: dt=0.9405, 3 negative triangles
- 229: dt=0.9405, 1 negative triangles
- 230: dt=0.9405, 1 negative triangles
- 231: dt=0.9405, 3 negative triangles
- 232: dt=0.9405, 2 negative triangles
- 233: dt=0.9405, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.32 hours
- mris_register utimesec 4735.961024
- mris_register stimesec 3.210511
- mris_register ru_maxrss 263844
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 38027
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 10168
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 338257
- mris_register ru_nivcsw 224801
- FSRUNTIME@ mris_register 1.3161 hours 1 threads
- PIDs (27278 27281) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 00:03:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 00:03:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 31054 of (31054 31057) to complete...
- Waiting for PID 31057 of (31054 31057) 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 (31054 31057) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 00:03:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 00:03:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 31099 of (31099 31102) to complete...
- Waiting for PID 31102 of (31099 31102) 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 (31099 31102) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 00:03:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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 00:03:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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 31146 of (31146 31149) to complete...
- Waiting for PID 31149 of (31146 31149) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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...
- 954 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3281 changed, 143025 examined...
- 001: 738 changed, 13555 examined...
- 002: 197 changed, 4072 examined...
- 003: 77 changed, 1204 examined...
- 004: 25 changed, 458 examined...
- 005: 11 changed, 155 examined...
- 006: 3 changed, 56 examined...
- 007: 1 changed, 18 examined...
- 008: 1 changed, 8 examined...
- 009: 1 changed, 9 examined...
- 010: 0 changed, 5 examined...
- 217 labels changed using aseg
- 000: 104 total segments, 64 labels (225 vertices) changed
- 001: 42 total segments, 4 labels (13 vertices) changed
- 002: 38 total segments, 0 labels (0 vertices) changed
- 7 filter iterations complete (10 requested, 0 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1714 vertices marked for relabeling...
- 1714 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 16 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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...
- 1180 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2982 changed, 142876 examined...
- 001: 666 changed, 12786 examined...
- 002: 147 changed, 3833 examined...
- 003: 43 changed, 881 examined...
- 004: 11 changed, 274 examined...
- 005: 5 changed, 74 examined...
- 006: 1 changed, 31 examined...
- 007: 0 changed, 7 examined...
- 196 labels changed using aseg
- 000: 107 total segments, 69 labels (309 vertices) changed
- 001: 41 total segments, 3 labels (3 vertices) changed
- 002: 38 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1057 vertices marked for relabeling...
- 1057 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 16 seconds.
- PIDs (31146 31149) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 00:04:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050750 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 00:04:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050750 rh
- Waiting for PID 31198 of (31198 31201) to complete...
- Waiting for PID 31201 of (31198 31201) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050750 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-6.0.0/0050750/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- 17276 bright wm thresholded.
- 1249 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.orig...
- computing class statistics...
- border white: 265437 voxels (1.58%)
- border gray 306999 voxels (1.83%)
- WM (96.0): 96.5 +- 9.6 [70.0 --> 110.0]
- GM (63.0) : 62.7 +- 11.6 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 44.4 (was 70)
- setting MAX_BORDER_WHITE to 112.6 (was 105)
- setting MIN_BORDER_WHITE to 56.0 (was 85)
- setting MAX_CSF to 32.7 (was 40)
- setting MAX_GRAY to 93.4 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 44.4 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 21.1 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=103+-7.8, GM=56+-7.8
- mean inside = 90.9, mean outside = 67.4
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.92 +- 0.26 (0.05-->4.28) (max @ vno 118425 --> 118438)
- face area 0.35 +- 0.16 (0.00-->4.00)
- mean absolute distance = 0.40 +- 0.67
- 1837 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 202 points - only 0.00% unknown
- deleting segment 1 with 13 points - only 0.00% unknown
- deleting segment 2 with 364 points - only 0.00% unknown
- deleting segment 3 with 30 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- deleting segment 6 with 27 points - only 0.00% unknown
- deleting segment 7 with 29 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 9 with 8 points - only 0.00% unknown
- deleting segment 10 with 281 points - only 0.00% unknown
- deleting segment 11 with 15 points - only 0.00% unknown
- deleting segment 12 with 75 points - only 0.00% unknown
- deleting segment 13 with 38 points - only 0.00% unknown
- deleting segment 14 with 8 points - only 0.00% unknown
- deleting segment 15 with 22 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 16 with 3 points - only 0.00% unknown
- deleting segment 17 with 11 points - only 0.00% unknown
- deleting segment 18 with 47 points - only 0.00% unknown
- deleting segment 19 with 7 points - only 0.00% unknown
- deleting segment 20 with 62 points - only 0.00% unknown
- deleting segment 21 with 12 points - only 0.00% unknown
- deleting segment 22 with 45 points - only 0.00% unknown
- mean border=71.7, 37 (37) missing vertices, mean dist 0.2 [0.5 (%16.0)->0.4 (%84.0))]
- %71 local maxima, %24 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.94 +- 0.26 (0.12-->4.37) (max @ vno 118425 --> 118438)
- face area 0.35 +- 0.17 (0.00-->3.88)
- mean absolute distance = 0.25 +- 0.49
- 1920 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2276356.5, rms=7.533
- 001: dt: 0.5000, sse=1332293.6, rms=4.711 (37.465%)
- 002: dt: 0.5000, sse=1195662.0, rms=4.169 (11.514%)
- rms = 4.33, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=954201.5, rms=2.900 (30.429%)
- 004: dt: 0.2500, sse=874596.5, rms=2.338 (19.372%)
- 005: dt: 0.2500, sse=843550.9, rms=2.076 (11.235%)
- 006: dt: 0.2500, sse=836433.5, rms=2.004 (3.429%)
- 007: dt: 0.2500, sse=831209.9, rms=1.936 (3.396%)
- rms = 1.91, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=827306.4, rms=1.909 (1.390%)
- 009: dt: 0.1250, sse=817247.7, rms=1.802 (5.619%)
- rms = 1.79, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=815937.3, rms=1.786 (0.879%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 179 points - only 0.00% unknown
- deleting segment 1 with 10 points - only 0.00% unknown
- deleting segment 2 with 335 points - only 0.00% unknown
- deleting segment 3 with 27 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 17 points - only 0.00% unknown
- deleting segment 6 with 20 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 9 with 5 points - only 0.00% unknown
- deleting segment 10 with 18 points - only 0.00% unknown
- deleting segment 11 with 7 points - only 0.00% unknown
- deleting segment 12 with 6 points - only 0.00% unknown
- deleting segment 13 with 7 points - only 0.00% unknown
- deleting segment 14 with 137 points - only 0.00% unknown
- deleting segment 15 with 59 points - only 0.00% unknown
- deleting segment 16 with 34 points - only 0.00% unknown
- deleting segment 17 with 8 points - only 0.00% unknown
- deleting segment 18 with 7 points - only 0.00% unknown
- deleting segment 19 with 11 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 20 with 3 points - only 0.00% unknown
- deleting segment 21 with 10 points - only 0.00% unknown
- deleting segment 22 with 31 points - only 0.00% unknown
- deleting segment 23 with 10 points - only 0.00% unknown
- deleting segment 24 with 47 points - only 0.00% unknown
- mean border=74.4, 45 (8) missing vertices, mean dist -0.1 [0.3 (%70.1)->0.2 (%29.9))]
- %79 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.93 +- 0.26 (0.09-->4.36) (max @ vno 118425 --> 118438)
- face area 0.37 +- 0.17 (0.00-->4.11)
- mean absolute distance = 0.21 +- 0.39
- 2277 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1236846.5, rms=4.173
- 011: dt: 0.5000, sse=1057101.0, rms=3.296 (21.017%)
- rms = 4.04, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=885031.8, rms=2.135 (35.216%)
- 013: dt: 0.2500, sse=839933.7, rms=1.709 (19.958%)
- 014: dt: 0.2500, sse=825702.2, rms=1.550 (9.301%)
- rms = 1.54, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=824591.9, rms=1.541 (0.621%)
- 016: dt: 0.1250, sse=814833.5, rms=1.414 (8.187%)
- rms = 1.41, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=814388.2, rms=1.408 (0.451%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 177 points - only 0.00% unknown
- deleting segment 1 with 373 points - only 0.00% unknown
- deleting segment 2 with 28 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 3 with 4 points - only 0.00% unknown
- deleting segment 4 with 19 points - only 0.00% unknown
- deleting segment 5 with 20 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- deleting segment 8 with 5 points - only 0.00% unknown
- deleting segment 9 with 24 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- deleting segment 11 with 166 points - only 0.00% unknown
- deleting segment 12 with 14 points - only 0.00% unknown
- deleting segment 13 with 37 points - only 0.00% unknown
- deleting segment 14 with 64 points - only 0.00% unknown
- deleting segment 15 with 8 points - only 0.00% unknown
- deleting segment 16 with 10 points - only 0.00% unknown
- deleting segment 17 with 7 points - only 0.00% unknown
- deleting segment 18 with 37 points - only 0.00% unknown
- deleting segment 19 with 40 points - only 0.00% unknown
- deleting segment 20 with 7 points - only 0.00% unknown
- deleting segment 21 with 54 points - only 0.00% unknown
- mean border=76.3, 49 (4) missing vertices, mean dist -0.1 [0.2 (%64.9)->0.2 (%35.1))]
- %84 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.93 +- 0.26 (0.06-->4.33) (max @ vno 118425 --> 118438)
- face area 0.36 +- 0.17 (0.00-->4.06)
- mean absolute distance = 0.21 +- 0.34
- 2615 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=954038.4, rms=2.751
- rms = 3.41, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=835214.4, rms=1.787 (35.031%)
- 019: dt: 0.2500, sse=798126.9, rms=1.357 (24.067%)
- rms = 1.34, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=796150.6, rms=1.336 (1.554%)
- 021: dt: 0.1250, sse=789338.7, rms=1.243 (6.970%)
- rms = 1.25, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=789301.6, rms=1.247 (-0.294%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 177 points - only 0.00% unknown
- deleting segment 1 with 373 points - only 0.00% unknown
- deleting segment 2 with 27 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 3 with 4 points - only 0.00% unknown
- deleting segment 4 with 25 points - only 0.00% unknown
- deleting segment 5 with 21 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 5 points - only 0.00% unknown
- deleting segment 8 with 29 points - only 0.00% unknown
- deleting segment 9 with 180 points - only 0.00% unknown
- deleting segment 10 with 18 points - only 0.00% unknown
- deleting segment 11 with 37 points - only 0.00% unknown
- deleting segment 12 with 65 points - only 0.00% unknown
- deleting segment 13 with 12 points - only 0.00% unknown
- deleting segment 14 with 10 points - only 0.00% unknown
- deleting segment 15 with 7 points - only 0.00% unknown
- deleting segment 16 with 31 points - only 0.00% unknown
- deleting segment 17 with 39 points - only 0.00% unknown
- deleting segment 18 with 10 points - only 0.00% unknown
- deleting segment 19 with 58 points - only 0.00% unknown
- mean border=77.3, 46 (4) missing vertices, mean dist -0.0 [0.2 (%55.2)->0.2 (%44.8))]
- %86 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=820790.8, rms=1.719
- rms = 2.51, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=772662.1, rms=1.093 (36.446%)
- 024: dt: 0.2500, sse=763731.9, rms=0.933 (14.628%)
- rms = 0.94, time step reduction 2 of 3 to 0.125...
- rms = 0.93, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=762624.0, rms=0.925 (0.784%)
- positioning took 0.5 minutes
- generating cortex label...
