Thu Aug 10 12:55:39 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256 /Applications/freesurfer/bin/recon-all -all -i /Users/jogadores/Desktop/volumetria_jogadores/ANON0256/volume_T1.nii -s recon0256 subjid recon0256 setenv SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Actual FREESURFER_HOME /Applications/freesurfer build-stamp.txt: freesurfer-Darwin-lion-stable-pub-v5.3.0 Darwin jogadores-02.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited descriptors 256 memorylocked unlimited maxproc 709 PhysMem: 11G used (2456M wired), 21G unused. ######################################## program versions used $Id: recon-all,v 1.379.2.73 2013/05/12 23:15:37 nicks Exp $ $Id: mri_motion_correct.fsl,v 1.14 2011/03/02 20:16:39 nicks Exp $ mri_convert -all-info ProgramName: mri_convert ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 FLIRT version 5.5 $Id: talairach_avi,v 1.9 2011/03/02 18:38:06 nicks Exp $ mri_convert --version stable5 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 Program nu_correct, built from: Package MNI N3, version 1.10, compiled by nicks@aspasia.local (i686-apple-darwin10.2.0) on 2010-02-26 at 14:19:30 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize.c,v 1.73.2.1 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_watershed.cpp,v 1.96.2.1 2011/11/08 22:18:44 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segment.c,v 1.40 2011/03/02 00:04:24 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_label2label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_label2label.c,v 1.40.2.2 2013/04/02 16:26:15 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_em_register.c,v 1.84.2.3 2013/02/09 00:49:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_normalize.c,v 1.52.2.2 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_register.c,v 1.78.2.3 2013/02/09 00:42:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_label.c,v 1.96.2.1 2012/08/28 22:11:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_pretess.c,v 1.20 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fill.c,v 1.118 2011/03/16 21:23:49 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_tessellate.c,v 1.36 2011/03/02 00:04:25 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_concatenate_lta ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_concatenate_lta.c,v 1.10 2011/03/16 21:23:48 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_smooth.c,v 1.28 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_inflate.c,v 1.43 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_euler_number.c,v 1.8.2.2 2013/01/14 22:40:07 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_make_surfaces.c,v 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_volmask.cpp,v 1.25 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_anatomical_stats.c,v 1.72 2011/03/02 00:04:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mrisp_paint.c,v 1.11 2011/03/02 00:04:35 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature_stats.c,v 1.64 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_calc.c,v 1.37.2.8 2013/01/28 17:05:17 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ ProgramName: mri_robust_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_or.c,v 1.3 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/10-15:55:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ####################################### GCADIR /Applications/freesurfer/average GCA RB_all_2008-03-26.gca GCASkull RB_all_withskull_2008-03-26.gca AvgCurvTif average.curvature.filled.buckner40.tif GCSDIR /Applications/freesurfer/average GCS curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs ####################################### /Users/jogadores/Desktop/volumetria_jogadores/recon0256 \n mri_convert /Users/jogadores/Desktop/volumetria_jogadores/ANON0256/volume_T1.nii /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig/001.mgz \n mri_convert /Users/jogadores/Desktop/volumetria_jogadores/ANON0256/volume_T1.nii /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig/001.mgz $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from /Users/jogadores/Desktop/volumetria_jogadores/ANON0256/volume_T1.nii... TR=7.68, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) writing to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig/001.mgz... #-------------------------------------------- #@# MotionCor Thu Aug 10 12:55:41 BRT 2017 Found 1 runs /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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. \n cp /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig/001.mgz /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256 \n mri_convert /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz --conform \n mri_convert /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz --conform $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz... TR=7.68, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) Original Data has (1, 1, 1) mm size and (256, 256, 256) voxels. Data is conformed to 1 mm size and 256 voxels for all directions writing to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz... \n mri_add_xform_to_header -c /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/transforms/talairach.xfm /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz \n INFO: extension is mgz #-------------------------------------------- #@# Talairach Thu Aug 10 12:55:46 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i orig.mgz --o orig_nu.mgz \n \n talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm \n \n cp transforms/talairach.auto.xfm transforms/talairach.xfm \n #-------------------------------------------- #@# Talairach Failure Detection Thu Aug 10 12:56:59 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n talairach_afd -T 0.005 -xfm transforms/talairach.xfm \n talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6705, pval=0.3663 >= threshold=0.0050) \n awk -f /Applications/freesurfer/bin/extract_talairach_avi_QA.awk /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/transforms/talairach_avi.log \n \n tal_QC_AZS /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/transforms/talairach_avi.log \n TalAviQA: 0.97577 z-score: 0 #-------------------------------------------- #@# Nu Intensity Correction Thu Aug 10 12:56:59 BRT 2017 \n mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri /Applications/freesurfer/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 1.18.2.1 2013/01/09 21:23:42 nicks Exp $ Darwin jogadores-02.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 Thu Aug 10 12:56:59 BRT 2017 Program nu_correct, built from: Package MNI N3, version 1.10, compiled by nicks@aspasia.local (i686-apple-darwin10.2.0) on 2010-02-26 at 14:19:30 tmpdir is ./tmp.mri_nu_correct.mni.41342 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri mri_convert orig.mgz ./tmp.mri_nu_correct.mni.41342/nu0.mnc -odt float mri_convert orig.mgz ./tmp.mri_nu_correct.mni.41342/nu0.mnc -odt float $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from orig.mgz... TR=7.68, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) changing data type from uchar to float (noscale = 0)... writing to ./tmp.mri_nu_correct.mni.41342/nu0.mnc... -------------------------------------------------------- Iteration 1 Thu Aug 10 12:57:01 BRT 2017 nu_correct -clobber ./tmp.mri_nu_correct.mni.41342/nu0.mnc ./tmp.mri_nu_correct.mni.41342/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.41342/0/ defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 165. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 170. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 211. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1051. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1054. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1449. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1455. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1457. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1481. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1631. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1633. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1635. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1637. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1639. (Maybe you should just omit the defined()?) [jogadores@jogadores-02.local:/Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/] [2017-08-10 12:57:02] running: /Applications/freesurfer/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 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.41342/0/ ./tmp.mri_nu_correct.mni.41342/nu0.mnc ./tmp.mri_nu_correct.mni.41342/nu1.imp Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Number of iterations: 41 CV of field change: 0.000994962 [jogadores@jogadores-02.local:/Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/] [2017-08-10 12:57:21] running: /Applications/freesurfer/mni/bin/make_template -quiet -shrink 3 ./tmp.mri_nu_correct.mni.41342/nu0.mnc ./tmp.mri_nu_correct.mni.41342/0//template.mnc Transforming slices:......................................................................................Done Transforming slices:................................................................................................................................................................................................................................................................Done -------------------------------------------------------- Iteration 2 Thu Aug 10 12:57:23 BRT 2017 nu_correct -clobber ./tmp.mri_nu_correct.mni.41342/nu1.mnc ./tmp.mri_nu_correct.mni.41342/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.41342/1/ defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 165. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 170. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 211. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1051. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1054. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1449. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1455. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1457. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1481. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1631. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1633. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1635. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1637. (Maybe you should just omit the defined()?) defined(@array) is deprecated at /Applications/freesurfer/mni/bin/nu_estimate_np_and_em line 1639. (Maybe you should just omit the defined()?) [jogadores@jogadores-02.local:/Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/] [2017-08-10 12:57:23] running: /Applications/freesurfer/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 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.41342/1/ ./tmp.mri_nu_correct.mni.41342/nu1.mnc ./tmp.mri_nu_correct.mni.41342/nu2.imp Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Use of ?PATTERN? without explicit operator is deprecated at /Applications/freesurfer/mni/bin/sharpen_volume line 153. Processing:.................................................................Done Number of iterations: 15 CV of field change: 0.000992396 [jogadores@jogadores-02.local:/Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/] [2017-08-10 12:57:30] running: /Applications/freesurfer/mni/bin/make_template -quiet -shrink 3 ./tmp.mri_nu_correct.mni.41342/nu1.mnc ./tmp.mri_nu_correct.mni.41342/1//template.mnc Transforming slices:......................................................................................Done Transforming slices:................................................................................................................................................................................................................................................................Done mri_binarize --i ./tmp.mri_nu_correct.mni.41342/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.41342/ones.mgz $Id: mri_binarize.c,v 1.26.2.1 2011/04/08 15:40:50 greve Exp $ cwd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri cmdline mri_binarize --i ./tmp.mri_nu_correct.mni.41342/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.41342/ones.mgz sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores input ./tmp.mri_nu_correct.mni.41342/nu2.mnc frame 0 nErode3d 0 nErode2d 0 output ./tmp.mri_nu_correct.mni.41342/ones.mgz Binarizing based on threshold min -1 max +infinity binval 1 binvalnot 0 Found 16777216 values in range Counting number of voxels Found 16777216 voxels in final mask mri_binarize done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.41342/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.41342/sum.junk --avgwf ./tmp.mri_nu_correct.mni.41342/input.mean.dat $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.41342/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.41342/sum.junk --avgwf ./tmp.mri_nu_correct.mni.41342/input.mean.dat sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores UseRobust 0 Loading ./tmp.mri_nu_correct.mni.41342/ones.mgz Loading orig.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation 0 1 16777216 16777216.000 Reporting on 1 segmentations Computing spatial average of each frame 0 Writing to ./tmp.mri_nu_correct.mni.41342/input.mean.dat mri_segstats done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.41342/ones.mgz --i ./tmp.mri_nu_correct.mni.41342/nu2.mnc --sum ./tmp.mri_nu_correct.mni.41342/sum.junk --avgwf ./tmp.mri_nu_correct.mni.41342/output.mean.dat $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.41342/ones.mgz --i ./tmp.mri_nu_correct.mni.41342/nu2.mnc --sum ./tmp.mri_nu_correct.mni.41342/sum.junk --avgwf ./tmp.mri_nu_correct.mni.41342/output.mean.dat sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores UseRobust 0 Loading ./tmp.mri_nu_correct.mni.41342/ones.mgz Loading ./tmp.mri_nu_correct.mni.41342/nu2.mnc Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation 0 1 16777216 16777216.000 Reporting on 1 segmentations Computing spatial average of each frame 0 Writing to ./tmp.mri_nu_correct.mni.41342/output.mean.dat mri_segstats done mris_calc -o ./tmp.mri_nu_correct.mni.41342/nu2.mnc ./tmp.mri_nu_correct.mni.41342/nu2.mnc mul .99238620693360158668 Saving result to './tmp.mri_nu_correct.mni.41342/nu2.mnc' (type = MINC ) [ ok ] mri_convert ./tmp.mri_nu_correct.mni.41342/nu2.mnc nu.mgz --like orig.mgz mri_convert ./tmp.mri_nu_correct.mni.41342/nu2.mnc nu.mgz --like orig.mgz $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from ./tmp.mri_nu_correct.mni.41342/nu2.mnc... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to nu.mgz... mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz type change took 0 minutes and 5 seconds. mapping (12, 135) to ( 3, 110) Thu Aug 10 12:58:00 BRT 2017 mri_nu_correct.mni done \n mri_add_xform_to_header -c /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/transforms/talairach.xfm nu.mgz nu.mgz \n INFO: extension is mgz #-------------------------------------------- #@# Intensity Normalization Thu Aug 10 12:58:01 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_normalize -g 1 nu.mgz T1.mgz \n using max gradient = 1.000 reading from nu.mgz... normalizing image... talairach transform 0.975 -0.030 -0.010 1.258; -0.021 0.991 0.319 -54.116; -0.045 -0.298 1.069 6.708; 0.000 0.000 0.000 1.000; processing without aseg, no1d=0 MRInormInit(): INFO: Modifying talairach volume c_(r,a,s) based on average_305 MRInormalize(): MRIsplineNormalize(): npeaks = 17 Starting OpenSpline(): npoints = 17 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 111 white matter peak found at 108 gm peak at 86 (86), valley at 64 (64) csf peak at 44, setting threshold to 72 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 111 white matter peak found at 109 gm peak at 87 (87), valley at 57 (57) csf peak at 45, setting threshold to 73 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 2 minutes and 3 seconds. #-------------------------------------------- #@# Skull Stripping Thu Aug 10 13:00:05 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_em_register -skull nu.mgz /Applications/freesurfer/average/RB_all_withskull_2008-03-26.gca transforms/talairach_with_skull.lta \n aligning to atlas containing skull, setting unknown_nbr_spacing = 5 reading 1 input volumes... logging results to talairach_with_skull.log reading '/Applications/freesurfer/average/RB_all_withskull_2008-03-26.gca'... average std = 23.1 using min determinant for regularization = 53.4 0 singular and 5702 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. bounding unknown intensity as < 20.2 or > 943.7 total sample mean = 92.0 (1443 zeros) ************************************************ spacing=8, using 3481 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 3481, passno 0, spacing 8 resetting wm mean[0]: 117 --> 126 resetting gm mean[0]: 74 --> 74 input volume #1 is the most T1-like using real data threshold=7.0 skull bounding box = (47, 33, 16) --> (213, 255, 245) using (102, 107, 131) as brain centroid... mean wm in atlas = 126, using box (82,80,103) --> (122, 134,159) to find MRI wm before smoothing, mri peak at 109 after smoothing, mri peak at 108, scaling input intensities by 1.167 scaling channel 0 by 1.16667 initial log_p = -4.4 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.558080 @ (0.000, 0.000, 0.000) max log p = -4.436086 @ (-4.545, 13.636, -4.545) max log p = -4.411936 @ (2.273, -2.273, 2.273) max log p = -4.404308 @ (-1.136, -1.136, -1.136) max log p = -4.390494 @ (-0.568, 1.705, -0.568) max log p = -4.390494 @ (0.000, 0.000, 0.000) Found translation: (-4.0, 11.9, -4.0): log p = -4.390 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.3, old_max_log_p =-4.4 (thresh=-4.4) 1.000 0.000 0.000 -3.977; 0.000 1.194 0.320 -44.463; 0.000 -0.275 1.028 30.556; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.3, old_max_log_p =-4.3 (thresh=-4.3) 1.000 0.000 0.000 -3.977; 0.000 1.284 0.344 -56.881; 0.000 -0.275 1.028 30.556; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.2, old_max_log_p =-4.3 (thresh=-4.2) 1.000 0.000 0.000 -3.977; 0.000 1.210 0.191 -33.010; 0.000 -0.105 1.064 7.969; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 3 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 1.000 0.000 0.000 -3.977; 0.000 1.210 0.191 -33.010; 0.000 -0.105 1.064 7.969; 0.000 0.000 0.000 1.000; reducing scale to 0.2500 **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.980 0.030 0.043 -7.153; -0.031 1.262 0.312 -45.114; -0.032 -0.218 1.020 27.345; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.962 0.046 -0.023 0.316; -0.033 1.277 0.351 -50.763; 0.034 -0.261 1.029 24.632; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 6 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.944 -0.046 -0.015 11.767; 0.031 1.268 0.385 -59.448; 0.003 -0.304 1.017 34.444; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 7 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.944 -0.046 -0.015 11.767; 0.031 1.268 0.385 -59.448; 0.003 -0.304 1.017 34.444; 0.000 0.000 0.000 1.000; reducing scale to 0.0625 **************************************** Nine parameter search. iteration 8 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.944 -0.046 -0.015 11.767; 0.031 1.263 0.401 -61.533; 0.003 -0.326 1.013 37.247; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 9 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.944 -0.046 -0.015 11.767; 0.031 1.263 0.401 -61.533; 0.003 -0.326 1.013 37.247; 0.000 0.000 0.000 1.000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 3481 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.94441 -0.04603 -0.01473 11.76674; 0.03142 1.26263 0.40116 -61.53255; 0.00282 -0.32573 1.01301 37.24666; 0.00000 0.00000 0.00000 1.00000; nsamples 3481 Quasinewton: input matrix 0.94441 -0.04603 -0.01473 11.76674; 0.03142 1.26263 0.40116 -61.53255; 0.00282 -0.32573 1.01301 37.24666; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 012: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.944 -0.046 -0.015 11.767; 0.031 1.263 0.401 -61.533; 0.003 -0.326 1.013 37.247; 0.000 0.000 0.000 1.000; pass 1, spacing 8: log(p) = -4.2 (old=-4.4) transform before final EM align: 0.944 -0.046 -0.015 11.767; 0.031 1.263 0.401 -61.533; 0.003 -0.326 1.013 37.247; 0.000 0.000 0.000 1.000; ************************************************** EM alignment process ... Computing final MAP estimate using 382743 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.94441 -0.04603 -0.01473 11.76674; 0.03142 1.26263 0.40116 -61.53255; 0.00282 -0.32573 1.01301 37.24666; 0.00000 0.00000 0.00000 1.00000; nsamples 382743 Quasinewton: input matrix 0.94441 -0.04603 -0.01473 11.76674; 0.03142 1.26263 0.40116 -61.53255; 0.00282 -0.32573 1.01301 37.24666; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 6 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 014: -log(p) = 4.6 tol 0.000000 final transform: 0.944 -0.046 -0.015 11.767; 0.031 1.263 0.401 -61.533; 0.003 -0.326 1.013 37.247; 0.000 0.000 0.000 1.000; writing output transformation to transforms/talairach_with_skull.lta... registration took 26 minutes and 52 seconds. \n mri_watershed -T1 -brain_atlas /Applications/freesurfer/average/RB_all_withskull_2008-03-26.