- 7 non-cortical segments detected
- only using segment with 7719 vertices
- erasing segment 1 (vno[0] = 94367)
- erasing segment 2 (vno[0] = 104189)
- erasing segment 3 (vno[0] = 105308)
- erasing segment 4 (vno[0] = 109291)
- erasing segment 5 (vno[0] = 112899)
- erasing segment 6 (vno[0] = 116145)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.area
- vertex spacing 0.92 +- 0.26 (0.05-->4.28) (max @ vno 118425 --> 118438)
- face area 0.36 +- 0.17 (0.00-->3.98)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- deleting segment 5 with 5 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=43.3, 47 (47) missing vertices, mean dist 1.5 [0.0 (%0.0)->2.6 (%100.0))]
- % 8 local maxima, %49 large gradients and %39 min vals, 1174 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=33256030.0, rms=34.506
- 001: dt: 0.0500, sse=28926212.0, rms=32.127 (6.894%)
- 002: dt: 0.0500, sse=25782710.0, rms=30.283 (5.740%)
- 003: dt: 0.0500, sse=23353306.0, rms=28.777 (4.973%)
- 004: dt: 0.0500, sse=21382914.0, rms=27.495 (4.455%)
- 005: dt: 0.0500, sse=19724586.0, rms=26.368 (4.100%)
- 006: dt: 0.0500, sse=18290992.0, rms=25.353 (3.850%)
- 007: dt: 0.0500, sse=17026548.0, rms=24.422 (3.670%)
- 008: dt: 0.0500, sse=15896522.0, rms=23.560 (3.532%)
- 009: dt: 0.0500, sse=14875295.0, rms=22.752 (3.429%)
- 010: dt: 0.0500, sse=13945160.0, rms=21.990 (3.347%)
- positioning took 1.0 minutes
- mean border=43.2, 37 (20) missing vertices, mean dist 1.3 [0.0 (%0.0)->2.1 (%100.0))]
- % 8 local maxima, %49 large gradients and %38 min vals, 1083 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=14540261.0, rms=22.484
- 011: dt: 0.0500, sse=13686722.0, rms=21.778 (3.142%)
- 012: dt: 0.0500, sse=12902471.0, rms=21.108 (3.076%)
- 013: dt: 0.0500, sse=12179133.0, rms=20.470 (3.020%)
- 014: dt: 0.0500, sse=11511774.0, rms=19.864 (2.962%)
- 015: dt: 0.0500, sse=10895926.0, rms=19.288 (2.903%)
- 016: dt: 0.0500, sse=10327224.0, rms=18.739 (2.843%)
- 017: dt: 0.0500, sse=9802535.0, rms=18.219 (2.778%)
- 018: dt: 0.0500, sse=9318097.0, rms=17.724 (2.714%)
- 019: dt: 0.0500, sse=8870694.0, rms=17.255 (2.648%)
- 020: dt: 0.0500, sse=8457767.0, rms=16.810 (2.578%)
- positioning took 1.0 minutes
- mean border=43.1, 43 (17) missing vertices, mean dist 1.1 [0.1 (%1.1)->1.8 (%98.9))]
- % 9 local maxima, %49 large gradients and %38 min vals, 1082 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=8508704.0, rms=16.873
- 021: dt: 0.0500, sse=8118880.0, rms=16.444 (2.546%)
- 022: dt: 0.0500, sse=7759770.0, rms=16.038 (2.469%)
- 023: dt: 0.0500, sse=7426855.5, rms=15.652 (2.406%)
- 024: dt: 0.0500, sse=7120417.5, rms=15.288 (2.325%)
- 025: dt: 0.0500, sse=6837818.5, rms=14.944 (2.248%)
- 026: dt: 0.0500, sse=6576751.5, rms=14.620 (2.173%)
- 027: dt: 0.0500, sse=6334257.0, rms=14.311 (2.109%)
- 028: dt: 0.0500, sse=6106522.5, rms=14.015 (2.068%)
- 029: dt: 0.0500, sse=5892529.5, rms=13.731 (2.027%)
- 030: dt: 0.0500, sse=5691462.5, rms=13.459 (1.984%)
- positioning took 1.0 minutes
- mean border=43.1, 72 (15) missing vertices, mean dist 0.9 [0.1 (%13.3)->1.7 (%86.7))]
- % 9 local maxima, %49 large gradients and %37 min vals, 1018 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=5751614.0, rms=13.541
- 031: dt: 0.5000, sse=4357317.0, rms=11.490 (15.145%)
- 032: dt: 0.5000, sse=3507686.8, rms=10.026 (12.744%)
- 033: dt: 0.5000, sse=2930481.8, rms=8.895 (11.281%)
- 034: dt: 0.5000, sse=2556714.2, rms=8.068 (9.300%)
- 035: dt: 0.5000, sse=2297326.2, rms=7.439 (7.791%)
- 036: dt: 0.5000, sse=2121850.8, rms=6.977 (6.205%)
- 037: dt: 0.5000, sse=1982105.9, rms=6.589 (5.564%)
- 038: dt: 0.5000, sse=1880865.2, rms=6.292 (4.519%)
- 039: dt: 0.5000, sse=1791780.5, rms=6.021 (4.292%)
- 040: dt: 0.5000, sse=1727753.2, rms=5.817 (3.390%)
- 041: dt: 0.5000, sse=1673792.0, rms=5.641 (3.026%)
- 042: dt: 0.5000, sse=1637054.6, rms=5.518 (2.187%)
- 043: dt: 0.5000, sse=1607963.5, rms=5.419 (1.798%)
- 044: dt: 0.5000, sse=1591021.0, rms=5.358 (1.120%)
- 045: dt: 0.5000, sse=1573600.2, rms=5.298 (1.123%)
- rms = 5.26, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1564385.1, rms=5.263 (0.655%)
- 047: dt: 0.2500, sse=1524605.2, rms=5.085 (3.376%)
- rms = 5.05, time step reduction 2 of 3 to 0.125...
- 048: dt: 0.2500, sse=1514425.6, rms=5.046 (0.776%)
- rms = 5.03, time step reduction 3 of 3 to 0.062...
- 049: dt: 0.1250, sse=1510806.8, rms=5.028 (0.347%)
- positioning took 2.5 minutes
- mean border=42.2, 2060 (8) missing vertices, mean dist 0.2 [0.2 (%51.7)->0.9 (%48.3))]
- %19 local maxima, %42 large gradients and %33 min vals, 484 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=1669011.8, rms=4.907
- 050: dt: 0.5000, sse=1533905.5, rms=4.371 (10.932%)
- 051: dt: 0.5000, sse=1475522.5, rms=4.143 (5.212%)
- 052: dt: 0.5000, sse=1450389.0, rms=4.038 (2.538%)
- 053: dt: 0.5000, sse=1432187.4, rms=3.966 (1.770%)
- rms = 3.92, time step reduction 1 of 3 to 0.250...
- 054: dt: 0.5000, sse=1421202.6, rms=3.919 (1.198%)
- 055: dt: 0.2500, sse=1373399.2, rms=3.624 (7.517%)
- 056: dt: 0.2500, sse=1359503.8, rms=3.551 (2.013%)
- rms = 3.54, time step reduction 2 of 3 to 0.125...
- 057: dt: 0.2500, sse=1356757.5, rms=3.537 (0.408%)
- rms = 3.50, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1351586.8, rms=3.505 (0.913%)
- positioning took 1.4 minutes
- mean border=41.2, 2345 (6) missing vertices, mean dist 0.2 [0.2 (%50.3)->0.7 (%49.7))]
- %30 local maxima, %31 large gradients and %33 min vals, 594 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=1466584.2, rms=3.921
- 059: dt: 0.5000, sse=1432055.2, rms=3.761 (4.079%)
- 060: dt: 0.5000, sse=1407547.6, rms=3.701 (1.602%)
- rms = 3.74, time step reduction 1 of 3 to 0.250...
- 061: dt: 0.2500, sse=1375830.8, rms=3.501 (5.393%)
- 062: dt: 0.2500, sse=1364383.6, rms=3.426 (2.155%)
- rms = 3.42, time step reduction 2 of 3 to 0.125...
- 063: dt: 0.2500, sse=1362220.2, rms=3.415 (0.302%)
- rms = 3.38, time step reduction 3 of 3 to 0.062...
- 064: dt: 0.1250, sse=1356173.1, rms=3.378 (1.100%)
- positioning took 1.1 minutes
- mean border=40.4, 4527 (6) missing vertices, mean dist 0.1 [0.2 (%47.8)->0.5 (%52.2))]
- %37 local maxima, %24 large gradients and %32 min vals, 584 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-6.0.0/0050750/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1412613.0, rms=3.588
- rms = 3.56, time step reduction 1 of 3 to 0.250...
- 065: dt: 0.5000, sse=1404258.9, rms=3.559 (0.806%)
- 066: dt: 0.2500, sse=1366045.6, rms=3.351 (5.830%)
- 067: dt: 0.2500, sse=1352106.4, rms=3.283 (2.052%)
- rms = 3.27, time step reduction 2 of 3 to 0.125...
- 068: dt: 0.2500, sse=1350149.5, rms=3.275 (0.237%)
- rms = 3.23, time step reduction 3 of 3 to 0.062...
- 069: dt: 0.1250, sse=1342470.9, rms=3.227 (1.471%)
- positioning took 0.9 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.area.pial
- vertex spacing 1.06 +- 0.47 (0.05-->6.81) (max @ vno 100083 --> 100051)
- face area 0.44 +- 0.36 (0.00-->7.43)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 143025 vertices processed
- 25000 of 143025 vertices processed
- 50000 of 143025 vertices processed
- 75000 of 143025 vertices processed
- 100000 of 143025 vertices processed
- 125000 of 143025 vertices processed
- 0 of 143025 vertices processed
- 25000 of 143025 vertices processed
- 50000 of 143025 vertices processed
- 75000 of 143025 vertices processed
- 100000 of 143025 vertices processed
- 125000 of 143025 vertices processed
- thickness calculation complete, 373:1329 truncations.
- 27176 vertices at 0 distance
- 94933 vertices at 1 distance
- 90927 vertices at 2 distance
- 39948 vertices at 3 distance
- 13221 vertices at 4 distance
- 4421 vertices at 5 distance
- 1412 vertices at 6 distance
- 520 vertices at 7 distance
- 239 vertices at 8 distance
- 149 vertices at 9 distance
- 85 vertices at 10 distance
- 72 vertices at 11 distance
- 66 vertices at 12 distance
- 28 vertices at 13 distance
- 15 vertices at 14 distance
- 20 vertices at 15 distance
- 21 vertices at 16 distance
- 9 vertices at 17 distance
- 8 vertices at 18 distance
- 9 vertices at 19 distance
- 13 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.thickness
- positioning took 16.5 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050750 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-6.0.0/0050750/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- 17276 bright wm thresholded.
- 1249 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.orig...
- computing class statistics...
- border white: 265437 voxels (1.58%)
- border gray 306999 voxels (1.83%)
- WM (96.0): 96.5 +- 9.6 [70.0 --> 110.0]
- GM (63.0) : 62.7 +- 11.6 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 43.4 (was 70)
- setting MAX_BORDER_WHITE to 111.6 (was 105)
- setting MIN_BORDER_WHITE to 55.0 (was 85)
- setting MAX_CSF to 31.7 (was 40)
- setting MAX_GRAY to 92.4 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 43.4 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 20.1 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=102+-7.0, GM=55+-9.6
- mean inside = 90.9, mean outside = 67.5
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.92 +- 0.25 (0.02-->3.61) (max @ vno 130905 --> 135482)
- face area 0.35 +- 0.16 (0.00-->3.24)
- mean absolute distance = 0.41 +- 0.67
- 2027 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 120 points - only 0.00% unknown
- deleting segment 1 with 16 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 2 with 1 points - only 0.00% unknown
- deleting segment 3 with 7 points - only 0.00% unknown
- deleting segment 5 with 10 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 4 points - only 0.00% unknown
- deleting segment 7 with 35 points - only 0.00% unknown
- deleting segment 9 with 16 points - only 0.00% unknown
- deleting segment 10 with 358 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 24 points - only 0.00% unknown
- deleting segment 13 with 20 points - only 0.00% unknown
- deleting segment 14 with 19 points - only 0.00% unknown
- deleting segment 15 with 5 points - only 0.00% unknown
- deleting segment 16 with 16 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 17 with 2 points - only 0.00% unknown
- deleting segment 18 with 11 points - only 0.00% unknown
- deleting segment 19 with 5 points - only 0.00% unknown
- deleting segment 20 with 9 points - only 0.00% unknown
- deleting segment 21 with 6 points - only 0.00% unknown
- mean border=71.3, 74 (71) missing vertices, mean dist 0.2 [0.5 (%16.9)->0.4 (%83.1))]
- %76 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 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.94 +- 0.26 (0.12-->3.76) (max @ vno 105206 --> 102985)
- face area 0.35 +- 0.17 (0.00-->3.52)
- mean absolute distance = 0.25 +- 0.47
- 1749 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2366562.0, rms=7.760
- 001: dt: 0.5000, sse=1372404.9, rms=4.884 (37.052%)
- 002: dt: 0.5000, sse=1199521.6, rms=4.207 (13.878%)
- rms = 4.32, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=962027.9, rms=2.975 (29.282%)
- 004: dt: 0.2500, sse=880865.1, rms=2.401 (19.296%)
- 005: dt: 0.2500, sse=847019.8, rms=2.129 (11.328%)
- 006: dt: 0.2500, sse=838569.8, rms=2.043 (4.049%)
- 007: dt: 0.2500, sse=831005.8, rms=1.974 (3.349%)
- rms = 1.94, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=828047.4, rms=1.940 (1.734%)
- 009: dt: 0.1250, sse=818693.8, rms=1.839 (5.230%)
- rms = 1.82, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=817389.2, rms=1.825 (0.750%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 106 points - only 0.00% unknown
- deleting segment 1 with 14 points - only 0.00% unknown
- deleting segment 2 with 10 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 3 with 4 points - only 0.00% unknown
- deleting segment 4 with 37 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 9 points - only 0.00% unknown
- deleting segment 7 with 190 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
- deleting segment 10 with 6 points - only 0.00% unknown
- deleting segment 11 with 6 points - only 0.00% unknown
- deleting segment 12 with 6 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 13 with 4 points - only 0.00% unknown
- deleting segment 14 with 6 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 15 with 2 points - only 0.00% unknown
- deleting segment 16 with 9 points - only 0.00% unknown
- deleting segment 17 with 5 points - only 0.00% unknown
- deleting segment 18 with 8 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 19 with 3 points - only 0.00% unknown
- mean border=74.2, 68 (12) missing vertices, mean dist -0.1 [0.3 (%71.0)->0.2 (%29.0))]
- %83 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.93 +- 0.26 (0.10-->3.95) (max @ vno 105206 --> 102985)
- face area 0.37 +- 0.17 (0.00-->3.61)
- mean absolute distance = 0.21 +- 0.38
- 2081 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1262547.6, rms=4.270
- 011: dt: 0.5000, sse=1068012.9, rms=3.314 (22.394%)
- rms = 4.03, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=890738.7, rms=2.154 (35.009%)
- 013: dt: 0.2500, sse=846320.3, rms=1.725 (19.923%)
- 014: dt: 0.2500, sse=830724.2, rms=1.560 (9.572%)
- rms = 1.55, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=828659.0, rms=1.547 (0.810%)
- 016: dt: 0.1250, sse=819351.2, rms=1.427 (7.779%)
- rms = 1.42, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=819484.3, rms=1.423 (0.235%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 56 points - only 0.00% unknown
- deleting segment 1 with 14 points - only 0.00% unknown
- deleting segment 2 with 8 points - only 0.00% unknown
- deleting segment 3 with 44 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 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 38 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 9 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- deleting segment 10 with 284 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
- deleting segment 13 with 6 points - only 0.00% unknown
- deleting segment 14 with 11 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 15 with 4 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 16 with 2 points - only 0.00% unknown
- deleting segment 17 with 8 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 18 with 2 points - only 0.00% unknown
- deleting segment 19 with 9 points - only 0.00% unknown
- deleting segment 20 with 9 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 21 with 3 points - only 0.00% unknown
- deleting segment 22 with 6 points - only 0.00% unknown
- mean border=76.1, 77 (11) missing vertices, mean dist -0.1 [0.2 (%65.2)->0.2 (%34.8))]
- %86 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.92 +- 0.26 (0.12-->3.97) (max @ vno 105206 --> 102985)
- face area 0.36 +- 0.17 (0.00-->3.42)
- mean absolute distance = 0.21 +- 0.32
- 2195 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=955177.7, rms=2.768
- rms = 3.37, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=837609.2, rms=1.819 (34.265%)
- 019: dt: 0.2500, sse=799523.1, rms=1.366 (24.909%)
- rms = 1.35, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=795925.4, rms=1.352 (1.047%)
- 021: dt: 0.1250, sse=789136.7, rms=1.261 (6.746%)
- rms = 1.27, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=789882.2, rms=1.267 (-0.463%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 58 points - only 0.00% unknown
- deleting segment 1 with 15 points - only 0.00% unknown
- deleting segment 2 with 8 points - only 0.00% unknown
- deleting segment 3 with 42 points - only 0.00% unknown
- deleting segment 4 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 5 with 1 points - only 0.00% unknown
- deleting segment 6 with 38 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 9 points - only 0.00% unknown
- deleting segment 9 with 345 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 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
- deleting segment 13 with 8 points - only 0.00% unknown
- deleting segment 14 with 11 points - only 0.00% unknown
- deleting segment 15 with 5 points - only 0.00% unknown
- deleting segment 16 with 5 points - only 0.00% unknown
- deleting segment 17 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 18 with 2 points - only 0.00% unknown
- deleting segment 19 with 9 points - only 0.00% unknown
- deleting segment 20 with 5 points - only 0.00% unknown
- deleting segment 21 with 9 points - only 0.00% unknown
- deleting segment 22 with 6 points - only 0.00% unknown
- mean border=77.0, 73 (8) missing vertices, mean dist -0.0 [0.2 (%55.0)->0.2 (%45.0))]
- %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=813864.2, rms=1.679
- rms = 2.43, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=770446.1, rms=1.100 (34.490%)
- 024: dt: 0.2500, sse=761571.3, rms=0.955 (13.145%)
- rms = 0.96, time step reduction 2 of 3 to 0.125...
- rms = 0.95, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=762369.1, rms=0.950 (0.589%)
- positioning took 0.5 minutes
- generating cortex label...
- 6 non-cortical segments detected
- only using segment with 7955 vertices
- erasing segment 0 (vno[0] = 41928)
- erasing segment 2 (vno[0] = 88923)
- erasing segment 3 (vno[0] = 105129)
- erasing segment 4 (vno[0] = 108396)
- erasing segment 5 (vno[0] = 112326)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.area
- vertex spacing 0.92 +- 0.26 (0.02-->3.94) (max @ vno 102985 --> 105206)
- face area 0.36 +- 0.17 (0.00-->3.28)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 40 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=42.6, 74 (74) missing vertices, mean dist 1.5 [0.0 (%0.0)->2.8 (%100.0))]
- % 8 local maxima, %43 large gradients and %45 min vals, 1032 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=34197168.0, rms=35.051
- 001: dt: 0.0500, sse=29838878.0, rms=32.689 (6.738%)
- 002: dt: 0.0500, sse=26677880.0, rms=30.863 (5.586%)
- 003: dt: 0.0500, sse=24243994.0, rms=29.380 (4.806%)
- 004: dt: 0.0500, sse=22268864.0, rms=28.119 (4.293%)
- 005: dt: 0.0500, sse=20606374.0, rms=27.012 (3.938%)
- 006: dt: 0.0500, sse=19168120.0, rms=26.016 (3.687%)
- 007: dt: 0.0500, sse=17900718.0, rms=25.105 (3.500%)
- 008: dt: 0.0500, sse=16767187.0, rms=24.262 (3.359%)
- 009: dt: 0.0500, sse=15743167.0, rms=23.474 (3.248%)
- 010: dt: 0.0500, sse=14810905.0, rms=22.733 (3.157%)
- positioning took 1.0 minutes
- mean border=42.5, 74 (45) missing vertices, mean dist 1.2 [0.0 (%0.0)->2.3 (%100.0))]
- % 8 local maxima, %43 large gradients and %44 min vals, 987 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=15391951.0, rms=23.202
- 011: dt: 0.0500, sse=14534965.0, rms=22.513 (2.968%)
- 012: dt: 0.0500, sse=13747022.0, rms=21.861 (2.898%)
- 013: dt: 0.0500, sse=13019656.0, rms=21.241 (2.836%)
- 014: dt: 0.0500, sse=12347419.0, rms=20.651 (2.776%)
- 015: dt: 0.0500, sse=11726162.0, rms=20.091 (2.714%)
- 016: dt: 0.0500, sse=11151391.0, rms=19.558 (2.653%)
- 017: dt: 0.0500, sse=10618876.0, rms=19.050 (2.593%)
- 018: dt: 0.0500, sse=10126076.0, rms=18.569 (2.529%)
- 019: dt: 0.0500, sse=9669503.0, rms=18.111 (2.466%)
- 020: dt: 0.0500, sse=9246920.0, rms=17.676 (2.399%)
- positioning took 1.0 minutes
- mean border=42.4, 80 (28) missing vertices, mean dist 1.1 [0.1 (%0.9)->2.0 (%99.1))]
- % 8 local maxima, %44 large gradients and %43 min vals, 1022 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=9312618.0, rms=17.752
- 021: dt: 0.0500, sse=8914159.0, rms=17.334 (2.355%)
- 022: dt: 0.0500, sse=8545490.0, rms=16.938 (2.285%)
- 023: dt: 0.0500, sse=8202636.0, rms=16.561 (2.225%)
- 024: dt: 0.0500, sse=7885542.0, rms=16.204 (2.153%)
- 025: dt: 0.0500, sse=7592061.0, rms=15.867 (2.081%)
- 026: dt: 0.0500, sse=7319711.0, rms=15.548 (2.014%)
- 027: dt: 0.0500, sse=7065310.0, rms=15.243 (1.960%)
- 028: dt: 0.0500, sse=6825486.0, rms=14.950 (1.923%)
- 029: dt: 0.0500, sse=6599129.0, rms=14.668 (1.887%)
- 030: dt: 0.0500, sse=6385639.0, rms=14.396 (1.850%)
- positioning took 1.0 minutes
- mean border=42.4, 109 (25) missing vertices, mean dist 0.9 [0.1 (%11.1)->1.9 (%88.9))]
- % 9 local maxima, %44 large gradients and %43 min vals, 913 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=6453574.5, rms=14.485
- 031: dt: 0.5000, sse=4969109.0, rms=12.450 (14.049%)
- 032: dt: 0.5000, sse=4024440.2, rms=10.949 (12.051%)
- 033: dt: 0.5000, sse=3369399.5, rms=9.773 (10.740%)
- 034: dt: 0.5000, sse=2929851.8, rms=8.889 (9.053%)
- 035: dt: 0.5000, sse=2619711.5, rms=8.206 (7.681%)
- 036: dt: 0.5000, sse=2401341.2, rms=7.685 (6.344%)
- 037: dt: 0.5000, sse=2218214.5, rms=7.224 (5.999%)
- 038: dt: 0.5000, sse=2075052.0, rms=6.840 (5.316%)
- 039: dt: 0.5000, sse=1946198.2, rms=6.481 (5.259%)
- 040: dt: 0.5000, sse=1847029.6, rms=6.186 (4.538%)
- 041: dt: 0.5000, sse=1770185.0, rms=5.951 (3.800%)
- 042: dt: 0.5000, sse=1724508.6, rms=5.805 (2.461%)
- 043: dt: 0.5000, sse=1687071.2, rms=5.684 (2.081%)
- 044: dt: 0.5000, sse=1663560.8, rms=5.604 (1.410%)
- 045: dt: 0.5000, sse=1643948.1, rms=5.540 (1.150%)
- rms = 5.50, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1633908.4, rms=5.503 (0.663%)
- 047: dt: 0.2500, sse=1592508.9, rms=5.328 (3.176%)
- rms = 5.29, time step reduction 2 of 3 to 0.125...
- 048: dt: 0.2500, sse=1581102.5, rms=5.286 (0.795%)
- rms = 5.26, time step reduction 3 of 3 to 0.062...
- 049: dt: 0.1250, sse=1575886.4, rms=5.263 (0.426%)
- positioning took 2.6 minutes
- mean border=41.6, 2295 (12) missing vertices, mean dist 0.2 [0.2 (%52.4)->0.9 (%47.6))]
- %17 local maxima, %38 large gradients and %39 min vals, 414 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=1720444.2, rms=5.052
- 050: dt: 0.5000, sse=1599348.1, rms=4.591 (9.124%)
- 051: dt: 0.5000, sse=1553303.1, rms=4.430 (3.508%)
- 052: dt: 0.5000, sse=1533743.1, rms=4.356 (1.651%)
- rms = 4.31, time step reduction 1 of 3 to 0.250...
- 053: dt: 0.5000, sse=1519625.1, rms=4.307 (1.145%)
- 054: dt: 0.2500, sse=1474718.2, rms=4.050 (5.953%)
- 055: dt: 0.2500, sse=1459697.4, rms=3.980 (1.726%)
- rms = 3.97, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=1456634.6, rms=3.966 (0.352%)
- rms = 3.93, time step reduction 3 of 3 to 0.062...
- 057: dt: 0.1250, sse=1449937.4, rms=3.929 (0.943%)
- positioning took 1.4 minutes
- mean border=40.9, 2683 (6) missing vertices, mean dist 0.1 [0.2 (%51.9)->0.7 (%48.1))]
- %27 local maxima, %29 large gradients and %38 min vals, 508 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=1533284.5, rms=4.191
- rms = 4.14, time step reduction 1 of 3 to 0.250...
- 058: dt: 0.5000, sse=1519066.5, rms=4.141 (1.188%)
- 059: dt: 0.2500, sse=1480443.1, rms=3.962 (4.329%)
- 060: dt: 0.2500, sse=1465890.1, rms=3.897 (1.635%)
- rms = 3.88, time step reduction 2 of 3 to 0.125...
- 061: dt: 0.2500, sse=1461434.9, rms=3.879 (0.458%)
- 062: dt: 0.1250, sse=1450960.8, rms=3.824 (1.426%)
- rms = 3.81, time step reduction 3 of 3 to 0.062...
- 063: dt: 0.1250, sse=1447308.5, rms=3.808 (0.406%)
- positioning took 1.1 minutes
- mean border=40.2, 5196 (4) missing vertices, mean dist 0.1 [0.2 (%48.7)->0.5 (%51.3))]
- %33 local maxima, %22 large gradients and %37 min vals, 481 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-6.0.0/0050750/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1491097.4, rms=3.944
- rms = 3.91, time step reduction 1 of 3 to 0.250...
- 064: dt: 0.5000, sse=1480492.5, rms=3.915 (0.747%)
- 065: dt: 0.2500, sse=1436951.0, rms=3.702 (5.435%)
- 066: dt: 0.2500, sse=1421338.1, rms=3.630 (1.933%)
- rms = 3.61, time step reduction 2 of 3 to 0.125...
- 067: dt: 0.2500, sse=1415824.8, rms=3.607 (0.639%)
- 068: dt: 0.1250, sse=1405581.5, rms=3.550 (1.580%)
- rms = 3.54, time step reduction 3 of 3 to 0.062...
- 069: dt: 0.1250, sse=1402350.9, rms=3.537 (0.377%)
- positioning took 1.1 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.area.pial
- vertex spacing 1.06 +- 0.49 (0.08-->7.38) (max @ vno 104291 --> 103225)
- face area 0.44 +- 0.37 (0.00-->5.89)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 142876 vertices processed
- 25000 of 142876 vertices processed
- 50000 of 142876 vertices processed
- 75000 of 142876 vertices processed
- 100000 of 142876 vertices processed
- 125000 of 142876 vertices processed
- 0 of 142876 vertices processed
- 25000 of 142876 vertices processed
- 50000 of 142876 vertices processed
- 75000 of 142876 vertices processed
- 100000 of 142876 vertices processed
- 125000 of 142876 vertices processed
- thickness calculation complete, 413:1294 truncations.
- 26162 vertices at 0 distance
- 91249 vertices at 1 distance
- 91243 vertices at 2 distance
- 41762 vertices at 3 distance
- 14404 vertices at 4 distance
- 4789 vertices at 5 distance
- 1667 vertices at 6 distance
- 631 vertices at 7 distance
- 249 vertices at 8 distance
- 120 vertices at 9 distance
- 65 vertices at 10 distance
- 52 vertices at 11 distance
- 34 vertices at 12 distance
- 45 vertices at 13 distance
- 35 vertices at 14 distance
- 47 vertices at 15 distance
- 20 vertices at 16 distance
- 19 vertices at 17 distance
- 10 vertices at 18 distance
- 7 vertices at 19 distance
- 2 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.thickness
- positioning took 16.8 minutes
- PIDs (31198 31201) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 00:21:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.cortex.label
- Total face volume 277198
- Total vertex volume 273347 (mask=0)
- #@# 0050750 lh 273347
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 00:21:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.cortex.label
- Total face volume 282100
- Total vertex volume 278317 (mask=0)
- #@# 0050750 rh 278317
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 00:21:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750
- 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 = 312
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/ribbon.mgz
- mris_volmask took 15.16 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 00:36:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 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 0050750 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 00:36:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 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 0050750 rh pial
- Waiting for PID 32599 of (32599 32602 32605 32608) to complete...