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz \n 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=128 y=106 z=107 r=93 first estimation of the main basin volume: 3445855 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=169, y=98, z=82, 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=2524684331124720 voxels, voxel volume =1.000 = 2524684331124720 mmm3 = 2524684318932.992 cm3 done. PostAnalyze...Basin Prior 42 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=127,y=111, z=102, r=9857 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=6, CSF_MAX=59 , nb = 41418 RIGHT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=79 , nb = 3690 LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=39 , nb = 2988 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=57 , nb = 17478 LEFT_BRAIN CSF_MIN=0, CSF_intensity=7, CSF_MAX=61 , nb = 16794 OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=9 , nb = 468 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 59, 54, 51, 86 after analyzing : 39, 54, 54, 62 RIGHT_CER before analyzing : 79, 62, 56, 87 after analyzing : 35, 62, 62, 68 LEFT_CER before analyzing : 39, 50, 59, 83 after analyzing : 39, 56, 59, 62 RIGHT_BRAIN before analyzing : 57, 53, 51, 86 after analyzing : 37, 53, 53, 61 LEFT_BRAIN before analyzing : 61, 54, 50, 86 after analyzing : 41, 54, 54, 62 OTHER before analyzing : 9, 13, 24, 40 after analyzing : 9, 21, 25, 25 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...74 iterations *********************VALIDATION********************* curvature mean = -0.013, std = 0.010 curvature mean = 71.713, std = 6.874 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 3.43, sigma = 5.07 after rotation: sse = 3.43, sigma = 5.07 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 3.64, its var is 4.91 before Erosion-Dilatation 0.63% 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...47 iterations mri_strip_skull: done peeling brain Brain Size = 1805454 voxels, voxel volume = 1.000 mm3 = 1805454 mmm3 = 1805.454 cm3 ****************************** Saving brainmask.auto.mgz done \n cp brainmask.auto.mgz brainmask.mgz \n #------------------------------------- #@# EM Registration Thu Aug 10 13:27:27 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_em_register -uns 3 -mask brainmask.mgz nu.mgz /Applications/freesurfer/average/RB_all_2008-03-26.gca transforms/talairach.lta \n aligning to atlas containing skull, setting unknown_nbr_spacing = 3 using MR volume brainmask.mgz to mask input volume... reading 1 input volumes... logging results to talairach.log reading '/Applications/freesurfer/average/RB_all_2008-03-26.gca'... average std = 6.9 using min determinant for regularization = 4.7 0 singular and 1812 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. bounding unknown intensity as < 14.9 or > 790.2 total sample mean = 84.4 (994 zeros) ************************************************ spacing=8, using 2772 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 2772, passno 0, spacing 8 resetting wm mean[0]: 102 --> 107 resetting gm mean[0]: 64 --> 64 input volume #1 is the most T1-like using real data threshold=21.9 skull bounding box = (54, 43, 26) --> (198, 190, 195) using (102, 92, 111) as brain centroid... mean wm in atlas = 107, using box (84,74,90) --> (119, 110,131) to find MRI wm before smoothing, mri peak at 106 after smoothing, mri peak at 107, scaling input intensities by 1.000 scaling channel 0 by 1 initial log_p = -4.1 ************************************************ First Search limited to translation only. ************************************************ max log p = -3.999702 @ (-9.091, 9.091, 9.091) max log p = -3.844555 @ (4.545, 4.545, -13.636) max log p = -3.747746 @ (2.273, -2.273, 2.273) max log p = -3.747746 @ (0.000, 0.000, 0.000) max log p = -3.738043 @ (-0.568, -0.568, 1.705) max log p = -3.720046 @ (-0.284, 0.852, 0.284) Found translation: (-3.1, 11.6, -0.3): log p = -3.720 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.6, old_max_log_p =-3.7 (thresh=-3.7) 0.925 0.000 0.000 6.620; 0.000 1.038 0.278 -21.850; 0.000 -0.239 0.893 44.134; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.6, old_max_log_p =-3.6 (thresh=-3.6) 0.925 0.000 0.000 6.620; 0.000 1.038 0.278 -21.850; 0.000 -0.257 0.960 32.044; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.6, old_max_log_p =-3.6 (thresh=-3.6) 0.925 0.000 0.000 6.620; 0.000 1.038 0.278 -21.850; 0.000 -0.257 0.960 32.044; 0.000 0.000 0.000 1.000; reducing scale to 0.2500 **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.5, old_max_log_p =-3.6 (thresh=-3.6) 0.941 0.024 0.039 -1.997; -0.031 0.999 0.267 -14.224; -0.031 -0.257 0.960 39.911; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.5, old_max_log_p =-3.5 (thresh=-3.5) 0.941 0.024 0.039 -1.997; -0.031 0.999 0.267 -14.224; -0.031 -0.257 0.960 39.911; 0.000 0.000 0.000 1.000; reducing scale to 0.0625 **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.4, old_max_log_p =-3.5 (thresh=-3.5) 0.941 0.009 0.027 1.207; -0.016 1.003 0.260 -15.921; -0.024 -0.250 0.966 37.541; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.4, old_max_log_p =-3.4 (thresh=-3.4) 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.4, old_max_log_p =-3.4 (thresh=-3.4) 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 2772 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.94240 0.00950 0.02732 1.05959; -0.01580 1.00624 0.26044 -16.39553; -0.02403 -0.24944 0.96467 37.62001; 0.00000 0.00000 0.00000 1.00000; nsamples 2772 Quasinewton: input matrix 0.94240 0.00950 0.02732 1.05959; -0.01580 1.00624 0.26044 -16.39553; -0.02403 -0.24944 0.96467 37.62001; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; pass 1, spacing 8: log(p) = -3.4 (old=-4.1) transform before final EM align: 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; ************************************************** EM alignment process ... Computing final MAP estimate using 312841 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.94240 0.00950 0.02732 1.05959; -0.01580 1.00624 0.26044 -16.39553; -0.02403 -0.24944 0.96467 37.62001; 0.00000 0.00000 0.00000 1.00000; nsamples 312841 Quasinewton: input matrix 0.94240 0.00950 0.02732 1.05959; -0.01580 1.00624 0.26044 -16.39553; -0.02403 -0.24944 0.96467 37.62001; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 012: -log(p) = 4.0 tol 0.000000 final transform: 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; writing output transformation to transforms/talairach.lta... registration took 19 minutes and 17 seconds. #-------------------------------------- #@# CA Normalize Thu Aug 10 13:46:44 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /Applications/freesurfer/average/RB_all_2008-03-26.gca transforms/talairach.lta norm.mgz \n writing control point volume to ctrl_pts.mgz using MR volume brainmask.mgz to mask input volume... reading 1 input volume reading atlas from '/Applications/freesurfer/average/RB_all_2008-03-26.gca'... reading transform from 'transforms/talairach.lta'... reading input volume from nu.mgz... resetting wm mean[0]: 102 --> 107 resetting gm mean[0]: 64 --> 64 input volume #1 is the most T1-like using real data threshold=22.9 skull bounding box = (54, 43, 26) --> (198, 190, 195) using (102, 92, 111) as brain centroid... mean wm in atlas = 107, using box (84,74,90) --> (119, 110,131) to find MRI wm before smoothing, mri peak at 106 after smoothing, mri peak at 107, scaling input intensities by 1.000 scaling channel 0 by 1 using 244171 sample points... INFO: compute sample coordinates transform 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; INFO: transform used finding control points in Left_Cerebral_White_Matter.... found 41584 control points for structure... bounding box (128, 46, 27) --> (199, 159, 190) Left_Cerebral_White_Matter: limiting intensities to 97.0 --> 205.0 0 of 155 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 40735 control points for structure... bounding box (60, 46, 25) --> (129, 153, 191) Right_Cerebral_White_Matter: limiting intensities to 92.0 --> 205.0 0 of 135 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3012 control points for structure... bounding box (131, 132, 57) --> (181, 176, 109) Left_Cerebellum_White_Matter: limiting intensities to 104.0 --> 205.0 4 of 8 (50.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2764 control points for structure... bounding box (80, 132, 53) --> (129, 174, 109) Right_Cerebellum_White_Matter: limiting intensities to 91.0 --> 205.0 0 of 8 (0.0%) samples deleted finding control points in Brain_Stem.... found 3520 control points for structure... bounding box (111, 121, 90) --> (145, 189, 120) Brain_Stem: limiting intensities to 96.0 --> 205.0 3 of 8 (37.5%) samples deleted using 314 total control points for intensity normalization... bias field = 1.019 +- 0.056 0 of 307 control points discarded finding control points in Left_Cerebral_White_Matter.... found 41584 control points for structure... bounding box (128, 46, 27) --> (199, 159, 190) Left_Cerebral_White_Matter: limiting intensities to 96.0 --> 188.0 0 of 178 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 40735 control points for structure... bounding box (60, 46, 25) --> (129, 153, 191) Right_Cerebral_White_Matter: limiting intensities to 91.0 --> 188.0 0 of 171 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3012 control points for structure... bounding box (131, 132, 57) --> (181, 176, 109) Left_Cerebellum_White_Matter: limiting intensities to 85.0 --> 188.0 0 of 61 (0.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2764 control points for structure... bounding box (80, 132, 53) --> (129, 174, 109) Right_Cerebellum_White_Matter: limiting intensities to 79.0 --> 188.0 0 of 58 (0.0%) samples deleted finding control points in Brain_Stem.... found 3520 control points for structure... bounding box (111, 121, 90) --> (145, 189, 120) Brain_Stem: limiting intensities to 84.0 --> 188.0 0 of 43 (0.0%) samples deleted using 511 total control points for intensity normalization... bias field = 0.995 +- 0.064 0 of 511 control points discarded finding control points in Left_Cerebral_White_Matter.... found 41584 control points for structure... bounding box (128, 46, 27) --> (199, 159, 190) Left_Cerebral_White_Matter: limiting intensities to 95.0 --> 179.0 0 of 280 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 40735 control points for structure... bounding box (60, 46, 25) --> (129, 153, 191) Right_Cerebral_White_Matter: limiting intensities to 92.0 --> 179.0 0 of 261 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3012 control points for structure... bounding box (131, 132, 57) --> (181, 176, 109) Left_Cerebellum_White_Matter: limiting intensities to 82.0 --> 179.0 0 of 88 (0.