- Waiting for PID 32602 of (32599 32602 32605 32608) to complete...
- Waiting for PID 32605 of (32599 32602 32605 32608) to complete...
- Waiting for PID 32608 of (32599 32602 32605 32608) 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 0050750 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 277198
- Total vertex volume 273347 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1947 1374 3795 2.796 0.484 0.117 0.021 16 1.7 bankssts
- 861 574 1746 2.515 0.733 0.132 0.017 13 0.6 caudalanteriorcingulate
- 3313 2319 6271 2.403 0.672 0.126 0.028 34 3.8 caudalmiddlefrontal
- 1981 1409 3191 2.115 0.411 0.158 0.035 33 3.0 cuneus
- 646 477 1840 2.987 0.818 0.138 0.032 8 0.9 entorhinal
- 4984 3550 11150 2.690 0.646 0.138 0.031 74 6.3 fusiform
- 8188 5908 16153 2.434 0.615 0.130 0.027 99 9.8 inferiorparietal
- 4670 3431 9743 2.398 0.715 0.130 0.028 63 5.7 inferiortemporal
- 1865 1253 3912 2.681 0.806 0.131 0.034 29 2.1 isthmuscingulate
- 7978 5668 13103 2.199 0.545 0.152 0.033 115 11.1 lateraloccipital
- 4175 3005 8488 2.609 0.669 0.146 0.040 59 7.0 lateralorbitofrontal
- 4611 3321 8539 2.402 0.581 0.145 0.032 60 6.2 lingual
- 2768 1989 6115 2.602 0.845 0.117 0.028 35 3.3 medialorbitofrontal
- 4962 3613 13806 2.996 0.648 0.133 0.031 68 6.6 middletemporal
- 1024 687 2055 2.606 0.842 0.095 0.017 7 0.6 parahippocampal
- 2380 1594 4702 2.638 0.627 0.119 0.024 19 2.4 paracentral
- 2235 1578 4634 2.553 0.573 0.118 0.025 24 2.0 parsopercularis
- 1109 794 2638 2.650 0.766 0.154 0.033 19 1.6 parsorbitalis
- 1746 1230 3225 2.266 0.591 0.123 0.023 16 1.9 parstriangularis
- 1817 1298 2281 1.916 0.521 0.138 0.031 21 2.5 pericalcarine
- 7729 5419 14214 2.211 0.667 0.134 0.030 91 9.4 postcentral
- 1961 1395 4370 2.709 0.902 0.144 0.029 33 2.6 posteriorcingulate
- 8201 5691 15731 2.418 0.620 0.119 0.022 74 7.6 precentral
- 6913 4902 13502 2.668 0.597 0.139 0.031 88 9.5 precuneus
- 1208 852 2945 3.095 1.023 0.129 0.030 18 1.3 rostralanteriorcingulate
- 8121 5975 15002 2.088 0.644 0.151 0.042 137 15.4 rostralmiddlefrontal
- 10755 7781 24441 2.673 0.741 0.134 0.032 121 14.1 superiorfrontal
- 8802 6273 15859 2.235 0.616 0.135 0.026 110 9.7 superiorparietal
- 5978 4207 14464 2.920 0.692 0.116 0.023 61 5.9 superiortemporal
- 6523 4797 12527 2.343 0.602 0.134 0.031 89 9.0 supramarginal
- 359 278 1036 2.718 0.581 0.176 0.056 9 0.9 frontalpole
- 775 556 2941 3.376 1.002 0.147 0.056 14 1.9 temporalpole
- 559 375 1139 2.773 0.459 0.117 0.026 6 0.5 transversetemporal
- 3591 2493 7780 3.081 0.685 0.123 0.033 38 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 0050750 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 277198
- Total vertex volume 273347 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1947 1321 3795 2.796 0.484 0.144 0.042 31 3.9 bankssts
- 861 773 1746 2.515 0.733 0.167 0.039 26 1.4 caudalanteriorcingulate
- 3313 2842 6271 2.403 0.672 0.161 0.041 44 6.4 caudalmiddlefrontal
- 1981 1685 3191 2.115 0.411 0.153 0.037 38 3.1 cuneus
- 646 726 1840 2.987 0.818 0.180 0.046 12 1.3 entorhinal
- 4984 4635 11150 2.690 0.646 0.170 0.042 79 10.1 fusiform
- 8188 7306 16153 2.434 0.615 0.157 0.036 102 13.2 inferiorparietal
- 4670 4529 9743 2.398 0.715 0.173 0.045 61 9.7 inferiortemporal
- 1865 1643 3912 2.681 0.806 0.164 0.045 41 3.5 isthmuscingulate
- 7978 6539 13103 2.199 0.545 0.153 0.038 122 13.6 lateraloccipital
- 4175 3739 8488 2.609 0.669 0.177 0.050 81 9.4 lateralorbitofrontal
- 4611 4045 8539 2.402 0.581 0.156 0.037 66 8.2 lingual
- 2768 2755 6115 2.602 0.845 0.177 0.044 38 5.8 medialorbitofrontal
- 4962 5519 13806 2.996 0.648 0.188 0.044 66 10.4 middletemporal
- 1024 955 2055 2.606 0.842 0.158 0.038 11 2.0 parahippocampal
- 2380 1954 4702 2.638 0.627 0.137 0.032 27 3.4 paracentral
- 2235 2020 4634 2.553 0.573 0.167 0.039 31 4.2 parsopercularis
- 1109 1193 2638 2.650 0.766 0.190 0.037 14 2.1 parsorbitalis
- 1746 1633 3225 2.266 0.591 0.176 0.041 24 3.3 parstriangularis
- 1817 1130 2281 1.916 0.521 0.124 0.035 25 2.7 pericalcarine
- 7729 7239 14214 2.211 0.667 0.168 0.041 96 14.7 postcentral
- 1961 1742 4370 2.709 0.902 0.171 0.047 62 3.9 posteriorcingulate
- 8201 7149 15731 2.418 0.620 0.149 0.034 110 13.4 precentral
- 6913 5390 13502 2.668 0.597 0.151 0.040 119 12.4 precuneus
- 1208 1151 2945 3.095 1.023 0.173 0.053 20 2.6 rostralanteriorcingulate
- 8121 8175 15002 2.088 0.644 0.198 0.050 138 20.6 rostralmiddlefrontal
- 10755 10253 24441 2.673 0.741 0.175 0.046 168 22.8 superiorfrontal
- 8802 7695 15859 2.235 0.616 0.155 0.037 111 15.5 superiorparietal
- 5978 5508 14464 2.920 0.692 0.158 0.037 87 10.5 superiortemporal
- 6523 5861 12527 2.343 0.602 0.168 0.041 102 12.4 supramarginal
- 359 440 1036 2.718 0.581 0.226 0.058 5 0.9 frontalpole
- 775 1085 2941 3.376 1.002 0.240 0.056 11 2.2 temporalpole
- 559 462 1139 2.773 0.459 0.137 0.036 4 0.9 transversetemporal
- 3591 2374 7780 3.081 0.685 0.142 0.042 77 6.5 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 0050750 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 282100
- Total vertex volume 278317 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1855 1303 3448 2.635 0.563 0.113 0.024 19 1.8 bankssts
- 977 670 1834 2.377 0.734 0.124 0.020 13 0.7 caudalanteriorcingulate
- 3414 2406 7538 2.726 0.668 0.124 0.024 34 3.7 caudalmiddlefrontal
- 2396 1669 3878 2.163 0.486 0.170 0.042 41 4.5 cuneus
- 600 451 2028 3.225 0.850 0.156 0.050 14 1.1 entorhinal
- 4119 2882 9328 2.728 0.590 0.133 0.031 54 5.4 fusiform
- 9367 6756 18945 2.472 0.614 0.134 0.029 123 11.2 inferiorparietal
- 5151 3726 11318 2.571 0.683 0.145 0.040 79 9.1 inferiortemporal
- 1681 1123 3383 2.608 0.899 0.129 0.029 25 1.8 isthmuscingulate
- 6762 4848 11395 2.095 0.550 0.156 0.038 103 11.1 lateraloccipital
- 3880 2795 7987 2.554 0.730 0.149 0.041 62 6.0 lateralorbitofrontal
- 4932 3400 9063 2.402 0.695 0.146 0.033 70 7.1 lingual
- 2925 2162 6504 2.499 0.747 0.138 0.037 44 4.4 medialorbitofrontal
- 5820 4297 15301 2.857 0.664 0.138 0.034 95 8.7 middletemporal
- 1070 707 2143 2.636 0.789 0.103 0.021 9 0.8 parahippocampal
- 2483 1714 4658 2.441 0.527 0.121 0.022 22 2.3 paracentral
- 2024 1415 4529 2.864 0.541 0.124 0.026 22 2.0 parsopercularis
- 1233 884 2736 2.519 0.670 0.147 0.034 21 1.6 parsorbitalis
- 2021 1408 3867 2.479 0.650 0.121 0.026 23 2.2 parstriangularis
- 2071 1458 2669 1.950 0.498 0.144 0.032 28 2.9 pericalcarine
- 7101 4923 13113 2.307 0.738 0.135 0.028 83 8.5 postcentral
- 2149 1464 4218 2.558 0.935 0.140 0.028 37 2.6 posteriorcingulate
- 8171 5602 16460 2.633 0.675 0.116 0.022 72 7.3 precentral
- 7111 5051 14158 2.715 0.626 0.144 0.033 106 9.7 precuneus
- 816 572 1760 2.830 0.636 0.138 0.030 12 0.9 rostralanteriorcingulate
- 7949 5799 16925 2.425 0.682 0.150 0.041 117 14.5 rostralmiddlefrontal
- 10772 7909 25608 2.662 0.711 0.142 0.035 136 15.7 superiorfrontal
- 8291 5849 14853 2.261 0.599 0.136 0.027 103 9.9 superiorparietal
- 5860 4019 13637 3.031 0.723 0.115 0.024 54 6.4 superiortemporal
- 5860 4203 11853 2.471 0.658 0.143 0.033 86 8.6 supramarginal
- 438 339 1671 3.188 0.505 0.201 0.071 9 1.5 frontalpole
- 653 481 2480 3.439 0.828 0.146 0.049 9 1.4 temporalpole
- 534 333 1042 2.799 0.517 0.141 0.038 8 0.7 transversetemporal
- 3513 2429 7985 3.251 0.667 0.128 0.037 39 5.2 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 0050750 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 282100
- Total vertex volume 278317 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1855 1296 3448 2.635 0.563 0.141 0.041 31 3.3 bankssts
- 977 817 1834 2.377 0.734 0.137 0.038 16 1.3 caudalanteriorcingulate
- 3414 3010 7538 2.726 0.668 0.159 0.039 53 6.2 caudalmiddlefrontal
- 2396 2056 3878 2.163 0.486 0.158 0.043 30 4.7 cuneus
- 600 855 2028 3.225 0.850 0.260 0.068 15 2.1 entorhinal
- 4119 3844 9328 2.728 0.590 0.194 0.045 22424 8.9 fusiform
- 9367 8560 18945 2.472 0.614 0.166 0.037 119 16.1 inferiorparietal
- 5151 5027 11318 2.571 0.683 0.195 0.054 222 13.5 inferiortemporal
- 1681 1428 3383 2.608 0.899 0.159 0.041 51 2.6 isthmuscingulate
- 6762 6144 11395 2.095 0.550 0.173 0.042 102 13.7 lateraloccipital
- 3880 3523 7987 2.554 0.730 0.195 0.057 86 10.3 lateralorbitofrontal
- 4932 4193 9063 2.402 0.695 0.157 0.063 130 17.7 lingual
- 2925 3009 6504 2.499 0.747 0.190 0.046 50 6.8 medialorbitofrontal
- 5820 6294 15301 2.857 0.664 0.187 0.046 80 12.9 middletemporal
- 1070 925 2143 2.636 0.789 0.153 0.037 15 1.9 parahippocampal
- 2483 2066 4658 2.441 0.527 0.143 0.035 33 3.9 paracentral
- 2024 1698 4529 2.864 0.541 0.155 0.040 28 3.8 parsopercularis
- 1233 1325 2736 2.519 0.670 0.189 0.047 17 2.8 parsorbitalis
- 2021 1733 3867 2.479 0.650 0.157 0.034 23 3.2 parstriangularis
- 2071 1356 2669 1.950 0.498 0.146 0.038 31 3.8 pericalcarine
- 7101 6339 13113 2.307 0.738 0.151 0.037 93 12.2 postcentral
- 2149 1786 4218 2.558 0.935 0.161 0.042 39 4.3 posteriorcingulate
- 8171 6633 16460 2.633 0.675 0.134 0.032 107 11.7 precentral
- 7111 5589 14158 2.715 0.626 0.153 0.041 133 13.3 precuneus
- 816 706 1760 2.830 0.636 0.159 0.043 13 1.6 rostralanteriorcingulate
- 7949 7990 16925 2.425 0.682 0.194 0.049 123 19.2 rostralmiddlefrontal
- 10772 10793 25608 2.662 0.711 0.185 0.048 163 24.9 superiorfrontal
- 8291 7163 14853 2.261 0.599 0.156 0.038 111 14.5 superiorparietal
- 5860 5058 13637 3.031 0.723 0.164 0.043 193 12.1 superiortemporal
- 5860 5329 11853 2.471 0.658 0.174 0.046 88 12.2 supramarginal
- 438 677 1671 3.188 0.505 0.284 0.065 7 1.6 frontalpole
- 653 986 2480 3.439 0.828 0.269 0.064 14 2.3 temporalpole
- 534 419 1042 2.799 0.517 0.129 0.034 3 0.8 transversetemporal
- 3513 2303 7985 3.251 0.667 0.148 0.044 70 7.0 insula
- PIDs (32599 32602 32605 32608) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 00:37:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot
- #-----------------------------------------
- #@# Cortical Parc 2 rh Sun Oct 8 00:37:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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 32705 of (32705 32708) to complete...
- Waiting for PID 32708 of (32705 32708) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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...
- 10 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9265 changed, 143025 examined...
- 001: 2148 changed, 36305 examined...
- 002: 624 changed, 11363 examined...
- 003: 255 changed, 3484 examined...
- 004: 121 changed, 1461 examined...
- 005: 55 changed, 661 examined...
- 006: 29 changed, 313 examined...
- 007: 13 changed, 166 examined...
- 008: 6 changed, 79 examined...
- 009: 2 changed, 35 examined...
- 010: 1 changed, 16 examined...
- 011: 1 changed, 7 examined...
- 012: 2 changed, 7 examined...
- 013: 0 changed, 11 examined...
- 2 labels changed using aseg
- 000: 251 total segments, 163 labels (2125 vertices) changed
- 001: 99 total segments, 12 labels (93 vertices) changed
- 002: 87 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 34 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 950 vertices marked for relabeling...
- 950 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 0050750 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...
- 31 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9524 changed, 142876 examined...
- 001: 2173 changed, 36988 examined...
- 002: 601 changed, 11240 examined...
- 003: 243 changed, 3478 examined...
- 004: 101 changed, 1342 examined...
- 005: 48 changed, 589 examined...
- 006: 29 changed, 273 examined...
- 007: 13 changed, 156 examined...
- 008: 6 changed, 86 examined...
- 009: 1 changed, 31 examined...
- 010: 2 changed, 7 examined...
- 011: 0 changed, 11 examined...
- 5 labels changed using aseg
- 000: 255 total segments, 170 labels (2406 vertices) changed
- 001: 93 total segments, 9 labels (38 vertices) changed
- 002: 85 total segments, 1 labels (1 vertices) changed
- 003: 84 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 34 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 659 vertices marked for relabeling...
- 659 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 19 seconds.
- PIDs (32705 32708) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 00:37:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 00:37:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 rh white
- Waiting for PID 32757 of (32757 32760) to complete...
- Waiting for PID 32760 of (32757 32760) 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 0050750 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 277198
- Total vertex volume 273347 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1145 833 1897 2.046 0.614 0.156 0.046 20 2.3 G&S_frontomargin
- 1760 1231 3263 2.417 0.532 0.153 0.030 26 2.1 G&S_occipital_inf
- 1838 1231 3567 2.314 0.650 0.120 0.025 16 1.8 G&S_paracentral
- 1679 1227 4500 2.806 0.696 0.146 0.032 24 2.3 G&S_subcentral
- 490 374 1556 2.738 0.626 0.175 0.079 13 1.3 G&S_transv_frontopol
- 2170 1571 5086 2.831 0.772 0.127 0.027 23 2.5 G&S_cingul-Ant
- 1356 978 2732 2.682 0.578 0.114 0.019 11 1.1 G&S_cingul-Mid-Ant
- 1432 997 3093 2.940 0.648 0.114 0.022 12 1.2 G&S_cingul-Mid-Post
- 841 601 2641 3.385 0.603 0.163 0.042 16 1.5 G_cingul-Post-dorsal
- 340 236 934 2.801 0.673 0.143 0.042 7 0.4 G_cingul-Post-ventral
- 1839 1346 3126 2.031 0.378 0.165 0.037 34 3.2 G_cuneus
- 1229 888 3363 2.823 0.496 0.129 0.030 18 1.4 G_front_inf-Opercular
- 427 306 1216 3.001 0.625 0.168 0.036 9 0.7 G_front_inf-Orbital
- 970 674 2287 2.574 0.547 0.137 0.034 12 1.3 G_front_inf-Triangul
- 4445 3300 10344 2.362 0.697 0.164 0.048 89 9.3 G_front_middle
- 7581 5473 19657 2.817 0.727 0.148 0.038 106 12.1 G_front_sup
- 796 565 1894 3.244 0.649 0.150 0.044 13 1.4 G_Ins_lg&S_cent_ins
- 853 569 2667 3.500 0.705 0.130 0.043 14 1.3 G_insular_short
- 2362 1645 5330 2.551 0.574 0.156 0.035 41 3.6 G_occipital_middle
- 1189 841 1814 1.956 0.410 0.148 0.035 18 1.6 G_occipital_sup
- 2098 1471 5160 2.808 0.575 0.144 0.034 39 2.9 G_oc-temp_lat-fusifor
- 3202 2333 6304 2.341 0.649 0.168 0.041 54 5.6 G_oc-temp_med-Lingual
- 1412 969 3666 2.933 0.838 0.133 0.033 18 2.1 G_oc-temp_med-Parahip
- 2679 1985 6666 2.502 0.655 0.169 0.050 59 5.8 G_orbital
- 3144 2421 7931 2.563 0.689 0.163 0.040 60 5.7 G_pariet_inf-Angular
- 3067 2358 7644 2.521 0.625 0.157 0.039 60 5.6 G_pariet_inf-Supramar
- 3716 2711 8510 2.462 0.696 0.147 0.030 57 4.6 G_parietal_sup
- 3189 2205 6570 2.290 0.647 0.147 0.036 47 4.7 G_postcentral
- 2785 1950 7039 2.583 0.722 0.131 0.027 33 3.1 G_precentral
- 3434 2503 8392 2.732 0.587 0.160 0.037 59 5.7 G_precuneus
- 954 770 3000 2.780 0.847 0.172 0.040 25 1.7 G_rectus
- 568 357 1051 2.482 1.260 0.064 0.027 4 0.5 G_subcallosal
- 427 286 1050 2.919 0.515 0.119 0.025 4 0.5 G_temp_sup-G_T_transv
- 2025 1462 6481 3.043 0.693 0.143 0.035 34 3.1 G_temp_sup-Lateral
- 786 549 2619 3.782 0.796 0.103 0.025 6 0.7 G_temp_sup-Plan_polar
- 999 727 2055 2.463 0.702 0.084 0.012 4 0.4 G_temp_sup-Plan_tempo
- 2237 1637 5122 2.397 0.689 0.142 0.037 40 3.5 G_temporal_inf
- 2880 2119 9486 3.098 0.642 0.150 0.038 50 4.7 G_temporal_middle
- 257 179 341 1.892 0.469 0.098 0.015 1 0.1 Lat_Fis-ant-Horizont
- 294 205 484 2.418 0.489 0.129 0.023 2 0.3 Lat_Fis-ant-Vertical
- 1105 746 1398 2.415 0.426 0.126 0.024 10 1.1 Lat_Fis-post
- 1882 1465 3348 1.975 0.535 0.163 0.038 30 3.3 Pole_occipital
- 1568 1219 6204 3.169 0.962 0.168 0.053 36 3.5 Pole_temporal
- 2545 1789 3529 2.200 0.648 0.128 0.029 27 3.2 S_calcarine
- 3649 2498 4385 1.987 0.437 0.111 0.021 25 3.1 S_central
- 1306 931 2231 2.587 0.593 0.131 0.031 14 2.0 S_cingul-Marginalis
- 663 443 1078 2.974 0.447 0.103 0.026 3 0.7 S_circular_insula_ant
- 1263 892 2098 2.855 0.637 0.092 0.015 5 0.9 S_circular_insula_inf
- 1873 1287 2734 2.584 0.502 0.101 0.017 9 1.3 S_circular_insula_sup
- 918 657 1444 2.336 0.698 0.110 0.018 6 0.7 S_collat_transv_ant
- 667 467 851 2.311 0.303 0.128 0.024 5 0.7 S_collat_transv_post
- 1988 1403 2834 1.928 0.527 0.097 0.014 12 1.2 S_front_inf
- 1518 1128 2262 1.963 0.568 0.133 0.033 17 2.3 S_front_middle
- 2946 2132 4644 2.242 0.638 0.121 0.027 23 3.3 S_front_sup
- 419 276 466 1.924 0.525 0.092 0.014 2 0.3 S_interm_prim-Jensen
- 3227 2284 4381 2.050 0.516 0.117 0.020 29 3.0 S_intrapariet&P_trans
- 1186 793 1357 2.015 0.424 0.113 0.022 8 1.0 S_oc_middle&Lunatus
- 1143 778 1409 2.131 0.382 0.110 0.021 8 0.9 S_oc_sup&transversal
- 1085 742 1374 2.300 0.423 0.126 0.022 10 1.0 S_occipital_ant
- 1174 866 2042 2.346 0.651 0.131 0.026 13 1.4 S_oc-temp_lat
- 2256 1570 3601 2.451 0.485 0.101 0.014 14 1.4 S_oc-temp_med&Lingual
- 445 308 431 1.455 0.202 0.108 0.017 3 0.3 S_orbital_lateral
- 719 509 989 2.280 0.628 0.113 0.022 6 0.5 S_orbital_med-olfact
- 1523 1079 2729 2.577 0.761 0.138 0.034 14 2.2 S_orbital-H_Shaped
- 2135 1487 3284 2.512 0.551 0.131 0.024 24 2.2 S_parieto_occipital
- 1351 815 1233 1.991 0.889 0.134 0.024 30 1.0 S_pericallosal
- 3841 2628 4968 2.141 0.470 0.111 0.022 29 3.2 S_postcentral
- 1841 1257 2779 2.388 0.530 0.104 0.016 11 1.2 S_precentral-inf-part
- 1570 1120 2041 2.067 0.475 0.119 0.020 11 1.5 S_precentral-sup-part
- 665 461 1117 2.744 0.808 0.097 0.018 4 0.5 S_suborbital
- 1828 1250 2893 2.626 0.509 0.114 0.026 14 1.8 S_subparietal
- 1619 1164 2600 2.447 0.672 0.102 0.017 9 1.1 S_temporal_inf
- 7536 5259 13480 2.639 0.568 0.110 0.020 56 6.0 S_temporal_sup
- 395 285 601 2.507 0.486 0.129 0.018 4 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 0050750 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 282100
- Total vertex volume 278317 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 825 604 2086 2.769 0.615 0.154 0.044 11 1.7 G&S_frontomargin
- 1196 847 2261 2.270 0.645 0.149 0.036 19 1.9 G&S_occipital_inf
- 1646 1126 3496 2.484 0.604 0.125 0.027 17 1.8 G&S_paracentral
- 1911 1340 4506 2.886 0.637 0.132 0.025 22 1.9 G&S_subcentral
- 1003 791 2851 2.470 0.694 0.189 0.068 23 2.8 G&S_transv_frontopol
- 3233 2317 6537 2.559 0.627 0.135 0.031 42 4.0 G&S_cingul-Ant
- 1310 928 2757 2.828 0.569 0.112 0.021 11 1.0 G&S_cingul-Mid-Ant
- 1474 1060 2890 2.653 0.628 0.131 0.026 19 1.5 G&S_cingul-Mid-Post
- 891 585 2513 3.295 0.736 0.168 0.040 19 1.5 G_cingul-Post-dorsal
- 276 200 792 2.712 0.690 0.150 0.038 5 0.4 G_cingul-Post-ventral
- 2091 1497 3457 2.072 0.488 0.177 0.046 38 4.2 G_cuneus
- 1342 960 3764 3.083 0.562 0.140 0.030 20 1.6 G_front_inf-Opercular
- 435 312 1065 2.549 0.495 0.132 0.031 6 0.6 G_front_inf-Orbital
- 751 525 1840 2.771 0.633 0.138 0.033 12 1.0 G_front_inf-Triangul
- 3605 2653 10079 2.736 0.772 0.159 0.041 65 6.5 G_front_middle
- 7075 5192 19349 2.797 0.749 0.153 0.039 100 11.8 G_front_sup
- 628 441 1723 3.431 0.570 0.138 0.040 8 1.1 G_Ins_lg&S_cent_ins
- 859 569 2613 3.561 0.803 0.162 0.063 19 2.2 G_insular_short
- 2385 1751 5301 2.393 0.533 0.169 0.042 45 4.1 G_occipital_middle
- 1476 1059 2212 1.902 0.402 0.144 0.030 20 1.9 G_occipital_sup
- 1735 1199 4810 2.831 0.566 0.143 0.035 30 2.3 G_oc-temp_lat-fusifor
- 2982 2032 6409 2.539 0.730 0.157 0.038 51 4.6 G_oc-temp_med-Lingual
- 1303 915 3736 3.034 0.849 0.150 0.047 24 2.5 G_oc-temp_med-Parahip
- 2709 2015 7168 2.665 0.743 0.168 0.049 62 5.0 G_orbital
- 3643 2783 9838 2.624 0.708 0.170 0.042 84 7.0 G_pariet_inf-Angular
- 3056 2181 7358 2.620 0.684 0.156 0.037 58 5.1 G_pariet_inf-Supramar
- 2661 1937 6427 2.463 0.702 0.151 0.033 43 3.8 G_parietal_sup
- 2438 1709 5490 2.434 0.741 0.152 0.035 35 3.6 G_postcentral
- 2936 2028 8192 2.832 0.726 0.126 0.027 35 3.1 G_precentral
- 3268 2437 8466 2.844 0.627 0.171 0.044 73 6.3 G_precuneus
- 765 614 2106 2.332 0.650 0.185 0.061 19 1.9 G_rectus
- 276 191 797 3.220 0.650 0.086 0.023 2 0.3 G_subcallosal
- 431 261 917 2.930 0.695 0.146 0.041 7 0.7 G_temp_sup-G_T_transv
- 2116 1441 6253 3.187 0.773 0.137 0.031 30 2.7 G_temp_sup-Lateral
- 831 586 2316 3.336 0.813 0.103 0.031 6 0.9 G_temp_sup-Plan_polar
- 748 556 1450 2.337 0.461 0.095 0.016 4 0.5 G_temp_sup-Plan_tempo
- 2805 2075 7176 2.579 0.697 0.161 0.051 59 6.6 G_temporal_inf
- 3421 2609 10502 2.923 0.677 0.158 0.043 74 6.6 G_temporal_middle
- 402 264 471 2.137 0.373 0.085 0.012 2 0.2 Lat_Fis-ant-Horizont