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2764 control points for structure... bounding box (80, 132, 53) --> (129, 174, 109) Right_Cerebellum_White_Matter: limiting intensities to 75.0 --> 179.0 0 of 71 (0.0%) samples deleted finding control points in Brain_Stem.... found 3520 control points for structure... bounding box (111, 121, 90) --> (145, 189, 120) Brain_Stem: limiting intensities to 78.0 --> 179.0 0 of 157 (0.0%) samples deleted using 857 total control points for intensity normalization... bias field = 1.002 +- 0.054 0 of 857 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 1 minutes and 33 seconds. #-------------------------------------- #@# CA Reg Thu Aug 10 13:48:16 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_ca_register -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /Applications/freesurfer/average/RB_all_2008-03-26.gca transforms/talairach.m3z \n 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... reading 1 input volumes... logging results to talairach.log reading input volume 'norm.mgz'... reading GCA '/Applications/freesurfer/average/RB_all_2008-03-26.gca'... label assignment complete, 0 changed (0.00%) det(m_affine) = 0.98 (predicted orig area = 8.2) label assignment complete, 0 changed (0.00%) freeing gibbs priors...done. average std[0] = 5.0 **************** pass 1 of 1 ************************ setting smoothness coefficient to 0.039 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.898, neg=0, invalid=96777 0001: dt=129.472000, rms=0.795 (11.416%), neg=0, invalid=96777 0002: dt=295.936000, rms=0.755 (5.123%), neg=0, invalid=96777 0003: dt=129.472000, rms=0.746 (1.087%), neg=0, invalid=96777 0004: dt=369.920000, rms=0.741 (0.723%), neg=0, invalid=96777 0005: dt=369.920000, rms=0.731 (1.416%), neg=0, invalid=96777 0006: dt=92.480000, rms=0.729 (0.250%), neg=0, invalid=96777 0007: dt=129.472000, rms=0.727 (0.186%), neg=0, invalid=96777 0008: dt=129.472000, rms=0.726 (0.220%), neg=0, invalid=96777 0009: dt=129.472000, rms=0.723 (0.324%), neg=0, invalid=96777 0010: dt=129.472000, rms=0.721 (0.370%), neg=0, invalid=96777 0011: dt=129.472000, rms=0.718 (0.350%), neg=0, invalid=96777 0012: dt=129.472000, rms=0.716 (0.339%), neg=0, invalid=96777 0013: dt=129.472000, rms=0.714 (0.297%), neg=0, invalid=96777 0014: dt=129.472000, rms=0.711 (0.307%), neg=0, invalid=96777 0015: dt=129.472000, rms=0.709 (0.335%), neg=0, invalid=96777 0016: dt=129.472000, rms=0.707 (0.322%), neg=0, invalid=96777 0017: dt=129.472000, rms=0.705 (0.213%), neg=0, invalid=96777 0018: dt=129.472000, rms=0.705 (0.091%), neg=0, invalid=96777 0019: dt=129.472000, rms=0.704 (0.106%), neg=0, invalid=96777 0020: dt=129.472000, rms=0.702 (0.233%), neg=0, invalid=96777 0021: dt=129.472000, rms=0.700 (0.322%), neg=0, invalid=96777 0022: dt=129.472000, rms=0.698 (0.271%), neg=0, invalid=96777 0023: dt=129.472000, rms=0.697 (0.114%), neg=0, invalid=96777 0024: dt=129.472000, rms=0.697 (-0.014%), neg=0, invalid=96777 0025: dt=8.092000, rms=0.697 (0.000%), neg=0, invalid=96777 0026: dt=18.496000, rms=0.697 (0.002%), neg=0, invalid=96777 0027: dt=129.472000, rms=0.697 (0.011%), neg=0, invalid=96777 0028: dt=73.984000, rms=0.697 (0.003%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.697, neg=0, invalid=96777 0029: dt=129.472000, rms=0.693 (0.552%), neg=0, invalid=96777 0030: dt=295.936000, rms=0.692 (0.131%), neg=0, invalid=96777 0031: dt=295.936000, rms=0.692 (0.122%), neg=0, invalid=96777 0032: dt=295.936000, rms=0.691 (0.124%), neg=0, invalid=96777 0033: dt=295.936000, rms=0.690 (0.060%), neg=0, invalid=96777 0034: dt=295.936000, rms=0.689 (0.238%), neg=0, invalid=96777 0035: dt=295.936000, rms=0.688 (0.151%), neg=0, invalid=96777 0036: dt=295.936000, rms=0.687 (0.018%), neg=0, invalid=96777 0037: dt=295.936000, rms=0.687 (0.134%), neg=0, invalid=96777 0038: dt=295.936000, rms=0.685 (0.287%), neg=0, invalid=96777 0039: dt=295.936000, rms=0.684 (0.064%), neg=0, invalid=96777 0040: dt=295.936000, rms=0.684 (-0.105%), neg=0, invalid=96777 0041: dt=221.952000, rms=0.683 (0.131%), neg=0, invalid=96777 0042: dt=110.976000, rms=0.683 (0.014%), neg=0, invalid=96777 setting smoothness coefficient to 0.154 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.692, neg=0, invalid=96777 0043: dt=31.104000, rms=0.690 (0.174%), neg=0, invalid=96777 0044: dt=82.944000, rms=0.688 (0.381%), neg=0, invalid=96777 0045: dt=331.776000, rms=0.671 (2.452%), neg=0, invalid=96777 0046: dt=25.920000, rms=0.667 (0.589%), neg=0, invalid=96777 0047: dt=20.736000, rms=0.666 (0.091%), neg=0, invalid=96777 0048: dt=20.736000, rms=0.666 (0.049%), neg=0, invalid=96777 0049: dt=20.736000, rms=0.666 (0.051%), neg=0, invalid=96777 0050: dt=20.736000, rms=0.665 (0.101%), neg=0, invalid=96777 0051: dt=20.736000, rms=0.663 (0.263%), neg=0, invalid=96777 0052: dt=20.736000, rms=0.660 (0.415%), neg=0, invalid=96777 0053: dt=20.736000, rms=0.657 (0.496%), neg=0, invalid=96777 0054: dt=20.736000, rms=0.654 (0.430%), neg=0, invalid=96777 0055: dt=20.736000, rms=0.652 (0.320%), neg=0, invalid=96777 0056: dt=20.736000, rms=0.651 (0.210%), neg=0, invalid=96777 0057: dt=20.736000, rms=0.650 (0.153%), neg=0, invalid=96777 0058: dt=20.736000, rms=0.649 (0.176%), neg=0, invalid=96777 0059: dt=20.736000, rms=0.647 (0.222%), neg=0, invalid=96777 0060: dt=20.736000, rms=0.646 (0.270%), neg=0, invalid=96777 0061: dt=20.736000, rms=0.644 (0.265%), neg=0, invalid=96777 0062: dt=20.736000, rms=0.643 (0.197%), neg=0, invalid=96777 0063: dt=20.736000, rms=0.642 (0.166%), neg=0, invalid=96777 0064: dt=20.736000, rms=0.641 (0.144%), neg=0, invalid=96777 0065: dt=20.736000, rms=0.640 (0.152%), neg=0, invalid=96777 0066: dt=20.736000, rms=0.639 (0.134%), neg=0, invalid=96777 0067: dt=20.736000, rms=0.638 (0.113%), neg=0, invalid=96777 0068: dt=20.736000, rms=0.638 (0.079%), neg=0, invalid=96777 0069: dt=0.000000, rms=0.638 (0.001%), neg=0, invalid=96777 0070: dt=0.450000, rms=0.638 (-0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.638, neg=0, invalid=96777 0071: dt=62.208000, rms=0.635 (0.394%), neg=0, invalid=96777 0072: dt=9.072000, rms=0.635 (0.013%), neg=0, invalid=96777 0073: dt=9.072000, rms=0.635 (0.003%), neg=0, invalid=96777 0074: dt=9.072000, rms=0.635 (-0.009%), neg=0, invalid=96777 setting smoothness coefficient to 0.588 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.670, neg=0, invalid=96777 0075: dt=9.927711, rms=0.668 (0.294%), neg=0, invalid=96777 0076: dt=11.200000, rms=0.667 (0.212%), neg=0, invalid=96777 0077: dt=11.200000, rms=0.666 (0.193%), neg=0, invalid=96777 0078: dt=11.200000, rms=0.665 (0.126%), neg=0, invalid=96777 0079: dt=11.200000, rms=0.665 (-0.028%), neg=0, invalid=96777 0080: dt=44.800000, rms=0.662 (0.449%), neg=0, invalid=96777 0081: dt=11.200000, rms=0.661 (0.191%), neg=0, invalid=96777 0082: dt=11.200000, rms=0.660 (0.139%), neg=0, invalid=96777 0083: dt=11.200000, rms=0.659 (0.163%), neg=0, invalid=96777 0084: dt=11.200000, rms=0.657 (0.220%), neg=0, invalid=96777 0085: dt=11.200000, rms=0.655 (0.258%), neg=0, invalid=96777 0086: dt=11.200000, rms=0.653 (0.305%), neg=0, invalid=96777 0087: dt=11.200000, rms=0.652 (0.248%), neg=0, invalid=96777 0088: dt=11.200000, rms=0.651 (0.160%), neg=0, invalid=96777 0089: dt=11.200000, rms=0.650 (0.182%), neg=0, invalid=96777 0090: dt=11.200000, rms=0.648 (0.187%), neg=0, invalid=96777 0091: dt=11.200000, rms=0.647 (0.152%), neg=0, invalid=96777 0092: dt=11.200000, rms=0.647 (0.118%), neg=0, invalid=96777 0093: dt=11.200000, rms=0.646 (0.043%), neg=0, invalid=96777 0094: dt=11.200000, rms=0.646 (0.041%), neg=0, invalid=96777 0095: dt=11.200000, rms=0.646 (0.002%), neg=0, invalid=96777 0096: dt=11.200000, rms=0.646 (-0.019%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.646, neg=0, invalid=96777 0097: dt=0.000000, rms=0.646 (0.000%), neg=0, invalid=96777 setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.696, neg=0, invalid=96777 0098: dt=0.000000, rms=0.696 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.696, neg=0, invalid=96777 0099: dt=0.000000, rms=0.696 (0.000%), neg=0, invalid=96777 setting smoothness coefficient to 5.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.792, neg=0, invalid=96777 0100: dt=0.822927, rms=0.769 (2.912%), neg=0, invalid=96777 0101: dt=0.732955, rms=0.766 (0.363%), neg=0, invalid=96777 0102: dt=0.611111, rms=0.765 (0.114%), neg=0, invalid=96777 0103: dt=0.611111, rms=0.765 (0.026%), neg=0, invalid=96777 0104: dt=0.611111, rms=0.765 (-0.098%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.765, neg=0, invalid=96777 0105: dt=0.951220, rms=0.764 (0.168%), neg=0, invalid=96777 0106: dt=0.256000, rms=0.764 (0.001%), neg=0, invalid=96777 0107: dt=0.256000, rms=0.764 (0.011%), neg=0, invalid=96777 0108: dt=0.256000, rms=0.764 (-0.004%), neg=0, invalid=96777 resetting metric properties... setting smoothness coefficient to 10.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.710, neg=0, invalid=96777 0109: dt=0.448000, rms=0.695 (2.099%), neg=0, invalid=96777 0110: dt=0.000000, rms=0.695 (0.004%), neg=0, invalid=96777 0111: dt=0.050000, rms=0.695 (-0.253%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.695, neg=0, invalid=96777 0112: dt=0.001750, rms=0.695 (0.000%), neg=0, invalid=96777 0113: dt=0.000438, rms=0.695 (-0.000%), neg=0, invalid=96777 renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.11725 (24) mri peak = 0.12429 (36) Left_Lateral_Ventricle (4): linear fit = 1.43 x + 0.0 (2364 voxels, overlap=0.327) Left_Lateral_Ventricle (4): linear fit = 1.43 x + 0.0 (2364 voxels, peak = 34), gca=34.4 gca peak = 0.14022 (22) mri peak = 0.11169 (37) Right_Lateral_Ventricle (43): linear fit = 1.52 x + 0.0 (1394 voxels, overlap=0.177) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (1394 voxels, peak = 34), gca=33.0 gca peak = 0.24234 (100) mri peak = 0.06452 (87) Right_Pallidum (52): linear fit = 0.86 x + 0.0 (287 voxels, overlap=0.587) Right_Pallidum (52): linear fit = 0.86 x + 0.0 (287 voxels, peak = 86), gca=85.5 gca peak = 0.19192 (97) mri peak = 0.06885 (100) Left_Pallidum (13): linear fit = 1.02 x + 0.0 (350 voxels, overlap=1.008) Left_Pallidum (13): linear fit = 1.02 x + 0.0 (350 voxels, peak = 99), gca=99.4 gca peak = 0.24007 (63) mri peak = 0.04403 (100) Right_Hippocampus (53): linear fit = 1.53 x + 0.0 (1031 voxels, overlap=0.022) Right_Hippocampus (53): linear fit = 1.53 x + 0.0 (1031 voxels, peak = 97), gca=96.7 gca peak = 0.29892 (64) mri peak = 0.05784 (83) Left_Hippocampus (17): linear fit = 1.23 x + 0.0 (1071 voxels, overlap=0.024) Left_Hippocampus (17): linear fit = 1.23 x + 0.0 (1071 voxels, peak = 78), gca=78.4 gca peak = 0.12541 (104) mri peak = 0.08451 (105) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (104903 voxels, overlap=0.896) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (104903 voxels, peak = 105), gca=104.5 gca peak = 0.13686 (104) mri peak = 0.07999 (107) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (106996 voxels, overlap=0.824) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (106996 voxels, peak = 106), gca=105.6 gca peak = 0.11691 (63) mri peak = 0.05343 (94) Left_Cerebral_Cortex (3): linear fit = 1.38 x + 0.0 (32660 voxels, overlap=0.001) Left_Cerebral_Cortex (3): linear fit = 1.38 x + 0.0 (32660 voxels, peak = 87), gca=87.3 gca peak = 0.13270 (63) mri peak = 0.05182 (91) Right_Cerebral_Cortex (42): linear fit = 1.37 x + 0.0 (37927 voxels, overlap=0.000) Right_Cerebral_Cortex (42): linear fit = 1.37 x + 0.0 (37927 voxels, peak = 86), gca=86.0 gca peak = 0.15182 (70) mri peak = 0.07906 (93) Right_Caudate (50): linear fit = 1.26 x + 0.0 (540 voxels, overlap=0.054) Right_Caudate (50): linear fit = 1.26 x + 0.0 (540 