- 272 205 562 2.743 0.739 0.118 0.028 1 0.3 Lat_Fis-ant-Vertical
- 1443 963 2102 2.729 0.483 0.112 0.021 9 1.2 Lat_Fis-post
- 3307 2389 5231 1.954 0.528 0.172 0.044 61 7.1 Pole_occipital
- 1640 1288 6358 3.256 0.898 0.181 0.058 35 4.2 Pole_temporal
- 2600 1808 3541 2.274 0.721 0.128 0.026 27 2.8 S_calcarine
- 3255 2222 3826 2.014 0.562 0.117 0.023 24 3.1 S_central
- 1507 1050 2434 2.399 0.571 0.107 0.019 10 1.2 S_cingul-Marginalis
- 601 421 1021 2.857 0.721 0.138 0.038 6 1.0 S_circular_insula_ant
- 1209 823 1944 2.922 0.577 0.096 0.017 6 0.9 S_circular_insula_inf
- 1364 957 2403 2.955 0.549 0.102 0.017 6 1.0 S_circular_insula_sup
- 1082 750 1712 2.579 0.470 0.110 0.023 6 1.1 S_collat_transv_ant
- 370 240 551 2.412 0.504 0.143 0.034 4 0.5 S_collat_transv_post
- 1934 1361 3277 2.372 0.504 0.107 0.020 16 1.6 S_front_inf
- 2293 1667 4232 2.244 0.645 0.146 0.042 30 4.6 S_front_middle
- 2937 2100 4751 2.360 0.529 0.120 0.027 25 3.1 S_front_sup
- 247 177 380 2.391 0.512 0.129 0.042 2 0.3 S_interm_prim-Jensen
- 4020 2780 5366 2.089 0.461 0.119 0.020 37 3.5 S_intrapariet&P_trans
- 927 642 1103 1.968 0.483 0.125 0.025 7 1.0 S_oc_middle&Lunatus
- 993 690 1327 2.118 0.384 0.112 0.021 7 0.7 S_oc_sup&transversal
- 680 483 1000 2.237 0.537 0.123 0.023 6 0.7 S_occipital_ant
- 1007 707 1478 2.468 0.478 0.113 0.020 7 0.7 S_oc-temp_lat
- 2068 1413 3108 2.465 0.497 0.097 0.016 11 1.4 S_oc-temp_med&Lingual
- 530 373 763 2.201 0.643 0.128 0.023 5 0.5 S_orbital_lateral
- 770 544 1047 2.181 0.838 0.103 0.017 5 0.4 S_orbital_med-olfact
- 1518 1058 2640 2.470 0.667 0.135 0.036 16 2.1 S_orbital-H_Shaped
- 2454 1649 3583 2.495 0.535 0.131 0.025 27 2.6 S_parieto_occipital
- 1660 1013 1307 1.739 0.644 0.117 0.018 26 0.9 S_pericallosal
- 3111 2134 4191 2.230 0.538 0.123 0.025 28 3.2 S_postcentral
- 2071 1417 3315 2.679 0.479 0.107 0.019 14 1.6 S_precentral-inf-part
- 1384 980 1941 2.193 0.431 0.108 0.016 9 0.9 S_precentral-sup-part
- 333 262 736 2.404 0.686 0.127 0.022 3 0.3 S_suborbital
- 1662 1161 2841 2.740 0.678 0.121 0.023 12 1.5 S_subparietal
- 1722 1175 2373 2.455 0.548 0.114 0.018 11 1.4 S_temporal_inf
- 7820 5361 13435 2.654 0.580 0.103 0.019 50 6.2 S_temporal_sup
- 258 182 464 3.227 0.454 0.134 0.020 3 0.2 S_temporal_transverse
- PIDs (32757 32760) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 00:38:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot
- #-----------------------------------------
- #@# Cortical Parc 3 rh Sun Oct 8 00:38:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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 359 of (359 362) to complete...
- Waiting for PID 362 of (359 362) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050750 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...
- 1248 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2090 changed, 143025 examined...
- 001: 519 changed, 9603 examined...
- 002: 153 changed, 2871 examined...
- 003: 59 changed, 865 examined...
- 004: 29 changed, 372 examined...
- 005: 15 changed, 174 examined...
- 006: 11 changed, 92 examined...
- 007: 5 changed, 67 examined...
- 008: 2 changed, 26 examined...
- 009: 1 changed, 13 examined...
- 010: 0 changed, 7 examined...
- 221 labels changed using aseg
- 000: 53 total segments, 20 labels (136 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 15 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 657 vertices marked for relabeling...
- 657 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 0050750 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...
- 1181 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2096 changed, 142876 examined...
- 001: 452 changed, 9694 examined...
- 002: 98 changed, 2648 examined...
- 003: 43 changed, 579 examined...
- 004: 22 changed, 244 examined...
- 005: 15 changed, 135 examined...
- 006: 6 changed, 83 examined...
- 007: 8 changed, 39 examined...
- 008: 7 changed, 47 examined...
- 009: 7 changed, 39 examined...
- 010: 2 changed, 31 examined...
- 011: 0 changed, 16 examined...
- 201 labels changed using aseg
- 000: 58 total segments, 25 labels (201 vertices) changed
- 001: 34 total segments, 1 labels (1 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 2 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 553 vertices marked for relabeling...
- 553 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 15 seconds.
- PIDs (359 362) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 00:38:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 00:38:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 rh white
- Waiting for PID 410 of (410 413) to complete...
- Waiting for PID 413 of (410 413) 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 0050750 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 277198
- Total vertex volume 273347 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1603 1102 3202 2.495 0.655 0.126 0.021 22 1.4 caudalanteriorcingulate
- 3641 2557 6957 2.394 0.678 0.126 0.028 37 4.3 caudalmiddlefrontal
- 2795 1991 4412 2.128 0.405 0.151 0.033 43 3.9 cuneus
- 586 433 1597 2.954 0.789 0.132 0.029 7 0.8 entorhinal
- 4671 3300 9838 2.663 0.594 0.135 0.029 66 5.6 fusiform
- 8124 5876 15965 2.405 0.611 0.131 0.027 99 9.8 inferiorparietal
- 4797 3522 10779 2.453 0.775 0.135 0.031 68 6.5 inferiortemporal
- 1765 1194 3736 2.672 0.797 0.133 0.035 29 2.1 isthmuscingulate
- 7802 5518 12877 2.188 0.546 0.150 0.033 112 10.5 lateraloccipital
- 4501 3234 9263 2.530 0.676 0.155 0.045 75 8.5 lateralorbitofrontal
- 4696 3397 8671 2.391 0.576 0.146 0.032 62 6.4 lingual
- 2227 1637 5326 2.632 0.872 0.118 0.030 32 2.9 medialorbitofrontal
- 6739 4866 16910 2.894 0.648 0.128 0.028 83 8.0 middletemporal
- 1075 727 2166 2.601 0.833 0.096 0.017 7 0.7 parahippocampal
- 2840 1919 5598 2.662 0.616 0.120 0.024 23 2.9 paracentral
- 2131 1505 4497 2.591 0.542 0.120 0.025 24 2.0 parsopercularis
- 1114 773 2479 2.817 0.658 0.131 0.027 14 1.3 parsorbitalis
- 2060 1441 3429 2.145 0.625 0.123 0.024 19 2.1 parstriangularis
- 1768 1268 2198 1.919 0.533 0.136 0.030 19 2.4 pericalcarine
- 8597 6051 15548 2.224 0.659 0.134 0.030 99 10.6 postcentral
- 2107 1493 4558 2.735 0.887 0.141 0.029 33 2.7 posteriorcingulate
- 8088 5613 15535 2.428 0.621 0.119 0.022 73 7.5 precentral
- 6764 4810 13608 2.683 0.593 0.144 0.033 92 9.7 precuneus
- 1916 1353 4645 3.034 0.928 0.131 0.029 26 2.2 rostralanteriorcingulate
- 5990 4447 11342 2.113 0.651 0.149 0.040 99 10.8 rostralmiddlefrontal
- 11197 8117 24920 2.570 0.767 0.139 0.036 141 16.5 superiorfrontal
- 7408 5249 13392 2.240 0.636 0.131 0.026 89 7.9 superiorparietal
- 8103 5717 20212 2.978 0.727 0.121 0.027 90 9.3 superiortemporal
- 5936 4357 11556 2.358 0.607 0.135 0.032 82 8.3 supramarginal
- 557 373 1124 2.758 0.452 0.118 0.026 6 0.6 transversetemporal
- 3146 2229 7005 3.082 0.660 0.121 0.029 30 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 0050750 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 282100
- Total vertex volume 278317 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1039 717 1918 2.345 0.752 0.124 0.019 14 0.7 caudalanteriorcingulate
- 3544 2502 7843 2.723 0.674 0.124 0.024 35 3.8 caudalmiddlefrontal
- 2816 1958 4359 2.135 0.482 0.160 0.037 45 4.3 cuneus
- 530 383 1731 3.276 0.827 0.146 0.049 12 0.8 entorhinal
- 3795 2633 8165 2.708 0.541 0.131 0.030 47 4.7 fusiform
- 9204 6666 18644 2.469 0.619 0.133 0.028 119 10.9 inferiorparietal
- 5461 3979 12263 2.577 0.693 0.145 0.040 84 9.5 inferiortemporal
- 1643 1099 3325 2.638 0.887 0.130 0.029 24 1.8 isthmuscingulate
- 6893 4924 11459 2.072 0.541 0.156 0.038 105 11.5 lateraloccipital
- 4238 3073 9520 2.571 0.753 0.152 0.043 70 7.3 lateralorbitofrontal
- 4770 3293 8787 2.401 0.698 0.144 0.032 66 6.6 lingual
- 2080 1537 4882 2.444 0.798 0.140 0.040 34 3.2 medialorbitofrontal
- 7158 5215 17841 2.830 0.659 0.133 0.032 105 10.1 middletemporal
- 1133 756 2323 2.646 0.773 0.106 0.022 10 0.9 parahippocampal
- 2580 1789 4910 2.452 0.529 0.122 0.023 23 2.4 paracentral
- 2370 1676 5387 2.860 0.543 0.128 0.026 27 2.4 parsopercularis
- 1069 762 2452 2.566 0.651 0.135 0.032 16 1.3 parsorbitalis
- 1903 1306 3366 2.420 0.616 0.123 0.026 20 2.1 parstriangularis
- 2135 1503 2779 1.943 0.476 0.151 0.035 31 3.5 pericalcarine
- 7863 5450 14466 2.326 0.723 0.134 0.028 90 9.2 postcentral
- 2190 1492 4293 2.564 0.926 0.140 0.028 38 2.6 posteriorcingulate
- 7768 5319 15824 2.651 0.674 0.117 0.023 69 7.0 precentral
- 7281 5184 14713 2.716 0.622 0.144 0.033 109 10.1 precuneus
- 1193 833 2463 2.780 0.630 0.132 0.028 17 1.2 rostralanteriorcingulate
- 5710 4165 12062 2.418 0.697 0.151 0.040 89 10.4 rostralmiddlefrontal
- 13625 10019 31596 2.622 0.701 0.144 0.037 175 20.9 superiorfrontal
- 6973 4925 12545 2.262 0.604 0.137 0.028 89 8.6 superiorparietal
- 7591 5273 18561 3.022 0.744 0.122 0.029 81 9.6 superiortemporal
- 5509 3933 11165 2.470 0.651 0.143 0.033 82 7.8 supramarginal
- 553 348 1101 2.841 0.540 0.140 0.037 8 0.8 transversetemporal
- 3370 2325 7576 3.261 0.655 0.129 0.036 38 5.1 insula
- PIDs (410 413) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 00:39:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- pctsurfcon --s 0050750 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 00:39:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts
- pctsurfcon --s 0050750 --rh-only
- Waiting for PID 483 of (483 495) to complete...
- Waiting for PID 495 of (483 495) to complete...
- pctsurfcon --s 0050750 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts/pctsurfcon.log
- Sun Oct 8 00:39:28 CEST 2017
- setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0
- cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-540 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-6.0.0/0050750/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.483/lh.wm.mgh --regheader 0050750 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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
- Done loading volume
- Computing registration from header.
- Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 0.99877 0.04919 0.00547 0.00000;
- -0.00977 0.08760 0.99611 0.00005;
- 0.04852 -0.99494 0.08798 -0.00002;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 = 78412
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.483/lh.wm.mgh
- Dim: 143025 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.483/lh.gm.mgh --projfrac 0.3 --regheader 0050750 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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
- Done loading volume
- Computing registration from header.
- Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 0.99877 0.04919 0.00547 0.00000;
- -0.00977 0.08760 0.99611 0.00005;
- 0.04852 -0.99494 0.08798 -0.00002;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 = 91140
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.483/lh.gm.mgh
- Dim: 143025 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.483/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.483/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.w-g.pct.mgh --annot 0050750 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/lh.w-g.pct.mgh --annot 0050750 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-540
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/lh.w-g.pct.mgh
- Vertex Area is 0.709679 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 0050750 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/scripts/pctsurfcon.log
- Sun Oct 8 00:39:28 CEST 2017
- setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0
- cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-540 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-6.0.0/0050750/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.495/rh.wm.mgh --regheader 0050750 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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
- Done loading volume
- Computing registration from header.
- Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 0.99877 0.04919 0.00547 0.00000;
- -0.00977 0.08760 0.99611 0.00005;
- 0.04852 -0.99494 0.08798 -0.00002;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 = 77797
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.495/rh.wm.mgh
- Dim: 142876 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.495/rh.gm.mgh --projfrac 0.3 --regheader 0050750 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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
- Done loading volume
- Computing registration from header.
- Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 0.99877 0.04919 0.00547 0.00000;
- -0.00977 0.08760 0.99611 0.00005;
- 0.04852 -0.99494 0.08798 -0.00002;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 = 90468
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.495/rh.gm.mgh
- Dim: 142876 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.495/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/tmp.pctsurfcon.495/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.w-g.pct.mgh --annot 0050750 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/rh.w-g.pct.mgh --annot 0050750 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-540
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/rh.w-g.pct.mgh
- Vertex Area is 0.705824 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 (483 495) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 00:39:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 1255 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 1546 voxels changed to hypointensity...
- 3468 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 00:39:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750
- mri_aparc2aseg --s 0050750 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt
- #-----------------------------------------
- #@# AParc-to-ASeg a2009s Sun Oct 8 00:39:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750
- mri_aparc2aseg --s 0050750 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --a2009s
- #-----------------------------------------
- #@# AParc-to-ASeg DKTatlas Sun Oct 8 00:39:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750
- mri_aparc2aseg --s 0050750 --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 646 of (646 649 652) to complete...
- Waiting for PID 649 of (646 649 652) to complete...
- Waiting for PID 652 of (646 649 652) to complete...
- mri_aparc2aseg --s 0050750 --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 0050750
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/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-6.0.0/0050750/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.79
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 45
- rescaling Left_Lateral_Ventricle from 13 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 89
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 90
- rescaling Left_Thalamus_Proper from 84 --> 91
- rescaling Left_Caudate from 75 --> 72
- rescaling Left_Putamen from 80 --> 78
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 6
- rescaling Fourth_Ventricle from 22 --> 4
- rescaling Brain_Stem from 81 --> 87
- rescaling Left_Hippocampus from 57 --> 55
- rescaling Left_Amygdala from 56 --> 62
- rescaling CSF from 32 --> 8
- rescaling Left_Accumbens_area from 62 --> 57
- rescaling Left_VentralDC from 87 --> 97
- rescaling Right_Cerebral_White_Matter from 105 --> 106
- rescaling Right_Cerebral_Cortex from 58 --> 46
- rescaling Right_Lateral_Ventricle from 13 --> 3
- rescaling Right_Inf_Lat_Vent from 25 --> 22
- rescaling Right_Cerebellum_White_Matter from 87 --> 88
- rescaling Right_Cerebellum_Cortex from 59 --> 49
- rescaling Right_Thalamus_Proper from 85 --> 90
- rescaling Right_Caudate from 62 --> 65
- rescaling Right_Putamen from 80 --> 71
- rescaling Right_Pallidum from 97 --> 90
- rescaling Right_Hippocampus from 53 --> 52
- rescaling Right_Amygdala from 55 --> 62
- rescaling Right_Accumbens_area from 65 --> 64
- rescaling Right_VentralDC from 86 --> 100
- rescaling Fifth_Ventricle from 40 --> 8
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 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 = 548495
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 146 changed.
- pass 2: 8 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0050750 --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 0050750
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/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-6.0.0/0050750/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.79
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 45
- rescaling Left_Lateral_Ventricle from 13 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 89
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 90
- rescaling Left_Thalamus_Proper from 84 --> 91
- rescaling Left_Caudate from 75 --> 72
- rescaling Left_Putamen from 80 --> 78
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 6
- rescaling Fourth_Ventricle from 22 --> 4
- rescaling Brain_Stem from 81 --> 87
- rescaling Left_Hippocampus from 57 --> 55
- rescaling Left_Amygdala from 56 --> 62
- rescaling CSF from 32 --> 8
- rescaling Left_Accumbens_area from 62 --> 57
- rescaling Left_VentralDC from 87 --> 97
- rescaling Right_Cerebral_White_Matter from 105 --> 106
- rescaling Right_Cerebral_Cortex from 58 --> 46
- rescaling Right_Lateral_Ventricle from 13 --> 3
- rescaling Right_Inf_Lat_Vent from 25 --> 22
- rescaling Right_Cerebellum_White_Matter from 87 --> 88
- rescaling Right_Cerebellum_Cortex from 59 --> 49
- rescaling Right_Thalamus_Proper from 85 --> 90
- rescaling Right_Caudate from 62 --> 65
- rescaling Right_Putamen from 80 --> 71
- rescaling Right_Pallidum from 97 --> 90
- rescaling Right_Hippocampus from 53 --> 52
- rescaling Right_Amygdala from 55 --> 62
- rescaling Right_Accumbens_area from 65 --> 64
- rescaling Right_VentralDC from 86 --> 100
- rescaling Fifth_Ventricle from 40 --> 8
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 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 = 548466
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 146 changed.
- pass 2: 8 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0050750 --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 0050750
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/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-6.0.0/0050750/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.79
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 45
- rescaling Left_Lateral_Ventricle from 13 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 89
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 90
- rescaling Left_Thalamus_Proper from 84 --> 91
- rescaling Left_Caudate from 75 --> 72
- rescaling Left_Putamen from 80 --> 78
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 6
- rescaling Fourth_Ventricle from 22 --> 4
- rescaling Brain_Stem from 81 --> 87
- rescaling Left_Hippocampus from 57 --> 55
- rescaling Left_Amygdala from 56 --> 62
- rescaling CSF from 32 --> 8
- rescaling Left_Accumbens_area from 62 --> 57
- rescaling Left_VentralDC from 87 --> 97
- rescaling Right_Cerebral_White_Matter from 105 --> 106
- rescaling Right_Cerebral_Cortex from 58 --> 46
- rescaling Right_Lateral_Ventricle from 13 --> 3
- rescaling Right_Inf_Lat_Vent from 25 --> 22
- rescaling Right_Cerebellum_White_Matter from 87 --> 88
- rescaling Right_Cerebellum_Cortex from 59 --> 49
- rescaling Right_Thalamus_Proper from 85 --> 90
- rescaling Right_Caudate from 62 --> 65
- rescaling Right_Putamen from 80 --> 71
- rescaling Right_Pallidum from 97 --> 90
- rescaling Right_Hippocampus from 53 --> 52
- rescaling Right_Amygdala from 55 --> 62
- rescaling Right_Accumbens_area from 65 --> 64
- rescaling Right_VentralDC from 86 --> 100
- rescaling Fifth_Ventricle from 40 --> 8
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 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 = 548466
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 146 changed.
- pass 2: 8 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (646 649 652) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 00:47:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 00:47:05 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-6.0.0/0050750/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-540 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-6.0.0/0050750/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-540
- machine x86_64
- user ntraut
- input aparc+aseg.mgz
- frame 0
- nErode3d 0
- nErode2d 0
- output aseg.mgz
- Binarizing based on threshold
- min -infinity
- max +infinity
- binval 1
- binvalnot 0
- fstart = 0, fend = 0, nframes = 1
- Replacing 72
- 1: 1000 3
- 2: 2000 42
- 3: 1001 3
- 4: 2001 42
- 5: 1002 3
- 6: 2002 42
- 7: 1003 3
- 8: 2003 42
- 9: 1004 3
- 10: 2004 42
- 11: 1005 3
- 12: 2005 42
- 13: 1006 3
- 14: 2006 42
- 15: 1007 3
- 16: 2007 42
- 17: 1008 3
- 18: 2008 42
- 19: 1009 3
- 20: 2009 42
- 21: 1010 3
- 22: 2010 42
- 23: 1011 3
- 24: 2011 42
- 25: 1012 3
- 26: 2012 42
- 27: 1013 3
- 28: 2013 42
- 29: 1014 3
- 30: 2014 42
- 31: 1015 3
- 32: 2015 42
- 33: 1016 3
- 34: 2016 42
- 35: 1017 3
- 36: 2017 42
- 37: 1018 3
- 38: 2018 42
- 39: 1019 3
- 40: 2019 42
- 41: 1020 3
- 42: 2020 42
- 43: 1021 3
- 44: 2021 42
- 45: 1022 3
- 46: 2022 42
- 47: 1023 3
- 48: 2023 42
- 49: 1024 3
- 50: 2024 42
- 51: 1025 3
- 52: 2025 42
- 53: 1026 3
- 54: 2026 42
- 55: 1027 3
- 56: 2027 42
- 57: 1028 3
- 58: 2028 42
- 59: 1029 3
- 60: 2029 42
- 61: 1030 3
- 62: 2030 42
- 63: 1031 3
- 64: 2031 42
- 65: 1032 3
- 66: 2032 42
- 67: 1033 3
- 68: 2033 42
- 69: 1034 3
- 70: 2034 42
- 71: 1035 3
- 72: 2035 42
- Found 0 values in range
- Counting number of voxels in first frame
- Found 0 voxels in final mask
- Count: 0 0.000000 16777216 0.000000
- mri_binarize done
-
- Started at Sun Oct 8 00:47:05 CEST 2017
- Ended at Sun Oct 8 00:47:11 CEST 2017
- Apas2aseg-Run-Time-Sec 6
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 00:47:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750
- 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 0050750
- $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 0050750
- sysname Linux
- hostname tars-540
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1537738 mm^3 (det: 1.266865 )
- Computing euler number
- orig.nofix lheno = -74, rheno = -64
- orig.nofix lhholes = 38, rhholes = 33
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- Loading mri/norm.mgz
- Loading mri/norm.mgz
- Voxel Volume is 1 mm^3
- Generating list of segmentation ids
- Found 50 segmentations
- Computing statistics for each segmentation
- Reporting on 45 segmentations
- Using PrintSegStat
- mri_segstats done
- #-----------------------------------------
- #@# WMParc Sun Oct 8 00:48:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750
- mri_aparc2aseg --s 0050750 --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 0050750
- 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-6.0.0/0050750/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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-6.0.0/0050750/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8290 vertices from left hemi
- Ripped 8877 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-6.0.0/0050750/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 = 1056662
- Used brute-force search on 480 voxels
- Fixing Parahip LH WM
- Found 11 clusters
- 0 k 15.000000
- 1 k 1.000000
- 2 k 1504.000000
- 3 k 2.000000
- 4 k 1.000000
- 5 k 1.000000
- 6 k 1.000000
- 7 k 1.000000
- 8 k 19.000000
- 9 k 1.000000
- 10 k 1.000000
- Fixing Parahip RH WM
- Found 9 clusters
- 0 k 1.000000
- 1 k 1.000000
- 2 k 3.000000
- 3 k 2.000000
- 4 k 1.000000
- 5 k 2.000000
- 6 k 21.000000
- 7 k 1729.000000
- 8 k 1.000000
- Writing output aseg to mri/wmparc.mgz
- mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 0050750 --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 0050750 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-540
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1537738 mm^3 (det: 1.266865 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 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-6.0.0/0050750/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 00:57:04 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 1521 of (1521 1527 1533 1538 1545) to complete...
- Waiting for PID 1527 of (1521 1527 1533 1538 1545) to complete...
- Waiting for PID 1533 of (1521 1527 1533 1538 1545) to complete...
- Waiting for PID 1538 of (1521 1527 1533 1538 1545) to complete...
- Waiting for PID 1545 of (1521 1527 1533 1538 1545) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 577
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4706
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 1160
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 9069
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.label --trgsubject 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 221
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4298
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.label --trgsubject 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 572
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6555
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 454
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6238
- mri_label2label: Done
- PIDs (1521 1527 1533 1538 1545) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 1603 of (1603 1609 1615 1621) to complete...
- Waiting for PID 1609 of (1603 1609 1615 1621) to complete...
- Waiting for PID 1615 of (1603 1609 1615 1621) to complete...
- Waiting for PID 1621 of (1603 1609 1615 1621) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 273
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4343
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 1376
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 14965
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 298
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4479
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 519
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 3941
- mri_label2label: Done
- PIDs (1603 1609 1615 1621) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 1665 of (1665 1671 1677 1682 1689) to complete...
- Waiting for PID 1671 of (1665 1671 1677 1682 1689) to complete...
- Waiting for PID 1677 of (1665 1671 1677 1682 1689) to complete...
- Waiting for PID 1682 of (1665 1671 1677 1682 1689) to complete...