voxels, peak = 89), gca=88.5 gca peak = 0.14251 (76) mri peak = 0.10693 (93) Left_Caudate (11): linear fit = 1.16 x + 0.0 (1096 voxels, overlap=0.051) Left_Caudate (11): linear fit = 1.16 x + 0.0 (1096 voxels, peak = 89), gca=88.5 gca peak = 0.12116 (60) mri peak = 0.04788 (80) Left_Cerebellum_Cortex (8): linear fit = 1.33 x + 0.0 (22201 voxels, overlap=0.001) Left_Cerebellum_Cortex (8): linear fit = 1.33 x + 0.0 (22201 voxels, peak = 80), gca=79.5 gca peak = 0.12723 (61) mri peak = 0.05106 (77) Right_Cerebellum_Cortex (47): linear fit = 1.26 x + 0.0 (27400 voxels, overlap=0.003) Right_Cerebellum_Cortex (47): linear fit = 1.26 x + 0.0 (27400 voxels, peak = 77), gca=77.2 gca peak = 0.22684 (88) mri peak = 0.07942 (92) Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (11685 voxels, overlap=0.904) Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (11685 voxels, peak = 92), gca=92.0 gca peak = 0.21067 (87) mri peak = 0.06297 (87) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (10317 voxels, overlap=0.987) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (10317 voxels, peak = 87), gca=86.6 gca peak = 0.25455 (62) mri peak = 0.11326 (83) Left_Amygdala (18): linear fit = 1.26 x + 0.0 (491 voxels, overlap=0.059) Left_Amygdala (18): linear fit = 1.26 x + 0.0 (491 voxels, peak = 78), gca=78.4 gca peak = 0.39668 (62) mri peak = 0.09373 (76) Right_Amygdala (54): linear fit = 1.22 x + 0.0 (375 voxels, overlap=0.073) Right_Amygdala (54): linear fit = 1.22 x + 0.0 (375 voxels, peak = 75), gca=75.3 gca peak = 0.10129 (93) mri peak = 0.08509 (101) Left_Thalamus_Proper (10): linear fit = 1.08 x + 0.0 (6816 voxels, overlap=0.612) Left_Thalamus_Proper (10): linear fit = 1.08 x + 0.0 (6816 voxels, peak = 100), gca=100.0 gca peak = 0.12071 (89) mri peak = 0.08335 (96) Right_Thalamus_Proper (49): linear fit = 1.10 x + 0.0 (5084 voxels, overlap=0.626) Right_Thalamus_Proper (49): linear fit = 1.10 x + 0.0 (5084 voxels, peak = 97), gca=97.5 gca peak = 0.13716 (82) mri peak = 0.06720 (98) Left_Putamen (12): linear fit = 1.16 x + 0.0 (3427 voxels, overlap=0.136) Left_Putamen (12): linear fit = 1.16 x + 0.0 (3427 voxels, peak = 96), gca=95.5 gca peak = 0.15214 (84) mri peak = 0.05158 (94) Right_Putamen (51): linear fit = 1.12 x + 0.0 (2716 voxels, overlap=0.224) Right_Putamen (51): linear fit = 1.12 x + 0.0 (2716 voxels, peak = 94), gca=94.5 gca peak = 0.08983 (85) mri peak = 0.07978 (93) Brain_Stem (16): linear fit = 1.09 x + 0.0 (13406 voxels, overlap=0.468) Brain_Stem (16): linear fit = 1.09 x + 0.0 (13406 voxels, peak = 92), gca=92.2 gca peak = 0.11809 (92) mri peak = 0.10366 (96) Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1071 voxels, overlap=0.611) Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1071 voxels, peak = 95), gca=95.2 gca peak = 0.12914 (94) mri peak = 0.08565 (98) Left_VentralDC (28): linear fit = 1.05 x + 0.0 (1340 voxels, overlap=0.648) Left_VentralDC (28): linear fit = 1.05 x + 0.0 (1340 voxels, peak = 99), gca=99.2 gca peak = 0.21100 (36) mri peak = 0.12599 (42) Third_Ventricle (14): linear fit = 1.12 x + 0.0 (89 voxels, overlap=0.866) Third_Ventricle (14): linear fit = 1.12 x + 0.0 (89 voxels, peak = 40), gca=40.5 gca peak = 0.13542 (27) mri peak = 0.18317 (29) Fourth_Ventricle (15): linear fit = 1.04 x + 0.0 (819 voxels, overlap=0.658) Fourth_Ventricle (15): linear fit = 1.04 x + 0.0 (819 voxels, peak = 28), gca=28.2 gca peak Unknown = 0.94427 ( 0) gca peak Left_Inf_Lat_Vent = 0.21802 (40) gca peak CSF = 0.17123 (45) gca peak Left_Accumbens_area = 0.25875 (69) gca peak Left_undetermined = 0.96240 (36) gca peak Left_vessel = 0.33262 (65) gca peak Left_choroid_plexus = 0.09846 (46) gca peak Right_Inf_Lat_Vent = 0.28113 (34) gca peak Right_Hippocampus = 0.24007 (63) gca peak Right_Accumbens_area = 0.27120 (72) gca peak Right_vessel = 0.61915 (60) gca peak Right_choroid_plexus = 0.12775 (51) gca peak Fifth_Ventricle = 0.45329 (44) gca peak WM_hypointensities = 0.11729 (81) gca peak non_WM_hypointensities = 0.10912 (56) gca peak Optic_Chiasm = 0.33287 (75) label assignment complete, 0 changed (0.00%) not using caudate to estimate GM means setting label Right_Hippocampus based on Left_Hippocampus = 1.23 x + 0: 78 estimating mean gm scale to be 1.28 x + 0.0 estimating mean wm scale to be 1.01 x + 0.0 estimating mean csf scale to be 1.28 x + 0.0 Left_Putamen too bright - rescaling by 0.990 (from 1.165) to 94.5 (was 95.5) Right_Putamen too bright - rescaling by 1.000 (from 1.125) to 94.5 (was 94.5) saving intensity scales to talairach.label_intensities.txt **************** pass 1 of 1 ************************ setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.716, neg=0, invalid=96777 0114: dt=110.976000, rms=0.656 (8.430%), neg=0, invalid=96777 0115: dt=295.936000, rms=0.645 (1.656%), neg=0, invalid=96777 0116: dt=110.976000, rms=0.643 (0.361%), neg=0, invalid=96777 0117: dt=110.976000, rms=0.642 (0.078%), neg=0, invalid=96777 0118: dt=369.920000, rms=0.640 (0.418%), neg=0, invalid=96777 0119: dt=73.984000, rms=0.639 (0.130%), neg=0, invalid=96777 0120: dt=1479.680000, rms=0.635 (0.604%), neg=0, invalid=96777 0121: dt=129.472000, rms=0.633 (0.337%), neg=0, invalid=96777 0122: dt=369.920000, rms=0.632 (0.170%), neg=0, invalid=96777 0123: dt=129.472000, rms=0.631 (0.048%), neg=0, invalid=96777 0124: dt=129.472000, rms=0.631 (0.060%), neg=0, invalid=96777 0125: dt=129.472000, rms=0.631 (0.081%), neg=0, invalid=96777 0126: dt=129.472000, rms=0.630 (0.106%), neg=0, invalid=96777 0127: dt=129.472000, rms=0.629 (0.121%), neg=0, invalid=96777 0128: dt=129.472000, rms=0.628 (0.114%), neg=0, invalid=96777 0129: dt=129.472000, rms=0.627 (0.156%), neg=0, invalid=96777 0130: dt=129.472000, rms=0.627 (0.140%), neg=0, invalid=96777 0131: dt=129.472000, rms=0.626 (0.124%), neg=0, invalid=96777 0132: dt=129.472000, rms=0.625 (0.141%), neg=0, invalid=96777 0133: dt=129.472000, rms=0.624 (0.160%), neg=0, invalid=96777 0134: dt=129.472000, rms=0.622 (0.222%), neg=0, invalid=96777 0135: dt=129.472000, rms=0.621 (0.193%), neg=0, invalid=96777 0136: dt=129.472000, rms=0.621 (0.098%), neg=0, invalid=96777 0137: dt=129.472000, rms=0.620 (0.032%), neg=0, invalid=96777 0138: dt=129.472000, rms=0.620 (0.117%), neg=0, invalid=96777 0139: dt=129.472000, rms=0.619 (0.163%), neg=0, invalid=96777 0140: dt=129.472000, rms=0.618 (0.133%), neg=0, invalid=96777 0141: dt=129.472000, rms=0.617 (0.071%), neg=0, invalid=96777 0142: dt=129.472000, rms=0.617 (0.108%), neg=0, invalid=96777 0143: dt=129.472000, rms=0.616 (0.097%), neg=0, invalid=96777 0144: dt=129.472000, rms=0.616 (0.053%), neg=0, invalid=96777 0145: dt=129.472000, rms=0.616 (0.039%), neg=0, invalid=96777 0146: dt=129.472000, rms=0.615 (0.074%), neg=0, invalid=96777 0147: dt=129.472000, rms=0.614 (0.138%), neg=0, invalid=96777 0148: dt=129.472000, rms=0.613 (0.168%), neg=0, invalid=96777 0149: dt=129.472000, rms=0.613 (0.050%), neg=0, invalid=96777 0150: dt=129.472000, rms=0.613 (0.019%), neg=0, invalid=96777 0151: dt=129.472000, rms=0.613 (-0.008%), neg=0, invalid=96777 0152: dt=92.480000, rms=0.613 (0.032%), neg=0, invalid=96777 0153: dt=443.904000, rms=0.612 (0.060%), neg=0, invalid=96777 0154: dt=27.744000, rms=0.612 (-0.004%), neg=0, invalid=96777 0155: dt=27.744000, rms=0.612 (0.002%), neg=0, invalid=96777 0156: dt=27.744000, rms=0.612 (-0.004%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.612, neg=0, invalid=96777 0157: dt=129.472000, rms=0.612 (0.116%), neg=0, invalid=96777 0158: dt=517.888000, rms=0.610 (0.311%), neg=0, invalid=96777 0159: dt=110.976000, rms=0.609 (0.059%), neg=0, invalid=96777 0160: dt=295.936000, rms=0.609 (0.036%), neg=0, invalid=96777 0161: dt=295.936000, rms=0.609 (0.065%), neg=0, invalid=96777 0162: dt=295.936000, rms=0.609 (0.040%), neg=0, invalid=96777 0163: dt=295.936000, rms=0.608 (0.070%), neg=0, invalid=96777 0164: dt=295.936000, rms=0.607 (0.142%), neg=0, invalid=96777 0165: dt=147.968000, rms=0.607 (0.032%), neg=0, invalid=96777 0166: dt=73.984000, rms=0.607 (0.009%), neg=0, invalid=96777 0167: dt=73.984000, rms=0.607 (0.015%), neg=0, invalid=96777 0168: dt=36.992000, rms=0.607 (0.004%), neg=0, invalid=96777 0169: dt=8.092000, rms=0.607 (0.001%), neg=0, invalid=96777 0170: dt=2.023000, rms=0.607 (0.001%), neg=0, invalid=96777 0171: dt=0.252875, rms=0.607 (0.000%), neg=0, invalid=96777 0172: dt=0.031609, rms=0.607 (0.000%), neg=0, invalid=96777 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.608, neg=0, invalid=96777 0173: dt=0.000000, rms=0.608 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.608, neg=0, invalid=96777 0174: dt=0.000000, rms=0.608 (0.000%), neg=0, invalid=96777 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.612, neg=0, invalid=96777 0175: dt=0.000000, rms=0.612 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.612, neg=0, invalid=96777 0176: dt=0.000000, rms=0.612 (0.000%), neg=0, invalid=96777 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.624, neg=0, invalid=96777 0177: dt=11.520000, rms=0.579 (7.188%), neg=0, invalid=96777 0178: dt=16.128000, rms=0.561 (3.037%), neg=0, invalid=96777 0179: dt=4.032000, rms=0.560 (0.286%), neg=0, invalid=96777 0180: dt=11.520000, rms=0.556 (0.652%), neg=0, invalid=96777 0181: dt=4.032000, rms=0.555 (0.174%), neg=0, invalid=96777 0182: dt=4.032000, rms=0.554 (0.141%), neg=0, invalid=96777 0183: dt=16.128000, rms=0.551 (0.552%), neg=0, invalid=96777 0184: dt=4.032000, rms=0.551 (0.079%), neg=0, invalid=96777 0185: dt=16.128000, rms=0.549 (0.338%), neg=0, invalid=96777 0186: dt=4.032000, rms=0.549 (0.073%), neg=0, invalid=96777 0187: dt=11.520000, rms=0.548 (0.163%), neg=0, invalid=96777 0188: dt=4.032000, rms=0.547 (0.061%), neg=0, invalid=96777 0189: dt=16.128000, rms=0.546 (0.176%), neg=0, invalid=96777 0190: dt=11.520000, rms=0.546 (0.064%), neg=0, invalid=96777 0191: dt=4.032000, rms=0.546 (0.069%), neg=0, invalid=96777 0192: dt=4.032000, rms=0.545 (0.033%), neg=0, invalid=96777 0193: dt=4.032000, rms=0.545 (0.052%), neg=0, invalid=96777 0194: dt=4.032000, rms=0.545 (0.066%), neg=0, invalid=96777 0195: dt=4.032000, rms=0.544 (0.079%), neg=0, invalid=96777 0196: dt=4.032000, rms=0.544 (0.091%), neg=0, invalid=96777 0197: dt=4.032000, rms=0.543 (0.081%), neg=0, invalid=96777 0198: dt=4.032000, rms=0.543 (0.026%), neg=0, invalid=96777 0199: dt=4.032000, rms=0.543 (0.035%), neg=0, invalid=96777 0200: dt=4.032000, rms=0.543 (0.040%), neg=0, invalid=96777 0201: dt=4.032000, rms=0.543 (0.040%), neg=0, invalid=96777 0202: dt=4.032000, rms=0.542 (0.057%), neg=0, invalid=96777 0203: dt=4.032000, rms=0.542 (0.082%), neg=0, invalid=96777 0204: dt=4.032000, rms=0.542 (0.084%), neg=0, invalid=96777 0205: dt=2.016000, rms=0.542 (-0.008%), neg=0, invalid=96777 0206: dt=0.000000, rms=0.542 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.542, neg=0, invalid=96777 0207: dt=2.880000, rms=0.541 (0.116%), neg=0, invalid=96777 0208: dt=11.520000, rms=0.540 (0.223%), neg=0, invalid=96777 0209: dt=9.216000, rms=0.540 (0.031%), neg=0, invalid=96777 0210: dt=9.216000, rms=0.539 (0.052%), neg=0, invalid=96777 0211: dt=4.608000, rms=0.539 (0.007%), neg=0, invalid=96777 0212: dt=4.608000, rms=0.539 (0.065%), neg=0, invalid=96777 0213: dt=4.608000, rms=0.539 (0.048%), neg=0, invalid=96777 0214: dt=4.608000, rms=0.538 (0.024%), neg=0, invalid=96777 0215: dt=4.608000, rms=0.538 (0.070%), neg=0, invalid=96777 0216: dt=4.608000, rms=0.538 (0.068%), neg=0, invalid=96777 0217: dt=4.608000, rms=0.537 (0.110%), neg=0, invalid=96777 0218: dt=4.608000, rms=0.537 (0.105%), neg=0, invalid=96777 0219: dt=4.608000, rms=0.536 (0.091%), neg=0, invalid=96777 0220: dt=4.608000, rms=0.536 (0.096%), neg=0, invalid=96777 0221: dt=4.608000, rms=0.535 (0.014%), neg=0, invalid=96777 0222: dt=4.608000, rms=0.535 (0.046%), neg=0, invalid=96777 0223: dt=4.608000, rms=0.535 (0.054%), neg=0, invalid=96777 0224: dt=4.608000, rms=0.535 (0.054%), neg=0, invalid=96777 0225: dt=4.608000, rms=0.534 (0.049%), neg=0, invalid=96777 0226: dt=2.304000, rms=0.534 (-0.001%), neg=0, invalid=96777 0227: dt=1.008000, rms=0.534 (0.008%), neg=0, invalid=96777 0228: dt=1.008000, rms=0.534 (0.010%), neg=0, invalid=96777 0229: dt=0.864000, rms=0.534 (0.003%), neg=0, invalid=96777 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.548, neg=0, invalid=96777 0230: dt=0.000000, rms=0.548 (0.003%), neg=0, invalid=96777 0231: dt=0.000000, rms=0.548 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.548, neg=0, invalid=96777 0232: dt=0.000000, rms=0.548 (0.000%), neg=0, invalid=96777 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.525, neg=0, invalid=96777 0233: dt=0.153689, rms=0.520 (1.036%), neg=0, invalid=96777 0234: dt=0.131250, rms=0.517 (0.608%), neg=0, invalid=96777 0235: dt=0.028000, rms=0.516 (0.096%), neg=0, invalid=96777 0236: dt=0.007000, rms=0.516 (0.024%), neg=0, invalid=96777 0237: dt=0.007000, rms=0.516 (0.024%), neg=0, invalid=96777 0238: dt=0.007000, rms=0.516 (0.043%), neg=0, invalid=96777 0239: dt=0.007000, rms=0.515 (0.058%), neg=0, invalid=96777 0240: dt=0.007000, rms=0.515 (0.075%), neg=0, invalid=96777 0241: dt=0.007000, rms=0.515 (0.089%), neg=0, invalid=96777 0242: dt=0.007000, rms=0.514 (0.098%), neg=0, invalid=96777 0243: dt=0.007000, rms=0.513 (0.104%), neg=0, invalid=96777 0244: dt=0.007000, rms=0.513 (0.113%), neg=0, invalid=96777 0245: dt=0.007000, rms=0.512 (0.115%), neg=0, invalid=96777 0246: dt=0.007000, rms=0.512 (0.112%), neg=0, invalid=96777 0247: dt=0.007000, rms=0.511 (0.119%), neg=0, invalid=96777 0248: dt=0.007000, rms=0.511 (0.116%), neg=0, invalid=96777 0249: dt=0.003500, rms=0.511 (0.001%), neg=0, invalid=96777 0250: dt=0.003500, rms=0.510 (0.009%), neg=0, invalid=96777 0251: dt=0.003500, rms=0.510 (0.014%), neg=0, invalid=96777 0252: dt=0.003500, rms=0.510 (0.015%), neg=0, invalid=96777 0253: dt=0.003500, rms=0.510 (0.016%), neg=0, invalid=96777 0254: dt=0.003500, rms=0.510 (0.020%), neg=0, invalid=96777 0255: dt=0.003500, rms=0.510 (0.022%), neg=0, invalid=96777 0256: dt=0.003500, rms=0.510 (0.026%), neg=0, invalid=96777 0257: dt=0.003500, rms=0.510 (0.025%), neg=0, invalid=96777 0258: dt=0.003500, rms=0.510 (0.028%), neg=0, invalid=96777 0259: dt=0.003500, rms=0.509 (0.027%), neg=0, invalid=96777 0260: dt=0.003500, rms=0.509 (0.027%), neg=0, invalid=96777 0261: dt=0.003500, rms=0.509 (0.029%), neg=0, invalid=96777 0262: dt=0.003500, rms=0.509 (0.031%), neg=0, invalid=96777 0263: dt=0.003500, rms=0.509 (0.030%), neg=0, invalid=96777 0264: dt=0.003500, rms=0.509 (0.030%), neg=0, invalid=96777 0265: dt=0.003500, rms=0.509 (0.028%), neg=0, invalid=96777 0266: dt=0.003500, rms=0.508 (0.031%), neg=0, invalid=96777 0267: dt=0.003500, rms=0.508 (0.027%), neg=0, invalid=96777 0268: dt=0.003500, rms=0.508 (0.029%), neg=0, invalid=96777 0269: dt=0.003500, rms=0.508 (0.029%), neg=0, invalid=96777 0270: dt=0.003500, rms=0.508 (0.027%), neg=0, invalid=96777 0271: dt=0.003500, rms=0.508 (0.025%), neg=0, invalid=96777 0272: dt=0.003500, rms=0.508 (0.026%), neg=0, invalid=96777 0273: dt=0.003500, rms=0.507 (0.026%), neg=0, invalid=96777 0274: dt=0.003500, rms=0.507 (0.025%), neg=0, invalid=96777 0275: dt=0.003500, rms=0.507 (0.023%), neg=0, invalid=96777 0276: dt=0.112000, rms=0.507 (0.046%), neg=0, invalid=96777 0277: dt=0.112000, rms=0.507 (0.042%), neg=0, invalid=96777 0278: dt=0.112000, rms=0.507 (0.044%), neg=0, invalid=96777 0279: dt=0.112000, rms=0.506 (0.037%), neg=0, invalid=96777 0280: dt=0.028000, rms=0.506 (0.008%), neg=0, invalid=96777 0281: dt=0.028000, rms=0.506 (0.007%), neg=0, invalid=96777 0282: dt=0.112000, rms=0.506 (0.035%), neg=0, invalid=96777 0283: dt=0.112000, rms=0.506 (0.029%), neg=0, invalid=96777 0284: dt=0.028000, rms=0.506 (0.008%), neg=0, invalid=96777 0285: dt=0.014000, rms=0.506 (0.003%), neg=0, invalid=96777 0286: dt=0.014000, rms=0.506 (0.003%), neg=0, invalid=96777 0287: dt=0.014000, rms=0.506 (0.007%), neg=0, invalid=96777 0288: dt=0.014000, rms=0.506 (0.008%), neg=0, invalid=96777 0289: dt=0.014000, rms=0.506 (0.012%), neg=0, invalid=96777 0290: dt=0.014000, rms=0.506 (0.016%), neg=0, invalid=96777 0291: dt=0.014000, rms=0.506 (0.015%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.506, neg=0, invalid=96777 0292: dt=0.112000, rms=0.503 (0.453%), neg=0, invalid=96777 0293: dt=0.007000, rms=0.503 (0.022%), neg=0, invalid=96777 0294: dt=0.007000, rms=0.503 (0.020%), neg=0, invalid=96777 0295: dt=0.007000, rms=0.503 (0.041%), neg=0, invalid=96777 0296: dt=0.007000, rms=0.503 (0.056%), neg=0, invalid=96777 0297: dt=0.007000, rms=0.502 (0.071%), neg=0, invalid=96777 0298: dt=0.007000, rms=0.502 (0.081%), neg=0, invalid=96777 0299: dt=0.007000, rms=0.501 (0.093%), neg=0, invalid=96777 0300: dt=0.007000, rms=0.501 (0.099%), neg=0, invalid=96777 0301: dt=0.007000, rms=0.500 (0.104%), neg=0, invalid=96777 0302: dt=0.007000, rms=0.500 (0.103%), neg=0, invalid=96777 0303: dt=0.007000, rms=0.499 (0.102%), neg=0, invalid=96777 0304: dt=0.007000, rms=0.499 (0.108%), neg=0, invalid=96777 0305: dt=0.007000, rms=0.498 (0.104%), neg=0, invalid=96777 0306: dt=0.007000, rms=0.498 (0.096%), neg=0, invalid=96777 0307: dt=0.007000, rms=0.497 (0.092%), neg=0, invalid=96777 0308: dt=0.007000, rms=0.497 (0.088%), neg=0, invalid=96777 0309: dt=0.007000, rms=0.497 (0.078%), neg=0, invalid=96777 0310: dt=0.007000, rms=0.496 (0.075%), neg=0, invalid=96777 0311: dt=0.007000, rms=0.496 (0.068%), neg=0, invalid=96777 0312: dt=0.007000, rms=0.496 (0.060%), neg=0, invalid=96777 0313: dt=0.007000, rms=0.495 (0.054%), neg=0, invalid=96777 0314: dt=0.007000, rms=0.495 (0.043%), neg=0, invalid=96777 0315: dt=0.007000, rms=0.495 (0.038%), neg=0, invalid=96777 0316: dt=0.007000, rms=0.495 (0.028%), neg=0, invalid=96777 0317: dt=0.007000, rms=0.495 (0.027%), neg=0, invalid=96777 0318: dt=0.007000, rms=0.495 (0.018%), neg=0, invalid=96777 0319: dt=0.007000, rms=0.494 (0.013%), neg=0, invalid=96777 0320: dt=0.000000, rms=0.494 (0.001%), neg=0, invalid=96777 0321: dt=0.050000, rms=0.494 (-0.026%), neg=0, invalid=96777 label assignment complete, 0 changed (0.00%) ********************************************************************************************* ********************************************************************************************* ********************************************************************************************* ********************* ALLOWING NEGATIVE NODES IN DEFORMATION ******************************** ********************************************************************************************* ********************************************************************************************* ********************************************************************************************* **************** pass 1 of 1 ************************ setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.492, neg=0, invalid=96777 0322: dt=0.000000, rms=0.492 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.492, neg=0, invalid=96777 0323: dt=32.368000, rms=0.492 (0.008%), neg=0, invalid=96777 0324: dt=27.744000, rms=0.492 (0.001%), neg=0, invalid=96777 0325: dt=27.744000, rms=0.492 (0.006%), neg=0, invalid=96777 0326: dt=27.744000, rms=0.492 (0.003%), neg=0, invalid=96777 0327: dt=27.744000, rms=0.492 (-0.003%), neg=0, invalid=96777 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.492, neg=0, invalid=96777 0328: dt=6.480000, rms=0.492 (0.010%), neg=0, invalid=96777 0329: dt=3.888000, rms=0.492 (0.008%), neg=0, invalid=96777 0330: dt=3.888000, rms=0.492 (-0.003%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.492, neg=0, invalid=96777 0331: dt=103.680000, rms=0.490 (0.394%), neg=0, invalid=96777 0332: dt=25.920000, rms=0.490 (0.130%), neg=0, invalid=96777 0333: dt=25.920000, rms=0.489 (0.047%), neg=0, invalid=96777 0334: dt=25.920000, rms=0.489 (0.071%), neg=0, invalid=96777 0335: dt=25.920000, rms=0.489 (0.084%), neg=0, invalid=96777 0336: dt=25.920000, rms=0.488 (0.114%), neg=0, invalid=96777 0337: dt=25.920000, rms=0.488 (0.099%), neg=0, invalid=96777 0338: dt=25.920000, rms=0.487 (0.096%), neg=0, invalid=96777 0339: dt=36.288000, rms=0.487 (0.034%), neg=0, invalid=96777 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.487, neg=0, invalid=96777 0340: dt=8.000000, rms=0.487 (0.068%), neg=0, invalid=96777 0341: dt=4.800000, rms=0.487 (0.021%), neg=0, invalid=96777 0342: dt=4.800000, rms=0.487 (0.002%), neg=0, invalid=96777 0343: dt=4.800000, rms=0.487 (-0.045%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.487, neg=0, invalid=96777 0344: dt=38.400000, rms=0.483 (0.844%), neg=0, invalid=96777 0345: dt=11.200000, rms=0.481 (0.328%), neg=0, invalid=96777 0346: dt=32.000000, rms=0.480 (0.212%), neg=0, invalid=96777 iter 0, gcam->neg = 4 after 6 iterations, nbhd size=1, neg = 0 0347: dt=32.000000, rms=0.479 (0.199%), neg=0, invalid=96777 0348: dt=32.000000, rms=0.477 (0.394%), neg=0, invalid=96777 iter 0, gcam->neg = 5 after 8 iterations, nbhd size=1, neg = 0 0349: dt=32.000000, rms=0.477 (0.123%), neg=0, invalid=96777 iter 0, gcam->neg = 2 after 17 iterations, nbhd size=2, neg = 0 0350: dt=32.000000, rms=0.474 (0.498%), neg=0, invalid=96777 iter 0, gcam->neg = 6 after 13 iterations, nbhd size=2, neg = 0 0351: dt=32.000000, rms=0.472 (0.472%), neg=0, invalid=96777 iter 0, gcam->neg = 2 after 13 iterations, nbhd size=2, neg = 0 0352: dt=32.000000, rms=0.471 (0.183%), neg=0, invalid=96777 0353: dt=32.000000, rms=0.469 (0.383%), neg=0, invalid=96777 iter 0, gcam->neg = 2 after 7 iterations, nbhd size=1, neg = 0 0354: dt=32.000000, rms=0.468 (0.196%), neg=0, invalid=96777 iter 0, gcam->neg = 26 after 17 iterations, nbhd size=2, neg = 0 0355: dt=32.000000, rms=0.468 (0.035%), neg=0, invalid=96777 0356: dt=32.000000, rms=0.468 (0.034%), neg=0, invalid=96777 0357: dt=11.200000, rms=0.466 (0.357%), neg=0, invalid=96777 0358: dt=9.600000, rms=0.466 (0.093%), neg=0, invalid=96777 0359: dt=9.600000, rms=0.466 (0.041%), neg=0, invalid=96777 0360: dt=9.600000, rms=0.466 (0.044%), neg=0, invalid=96777 0361: dt=9.600000, rms=0.466 (0.031%), neg=0, invalid=96777 0362: dt=9.600000, rms=0.465 (0.013%), neg=0, invalid=96777 0363: dt=9.600000, rms=0.465 (0.002%), neg=0, invalid=96777 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.470, neg=0, invalid=96777 0364: dt=0.432000, rms=0.470 (0.002%), neg=0, invalid=96777 0365: dt=0.252000, rms=0.470 (0.003%), neg=0, invalid=96777 0366: dt=0.000176, rms=0.470 (-0.002%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.470, neg=0, invalid=96777 0367: dt=4.181818, rms=0.470 (0.096%), neg=0, invalid=96777 0368: dt=4.333333, rms=0.470 (0.061%), neg=0, invalid=96777 0369: dt=4.333333, rms=0.469 (0.016%), neg=0, invalid=96777 0370: dt=4.333333, rms=0.469 (-0.010%), neg=0, invalid=96777 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.476, neg=0, invalid=96777 0371: dt=0.000000, rms=0.476 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.476, neg=0, invalid=96777 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0372: dt=1.792000, rms=0.475 (0.197%), neg=0, invalid=96777 0373: dt=1.280000, rms=0.475 (0.043%), neg=0, invalid=96777 0374: dt=1.280000, rms=0.475 (0.038%), neg=0, invalid=96777 iter 0, gcam->neg = 7 after 6 iterations, nbhd size=1, neg = 0 0375: dt=1.280000, rms=0.475 (-0.010%), neg=0, invalid=96777 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.468, neg=0, invalid=96777 iter 0, gcam->neg = 472 after 18 iterations, nbhd size=2, neg = 0 0376: dt=1.788351, rms=0.436 (6.931%), neg=0, invalid=96777 0377: dt=0.000250, rms=0.436 (-0.001%), neg=0, invalid=96777 0378: dt=0.000250, rms=0.436 (0.000%), neg=0, invalid=96777 0379: dt=0.000250, rms=0.436 (-0.001%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.436, neg=0, invalid=96777 0380: dt=0.007000, rms=0.436 (0.006%), neg=0, invalid=96777 iter 0, gcam->neg = 1 after 5 iterations, nbhd size=1, neg = 0 0381: dt=0.016000, rms=0.436 (0.004%), neg=0, invalid=96777 0382: dt=0.016000, rms=0.436 (0.002%), neg=0, invalid=96777 0383: dt=0.016000, rms=0.436 (-0.020%), neg=0, invalid=96777 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 ************************ setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.423, neg=0, invalid=96777 0384: dt=0.000000, rms=0.424 (-0.099%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.424, neg=0, invalid=96777 0385: dt=32.368000, rms=0.424 (0.005%), neg=0, invalid=96777 0386: dt=0.031609, rms=0.424 (0.000%), neg=0, invalid=96777 0387: dt=0.031609, rms=0.424 (-0.000%), neg=0, invalid=96777 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.424, neg=0, invalid=96777 0388: dt=0.000000, rms=0.424 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.424, neg=0, invalid=96777 0389: dt=36.288000, rms=0.424 (0.023%), neg=0, invalid=96777 0390: dt=62.208000, rms=0.424 (0.016%), neg=0, invalid=96777 0391: dt=62.208000, rms=0.423 (0.017%), neg=0, invalid=96777 0392: dt=62.208000, rms=0.423 (0.013%), neg=0, invalid=96777 0393: dt=62.208000, rms=0.423 (-0.006%), neg=0, invalid=96777 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.424, neg=0, invalid=96777 0394: dt=2.000000, rms=0.424 (0.007%), neg=0, invalid=96777 0395: dt=0.175000, rms=0.424 (0.000%), neg=0, invalid=96777 0396: dt=0.175000, rms=0.424 (-0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.424, neg=0, invalid=96777 iter 0, gcam->neg = 2 after 8 iterations, nbhd size=1, neg = 0 0397: dt=44.800000, rms=0.422 (0.393%), neg=0, invalid=96777 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0398: dt=25.600000, rms=0.422 (0.104%), neg=0, invalid=96777 iter 0, gcam->neg = 2 after 7 iterations, nbhd size=1, neg = 0 0399: dt=25.600000, rms=0.421 (0.124%), neg=0, invalid=96777 iter 0, gcam->neg = 5 after 16 iterations, nbhd size=2, neg = 0 0400: dt=25.600000, rms=0.421 (0.080%), neg=0, invalid=96777 iter 0, gcam->neg = 5 after 13 iterations, nbhd size=2, neg = 0 0401: dt=25.600000, rms=0.420 (0.171%), neg=0, invalid=96777 iter 0, gcam->neg = 12 after 10 iterations, nbhd size=1, neg = 0 0402: dt=25.600000, rms=0.420 (0.042%), neg=0, invalid=96777 iter 0, gcam->neg = 5 after 1 iterations, nbhd size=0, neg = 0 0403: dt=25.600000, rms=0.420 (0.051%), neg=0, invalid=96777 iter 0, gcam->neg = 12 after 11 iterations, nbhd size=1, neg = 0 0404: dt=25.600000, rms=0.420 (-0.028%), neg=0, invalid=96777 iter 0, gcam->neg = 3 after 9 iterations, nbhd size=1, neg = 0 0405: dt=19.200000, rms=0.419 (0.121%), neg=0, invalid=96777 iter 0, gcam->neg = 4 after 1 iterations, nbhd size=0, neg = 0 0406: dt=19.200000, rms=0.419 (0.074%), neg=0, invalid=96777 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.422, neg=0, invalid=96777 iter 0, gcam->neg = 2 after 2 iterations, nbhd size=0, neg = 0 0407: dt=1.125000, rms=0.422 (0.019%), neg=0, invalid=96777 0408: dt=1.008000, rms=0.422 (0.012%), neg=0, invalid=96777 0409: dt=1.008000, rms=0.422 (-0.002%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.422, neg=0, invalid=96777 iter 0, gcam->neg = 15 after 18 iterations, nbhd size=2, neg = 0 0410: dt=12.478632, rms=0.420 (0.523%), neg=0, invalid=96777 iter 0, gcam->neg = 9 after 7 iterations, nbhd size=1, neg = 0 0411: dt=9.216000, rms=0.419 (0.112%), neg=0, invalid=96777 iter 0, gcam->neg = 8 after 1 iterations, nbhd size=0, neg = 0 0412: dt=9.216000, rms=0.419 (0.106%), neg=0, invalid=96777 iter 0, gcam->neg = 88 after 33 iterations, nbhd size=3, neg = 0 0413: dt=9.216000, rms=0.419 (0.011%), neg=0, invalid=96777 iter 0, gcam->neg = 87 after 20 iterations, nbhd size=2, neg = 0 0414: dt=9.216000, rms=0.419 (-0.034%), neg=0, invalid=96777 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.424, neg=0, invalid=96777 0415: dt=0.000000, rms=0.424 (0.000%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.424, neg=0, invalid=96777 0416: dt=0.000000, rms=0.424 (0.000%), neg=0, invalid=96777 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.415, neg=0, invalid=96777 iter 0, gcam->neg = 446 after 35 iterations, nbhd size=3, neg = 0 0417: dt=0.993767, rms=0.403 (2.907%), neg=0, invalid=96777 0418: dt=0.000000, rms=0.403 (0.000%), neg=0, invalid=96777 iter 0, gcam->neg = 40 after 7 iterations, nbhd size=1, neg = 0 0419: dt=0.050000, rms=0.403 (-0.167%), neg=0, invalid=96777 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.403, neg=0, invalid=96777 0420: dt=0.007000, rms=0.403 (0.008%), neg=0, invalid=96777 iter 0, gcam->neg = 9 after 1 iterations, nbhd size=0, neg = 0 0421: dt=0.024000, rms=0.403 (0.027%), neg=0, invalid=96777 iter 0, gcam->neg = 11 after 7 iterations, nbhd size=1, neg = 0 0422: dt=0.112000, rms=0.403 (0.121%), neg=0, invalid=96777 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0423: dt=0.007000, rms=0.402 (0.005%), neg=0, invalid=96777 0424: dt=0.007000, rms=0.402 (0.005%), neg=0, invalid=96777 0425: dt=0.007000, rms=0.402 (0.010%), neg=0, invalid=96777 0426: dt=0.007000, rms=0.402 (0.013%), neg=0, invalid=96777 0427: dt=0.007000, rms=0.402 (0.015%), neg=0, invalid=96777 iter 0, gcam->neg = 3 after 13 iterations, nbhd size=2, neg = 0 0428: dt=0.007000, rms=0.402 (0.014%), neg=0, invalid=96777 iter 0, gcam->neg = 2 after 20 iterations, nbhd size=3, neg = 0 0429: dt=0.007000, rms=0.402 (0.014%), neg=0, invalid=96777 writing output transformation to transforms/talairach.m3z... GCAMwrite registration took 1 hours, 47 minutes and 34 seconds. #-------------------------------------- #@# CA Reg Inv Thu Aug 10 15:35:51 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_ca_register -invert-and-save transforms/talairach.m3z \n Loading, Inverting, Saving, Exiting ... Reading transforms/talairach.m3z Inverting GCAM Saving inverse #-------------------------------------- #@# Remove Neck Thu Aug 10 15:36:37 BRT 2017 \n mri_remove_neck -radius 25 nu.mgz transforms/talairach.m3z /Applications/freesurfer/average/RB_all_2008-03-26.gca nu_noneck.mgz \n erasing everything more than 25 mm from possible brain reading atlas '/Applications/freesurfer/average/RB_all_2008-03-26.gca'... reading input volume 'nu.mgz'... reading transform 'transforms/talairach.m3z'... removing structures at least 25 mm from brain... 10657534 nonbrain voxels erased writing output to nu_noneck.mgz... nonbrain removal took 0 minutes and 55 seconds. #-------------------------------------- #@# SkullLTA Thu Aug 10 15:37:32 BRT 2017 \n mri_em_register -skull -t transforms/talairach.lta nu_noneck.mgz /Applications/freesurfer/average/RB_all_withskull_2008-03-26.gca transforms/talairach_with_skull_2.lta \n aligning to atlas containing skull, setting unknown_nbr_spacing = 5 using previously computed transform transforms/talairach.lta reading 1 input volumes... logging results to talairach_with_skull_2.log reading '/Applications/freesurfer/average/RB_all_withskull_2008-03-26.gca'... average std = 23.1 using min determinant for regularization = 53.4 0 singular and 5702 ill-conditioned covariance matrices regularized reading 'nu_noneck.mgz'... freeing gibbs priors...done. bounding unknown intensity as < 20.2 or > 943.7 total sample mean = 92.0 (1443 zeros) ************************************************ spacing=8, using 3481 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 3481, passno 0, spacing 8 resetting wm mean[0]: 117 --> 126 resetting gm mean[0]: 74 --> 74 input volume #1 is the most T1-like using real data threshold=6.0 skull bounding box = (39, 34, 13) --> (215, 220, 221) using (98, 96, 117) as brain centroid... mean wm in atlas = 126, using box (76,73,91) --> (119, 118,142) to find MRI wm before smoothing, mri peak at 108 after smoothing, mri peak at 107, scaling input intensities by 1.178 scaling channel 0 by 1.17757 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.3, old_max_log_p =-4.2 (thresh=-4.2) 1.013 0.010 0.029 -8.293; -0.023 1.193 0.475 -50.967; -0.025 -0.435 1.061 48.671; 0.000 0.000 0.000 1.000; reducing scale to 0.2500 **************************************** Nine parameter search. iteration 1 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.2, old_max_log_p =-4.3 (thresh=-4.3) 0.957 0.015 0.029 -1.556; -0.026 1.243 0.409 -53.037; -0.025 -0.339 1.028 41.936; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 2 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.956 0.032 -0.040 3.644; -0.026 1.270 0.306 -47.523; 0.035 -0.211 1.043 16.808; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.956 0.032 -0.040 3.644; -0.026 1.270 0.306 -47.523; 0.035 -0.211 1.043 16.808; 0.000 0.000 0.000 1.000; reducing scale to 0.0625 **************************************** Nine parameter search. iteration 4 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.959 0.014 -0.062 7.481; -0.010 1.270 0.305 -48.537; 0.050 -0.209 1.039 15.143; 0.000 0.000 0.000 1.000; **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.2, old_max_log_p =-4.2 (thresh=-4.2) 0.959 0.014 -0.062 7.481; -0.010 1.270 0.305 -48.537; 0.050 -0.209 1.039 15.143; 0.000 0.000 0.000 1.000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 3481 