- Waiting for PID 1689 of (1665 1671 1677 1682 1689) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 951
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5592
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 2710
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 10824
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 570
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2588
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 131
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1421
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 156
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1355
- mri_label2label: Done
- PIDs (1665 1671 1677 1682 1689) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 1742 of (1742 1748 1754 1759 1766) to complete...
- Waiting for PID 1748 of (1742 1748 1754 1759 1766) to complete...
- Waiting for PID 1754 of (1742 1748 1754 1759 1766) to complete...
- Waiting for PID 1759 of (1742 1748 1754 1759 1766) to complete...
- Waiting for PID 1766 of (1742 1748 1754 1759 1766) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 173
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1187
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 473
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2565
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 84
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1588
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 142
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2138
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 141
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2460
- mri_label2label: Done
- PIDs (1742 1748 1754 1759 1766) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 1823 of (1823 1829 1835 1840) to complete...
- Waiting for PID 1829 of (1823 1829 1835 1840) to complete...
- Waiting for PID 1835 of (1823 1829 1835 1840) to complete...
- Waiting for PID 1840 of (1823 1829 1835 1840) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 102
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1651
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 622
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7657
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 121
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2033
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 134
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1285
- mri_label2label: Done
- PIDs (1823 1829 1835 1840) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 1885 of (1885 1891 1897 1902 1909) to complete...
- Waiting for PID 1891 of (1885 1891 1897 1902 1909) to complete...
- Waiting for PID 1897 of (1885 1891 1897 1902 1909) to complete...
- Waiting for PID 1902 of (1885 1891 1897 1902 1909) to complete...
- Waiting for PID 1909 of (1885 1891 1897 1902 1909) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 653
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4058
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 1145
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4479
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 149
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 662
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 38
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 508
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 143025
- Number of reverse mapping hits = 88
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 538
- mri_label2label: Done
- PIDs (1885 1891 1897 1902 1909) completed and logs appended.
- mris_label2annot --s 0050750 --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-6.0.0/0050750/label
- cmdline mris_label2annot --s 0050750 --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-540
- machine x86_64
- user ntraut
- subject 0050750
- 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-6.0.0/0050750/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 99148 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/lh.BA_exvivo.annot
- mris_label2annot --s 0050750 --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-6.0.0/0050750/label
- cmdline mris_label2annot --s 0050750 --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-540
- machine x86_64
- user ntraut
- subject 0050750
- 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-6.0.0/0050750/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 117711 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 277198
- Total vertex volume 273347 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 1356 947 3396 2.536 0.688 0.147 0.035 18 1.8 BA1_exvivo
- 5305 3678 8082 2.188 0.538 0.125 0.028 54 6.0 BA2_exvivo
- 1235 803 1307 1.978 0.501 0.129 0.028 11 1.3 BA3a_exvivo
- 2641 1861 4460 2.048 0.618 0.130 0.027 29 3.1 BA3b_exvivo
- 1772 1207 3612 2.597 0.608 0.120 0.027 14 1.9 BA4a_exvivo
- 1448 985 2275 2.326 0.432 0.101 0.019 8 1.1 BA4p_exvivo
- 9901 7054 21825 2.579 0.749 0.135 0.030 116 12.3 BA6_exvivo
- 2330 1650 5095 2.635 0.562 0.110 0.021 22 1.9 BA44_exvivo
- 2707 1894 5105 2.220 0.664 0.135 0.031 33 3.6 BA45_exvivo
- 3108 2354 4700 1.947 0.507 0.153 0.036 46 5.0 V1_exvivo
- 8395 5961 13900 2.199 0.557 0.159 0.037 131 13.4 V2_exvivo
- 2305 1597 4393 2.559 0.514 0.135 0.026 27 2.3 MT_exvivo
- 586 403 1574 3.100 0.762 0.121 0.033 7 0.9 perirhinal_exvivo
- 788 562 2089 2.789 0.880 0.150 0.046 13 1.5 entorhinal_exvivo
- mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0050750 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 277198
- Total vertex volume 273347 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 944 611 2393 2.671 0.619 0.159 0.040 16 1.4 BA1_exvivo
- 2251 1560 3569 2.156 0.538 0.130 0.032 27 2.9 BA2_exvivo
- 1018 656 999 1.926 0.414 0.131 0.029 9 1.0 BA3a_exvivo
- 1563 1118 2021 1.717 0.337 0.108 0.020 11 1.3 BA3b_exvivo
- 1694 1162 3292 2.535 0.574 0.114 0.025 12 1.7 BA4a_exvivo
- 1180 809 1806 2.294 0.392 0.106 0.021 8 1.0 BA4p_exvivo
- 5443 3859 12090 2.569 0.798 0.134 0.029 60 6.6 BA6_exvivo
- 1428 1024 3166 2.655 0.498 0.119 0.025 16 1.4 BA44_exvivo
- 986 688 2128 2.398 0.635 0.141 0.029 13 1.2 BA45_exvivo
- 3343 2539 5157 1.957 0.497 0.156 0.040 51 6.1 V1_exvivo
- 4095 2971 6624 2.135 0.543 0.165 0.038 69 6.8 V2_exvivo
- 614 421 1248 2.618 0.583 0.129 0.024 7 0.7 MT_exvivo
- 299 201 902 3.281 0.714 0.096 0.017 2 0.2 perirhinal_exvivo
- 456 321 984 2.858 0.764 0.141 0.035 6 0.5 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 00:59:59 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 2025 of (2025 2031 2037 2043 2048) to complete...
- Waiting for PID 2031 of (2025 2031 2037 2043 2048) to complete...
- Waiting for PID 2037 of (2025 2031 2037 2043 2048) to complete...
- Waiting for PID 2043 of (2025 2031 2037 2043 2048) to complete...
- Waiting for PID 2048 of (2025 2031 2037 2043 2048) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 366
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4328
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 579
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7266
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 159
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4139
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 310
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4832
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 334
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6081
- mri_label2label: Done
- PIDs (2025 2031 2037 2043 2048) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 2121 of (2121 2127 2133 2139) to complete...
- Waiting for PID 2127 of (2121 2127 2133 2139) to complete...
- Waiting for PID 2133 of (2121 2127 2133 2139) to complete...
- Waiting for PID 2139 of (2121 2127 2133 2139) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 196
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4669
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 1022
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13278
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 902
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7814
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA45_exvivo.label --trgsubject 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 636
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 5991
- mri_label2label: Done
- PIDs (2121 2127 2133 2139) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 2315 of (2315 2321 2327 2333 2338) to complete...
- Waiting for PID 2321 of (2315 2321 2327 2333 2338) to complete...
- Waiting for PID 2327 of (2315 2321 2327 2333 2338) to complete...
- Waiting for PID 2333 of (2315 2321 2327 2333 2338) to complete...
- Waiting for PID 2338 of (2315 2321 2327 2333 2338) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 1312
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 6039
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 2474
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 10490
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 402
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2334
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 133
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1171
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 124
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 876
- mri_label2label: Done
- PIDs (2315 2321 2327 2333 2338) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 2404 of (2404 2410 2416 2422 2427) to complete...
- Waiting for PID 2410 of (2404 2410 2416 2422 2427) to complete...
- Waiting for PID 2416 of (2404 2410 2416 2422 2427) to complete...
- Waiting for PID 2422 of (2404 2410 2416 2422 2427) to complete...
- Waiting for PID 2427 of (2404 2410 2416 2422 2427) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 93
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 969
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 238
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 2926
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 79
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1777
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 137
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2320
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 81
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1469
- mri_label2label: Done
- PIDs (2404 2410 2416 2422 2427) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 2491 of (2491 2497 2503 2508) to complete...
- Waiting for PID 2497 of (2491 2497 2503 2508) to complete...
- Waiting for PID 2503 of (2491 2497 2503 2508) to complete...
- Waiting for PID 2508 of (2491 2497 2503 2508) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 58
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1547
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 572
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7531
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 148
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1160
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 70
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1248
- mri_label2label: Done
- PIDs (2491 2497 2503 2508) 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 0050750 --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 0050750 --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 0050750 --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 0050750 --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 0050750 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 2551 of (2551 2557 2563 2568 2574) to complete...
- Waiting for PID 2557 of (2551 2557 2563 2568 2574) to complete...
- Waiting for PID 2563 of (2551 2557 2563 2568 2574) to complete...
- Waiting for PID 2568 of (2551 2557 2563 2568 2574) to complete...
- Waiting for PID 2574 of (2551 2557 2563 2568 2574) 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 846
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4078
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 1162
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 4599
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 44
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 312
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 99
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 793
- 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 0050750 --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 = 0050750
- 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-6.0.0/0050750/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 142876
- Number of reverse mapping hits = 58
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 349
- mri_label2label: Done
- PIDs (2551 2557 2563 2568 2574) completed and logs appended.
- mris_label2annot --s 0050750 --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-6.0.0/0050750/label
- cmdline mris_label2annot --s 0050750 --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-540
- machine x86_64
- user ntraut
- subject 0050750
- 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-6.0.0/0050750/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 100519 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/label/rh.BA_exvivo.annot
- mris_label2annot --s 0050750 --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-6.0.0/0050750/label
- cmdline mris_label2annot --s 0050750 --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-540
- machine x86_64
- user ntraut
- subject 0050750
- 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-6.0.0/0050750/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 119196 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/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 0050750 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 282100
- Total vertex volume 278317 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 992 691 2824 2.816 0.731 0.157 0.036 15 1.3 BA1_exvivo
- 3849 2721 6499 2.275 0.614 0.139 0.029 46 4.9 BA2_exvivo
- 1226 791 1231 2.023 0.486 0.139 0.034 13 1.7 BA3a_exvivo
- 2185 1526 3265 1.902 0.597 0.122 0.025 21 2.3 BA3b_exvivo
- 1559 1081 3204 2.564 0.475 0.105 0.019 10 1.1 BA4a_exvivo
- 1260 885 2127 2.458 0.510 0.110 0.020 8 1.0 BA4p_exvivo
- 8462 6022 20249 2.701 0.686 0.132 0.028 92 9.7 BA6_exvivo
- 4309 2971 8629 2.737 0.558 0.113 0.020 38 3.4 BA44_exvivo
- 3644 2599 7449 2.450 0.647 0.134 0.031 50 4.6 BA45_exvivo
- 3765 2757 5724 1.921 0.516 0.165 0.041 65 7.7 V1_exvivo
- 8040 5546 13274 2.241 0.643 0.155 0.037 120 12.2 V2_exvivo
- 2039 1463 3593 2.389 0.556 0.137 0.033 23 2.9 MT_exvivo
- 642 469 2146 3.162 0.876 0.139 0.040 11 1.0 perirhinal_exvivo
- 385 280 904 2.492 0.679 0.192 0.065 9 1.2 entorhinal_exvivo
- mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0050750 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050750/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 282100
- Total vertex volume 278317 (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) = 1537738 mm^3 (det: 1.266865 )
- lhCtxGM: 272442.513 272596.000 diff= -153.5 pctdiff=-0.056
- rhCtxGM: 277283.776 277024.000 diff= 259.8 pctdiff= 0.094
- lhCtxWM: 255939.612 255727.000 diff= 212.6 pctdiff= 0.083
- rhCtxWM: 253701.624 254207.000 diff= -505.4 pctdiff=-0.199
- SubCortGMVol 67367.000
- SupraTentVol 1145502.525 (1143462.000) diff=2040.525 pctdiff=0.178
- SupraTentVolNotVent 1129140.525 (1127100.000) diff=2040.525 pctdiff=0.181
- BrainSegVol 1286712.000 (1284887.000) diff=1825.000 pctdiff=0.142
- BrainSegVolNotVent 1268035.000 (1267636.525) diff=398.475 pctdiff=0.031
- BrainSegVolNotVent 1268035.000
- CerebellumVol 140723.000
- VentChorVol 16362.000
- 3rd4th5thCSF 2315.000
- CSFVol 490.000, OptChiasmVol 212.000
- MaskVol 1758188.000
- 722 483 2019 2.784 0.756 0.156 0.034 11 1.1 BA1_exvivo
- 2163 1552 3728 2.190 0.608 0.136 0.028 25 2.7 BA2_exvivo
- 1085 694 954 1.988 0.442 0.139 0.033 11 1.5 BA3a_exvivo
- 1700 1192 2143 1.701 0.443 0.115 0.024 15 1.7 BA3b_exvivo
- 985 688 2219 2.619 0.480 0.117 0.022 7 0.8 BA4a_exvivo
- 1011 717 1632 2.425 0.458 0.105 0.018 6 0.7 BA4p_exvivo
- 5445 3853 12993 2.677 0.712 0.132 0.028 60 6.4 BA6_exvivo
- 943 668 2455 3.020 0.503 0.128 0.029 11 0.9 BA44_exvivo
- 853 643 2251 2.815 0.692 0.159 0.036 15 1.4 BA45_exvivo
- 3590 2628 5364 1.924 0.520 0.162 0.040 60 7.3 V1_exvivo
- 4236 2971 7193 2.201 0.651 0.162 0.037 69 6.5 V2_exvivo
- 267 199 635 2.500 0.354 0.141 0.037 3 0.3 MT_exvivo
- 399 282 1313 3.273 0.898 0.122 0.035 6 0.6 perirhinal_exvivo
- 281 204 656 2.618 0.659 0.201 0.055 6 0.8 entorhinal_exvivo
- Started at Sat Oct 7 16:52:34 CEST 2017
- Ended at Sun Oct 8 01:02:55 CEST 2017
- #@#%# recon-all-run-time-hours 8.172
- recon-all -s 0050750 finished without error at Sun Oct 8 01:02:55 CEST 2017
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