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.95936 0.01433 -0.06192 7.48130; -0.00998 1.27018 0.30529 -48.53685; 0.05011 -0.20925 1.03872 15.14266; 0.00000 0.00000 0.00000 1.00000; nsamples 3481 Quasinewton: input matrix 0.95936 0.01433 -0.06192 7.48130; -0.00998 1.27018 0.30529 -48.53685; 0.05011 -0.20925 1.03872 15.14266; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 4 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 007: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.959 0.014 -0.062 7.481; -0.010 1.270 0.305 -48.537; 0.050 -0.209 1.039 15.143; 0.000 0.000 0.000 1.000; pass 1, spacing 8: log(p) = -4.2 (old=-4.2) transform before final EM align: 0.959 0.014 -0.062 7.481; -0.010 1.270 0.305 -48.537; 0.050 -0.209 1.039 15.143; 0.000 0.000 0.000 1.000; ************************************************** EM alignment process ... Computing final MAP estimate using 382743 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.95936 0.01433 -0.06192 7.48130; -0.00998 1.27018 0.30529 -48.53685; 0.05011 -0.20925 1.03872 15.14266; 0.00000 0.00000 0.00000 1.00000; nsamples 382743 Quasinewton: input matrix 0.95936 0.01433 -0.06192 7.48130; -0.00998 1.27018 0.30529 -48.53685; 0.05011 -0.20925 1.03872 15.14266; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 6 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 009: -log(p) = 4.6 tol 0.000000 final transform: 0.959 0.014 -0.062 7.481; -0.010 1.270 0.305 -48.537; 0.050 -0.209 1.039 15.143; 0.000 0.000 0.000 1.000; writing output transformation to transforms/talairach_with_skull_2.lta... registration took 17 minutes and 37 seconds. #-------------------------------------- #@# SubCort Seg Thu Aug 10 15:55:09 BRT 2017 \n mri_ca_label -align norm.mgz transforms/talairach.m3z /Applications/freesurfer/average/RB_all_2008-03-26.gca aseg.auto_noCCseg.mgz \n sysname Darwin hostname jogadores-02.local machine x86_64 setenv SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores cd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri mri_ca_label -align norm.mgz transforms/talairach.m3z /Applications/freesurfer/average/RB_all_2008-03-26.gca aseg.auto_noCCseg.mgz renormalizing sequences with structure alignment, equivalent to: -renormalize -renormalize_mean 0.500 -regularize 0.500 reading 1 input volumes... reading classifier array from /Applications/freesurfer/average/RB_all_2008-03-26.gca... reading input volume from norm.mgz... average std[0] = 6.9 reading transform from transforms/talairach.m3z... Atlas used for the 3D morph was /Applications/freesurfer/average/RB_all_2008-03-26.gca average std = 6.9 using min determinant for regularization = 4.7 0 singular and 0 ill-conditioned covariance matrices regularized labeling volume... renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.15151 (27) mri peak = 0.12085 (36) Left_Lateral_Ventricle (4): linear fit = 1.36 x + 0.0 (3537 voxels, overlap=0.185) Left_Lateral_Ventricle (4): linear fit = 1.36 x + 0.0 (3537 voxels, peak = 37), gca=36.6 gca peak = 0.14982 (20) mri peak = 0.12819 (38) Right_Lateral_Ventricle (43): linear fit = 1.62 x + 0.0 (2211 voxels, overlap=0.125) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (2211 voxels, peak = 32), gca=30.0 gca peak = 0.28003 (97) mri peak = 0.12409 (99) Right_Pallidum (52): linear fit = 1.01 x + 0.0 (272 voxels, overlap=1.019) Right_Pallidum (52): linear fit = 1.01 x + 0.0 (272 voxels, peak = 98), gca=98.5 gca peak = 0.18160 (96) mri peak = 0.13236 (101) Left_Pallidum (13): linear fit = 1.03 x + 0.0 (267 voxels, overlap=0.830) Left_Pallidum (13): linear fit = 1.03 x + 0.0 (267 voxels, peak = 99), gca=99.4 gca peak = 0.27536 (62) mri peak = 0.08923 (77) Right_Hippocampus (53): linear fit = 1.24 x + 0.0 (512 voxels, overlap=0.021) Right_Hippocampus (53): linear fit = 1.24 x + 0.0 (512 voxels, peak = 77), gca=76.6 gca peak = 0.32745 (63) mri peak = 0.07515 (75) Left_Hippocampus (17): linear fit = 1.22 x + 0.0 (877 voxels, overlap=0.025) Left_Hippocampus (17): linear fit = 1.22 x + 0.0 (877 voxels, peak = 77), gca=76.5 gca peak = 0.08597 (105) mri peak = 0.08896 (105) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (70720 voxels, overlap=0.757) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (70720 voxels, peak = 104), gca=104.5 gca peak = 0.09209 (106) mri peak = 0.08506 (107) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (66402 voxels, overlap=0.766) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (66402 voxels, peak = 106), gca=106.0 gca peak = 0.07826 (63) mri peak = 0.05200 (90) Left_Cerebral_Cortex (3): linear fit = 1.33 x + 0.0 (22718 voxels, overlap=0.011) Left_Cerebral_Cortex (3): linear fit = 1.33 x + 0.0 (22718 voxels, peak = 83), gca=83.5 gca peak = 0.08598 (64) mri peak = 0.05728 (89) Right_Cerebral_Cortex (42): linear fit = 1.35 x + 0.0 (21527 voxels, overlap=0.000) Right_Cerebral_Cortex (42): linear fit = 1.35 x + 0.0 (21527 voxels, peak = 86), gca=86.1 gca peak = 0.24164 (71) mri peak = 0.10688 (91) Right_Caudate (50): linear fit = 1.26 x + 0.0 (456 voxels, overlap=0.026) Right_Caudate (50): linear fit = 1.26 x + 0.0 (456 voxels, peak = 90), gca=89.8 gca peak = 0.18227 (75) mri peak = 0.11722 (92) Left_Caudate (11): linear fit = 1.20 x + 0.0 (698 voxels, overlap=0.022) Left_Caudate (11): linear fit = 1.20 x + 0.0 (698 voxels, peak = 90), gca=89.6 gca peak = 0.10629 (62) mri peak = 0.05384 (79) Left_Cerebellum_Cortex (8): linear fit = 1.33 x + 0.0 (22630 voxels, overlap=0.001) Left_Cerebellum_Cortex (8): linear fit = 1.33 x + 0.0 (22630 voxels, peak = 82), gca=82.2 gca peak = 0.11668 (59) mri peak = 0.06246 (77) Right_Cerebellum_Cortex (47): linear fit = 1.28 x + 0.0 (24217 voxels, overlap=0.014) Right_Cerebellum_Cortex (47): linear fit = 1.28 x + 0.0 (24217 voxels, peak = 76), gca=75.8 gca peak = 0.17849 (88) mri peak = 0.10646 (93) Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6712 voxels, overlap=0.722) Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6712 voxels, peak = 92), gca=92.0 gca peak = 0.16819 (86) mri peak = 0.08651 (91) Right_Cerebellum_White_Matter (46): linear fit = 1.04 x + 0.0 (7558 voxels, overlap=0.896) Right_Cerebellum_White_Matter (46): linear fit = 1.04 x + 0.0 (7558 voxels, peak = 90), gca=89.9 gca peak = 0.41688 (64) mri peak = 0.11864 (84) Left_Amygdala (18): linear fit = 1.30 x + 0.0 (301 voxels, overlap=0.064) Left_Amygdala (18): linear fit = 1.30 x + 0.0 (301 voxels, peak = 84), gca=83.5 gca peak = 0.42394 (62) mri peak = 0.10997 (83) Right_Amygdala (54): linear fit = 1.29 x + 0.0 (249 voxels, overlap=0.064) Right_Amygdala (54): linear fit = 1.29 x + 0.0 (249 voxels, peak = 80), gca=80.3 gca peak = 0.10041 (96) mri peak = 0.08609 (99) Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (4424 voxels, overlap=0.663) Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (4424 voxels, peak = 101), gca=101.3 gca peak = 0.13978 (88) mri peak = 0.09708 (98) Right_Thalamus_Proper (49): linear fit = 1.09 x + 0.0 (4419 voxels, overlap=0.518) Right_Thalamus_Proper (49): linear fit = 1.09 x + 0.0 (4419 voxels, peak = 95), gca=95.5 gca peak = 0.08514 (81) mri peak = 0.06991 (91) Left_Putamen (12): linear fit = 1.14 x + 0.0 (1716 voxels, overlap=0.337) Left_Putamen (12): linear fit = 1.14 x + 0.0 (1716 voxels, peak = 93), gca=92.7 gca peak = 0.09624 (82) mri peak = 0.08749 (94) Right_Putamen (51): linear fit = 1.12 x + 0.0 (1473 voxels, overlap=0.324) Right_Putamen (51): linear fit = 1.12 x + 0.0 (1473 voxels, peak = 92), gca=92.2 gca peak = 0.07543 (88) mri peak = 0.07101 (93) Brain_Stem (16): linear fit = 1.07 x + 0.0 (14925 voxels, overlap=0.658) Brain_Stem (16): linear fit = 1.07 x + 0.0 (14925 voxels, peak = 94), gca=93.7 gca peak = 0.12757 (95) mri peak = 0.08721 (99) Right_VentralDC (60): linear fit = 1.04 x + 0.0 (1037 voxels, overlap=0.750) Right_VentralDC (60): linear fit = 1.04 x + 0.0 (1037 voxels, peak = 99), gca=99.3 gca peak = 0.17004 (92) mri peak = 0.07926 (98) Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1369 voxels, overlap=0.846) Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1369 voxels, peak = 95), gca=95.2 gca peak = 0.21361 (36) mri peak = 0.16393 (41) gca peak = 0.26069 (23) mri peak = 0.16832 (30) Fourth_Ventricle (15): linear fit = 1.24 x + 0.0 (215 voxels, overlap=0.476) Fourth_Ventricle (15): linear fit = 1.24 x + 0.0 (215 voxels, peak = 28), gca=28.4 gca peak Unknown = 0.94427 ( 0) gca peak Left_Inf_Lat_Vent = 0.31795 (35) gca peak Third_Ventricle = 0.21361 (36) gca peak CSF = 0.14367 (38) gca peak Left_Accumbens_area = 0.57033 (70) gca peak Left_undetermined = 1.00000 (35) gca peak Left_vessel = 0.65201 (62) gca peak Left_choroid_plexus = 0.09084 (48) gca peak Right_Inf_Lat_Vent = 0.31129 (32) gca peak Right_Accumbens_area = 0.30219 (72) gca peak Right_vessel = 0.83418 (60) gca peak Right_choroid_plexus = 0.10189 (48) gca peak Fifth_Ventricle = 0.72939 (42) gca peak WM_hypointensities = 0.14821 (82) gca peak non_WM_hypointensities = 0.10354 (53) gca peak Optic_Chiasm = 0.34849 (76) not using caudate to estimate GM means estimating mean gm scale to be 1.29 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.36 x + 0.0 saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.12851 (37) mri peak = 0.12085 (36) Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (3537 voxels, overlap=0.796) Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (3537 voxels, peak = 36), gca=36.4 gca peak = 0.12219 (30) mri peak = 0.12819 (38) Right_Lateral_Ventricle (43): linear fit = 1.12 x + 0.0 (2211 voxels, overlap=0.653) Right_Lateral_Ventricle (43): linear fit = 1.12 x + 0.0 (2211 voxels, peak = 33), gca=33.5 gca peak = 0.30950 (99) mri peak = 0.12409 (99) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (272 voxels, overlap=1.016) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (272 voxels, peak = 99), gca=99.5 gca peak = 0.18371 (99) mri peak = 0.13236 (101) Left_Pallidum (13): linear fit = 1.00 x + 0.0 (267 voxels, overlap=1.000) Left_Pallidum (13): linear fit = 1.00 x + 0.0 (267 voxels, peak = 99), gca=99.0 gca peak = 0.23683 (77) mri peak = 0.08923 (77) Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (512 voxels, overlap=1.002) Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (512 voxels, peak = 76), gca=75.8 gca peak = 0.22592 (81) mri peak = 0.07515 (75) Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (877 voxels, overlap=0.999) Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (877 voxels, peak = 79), gca=79.0 gca peak = 0.08411 (106) mri peak = 0.08896 (105) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (70720 voxels, overlap=0.749) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (70720 voxels, peak = 106), gca=106.0 gca peak = 0.09211 (106) mri peak = 0.08506 (107) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (66402 voxels, overlap=0.766) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (66402 voxels, peak = 106), gca=106.0 gca peak = 0.05929 (83) mri peak = 0.05200 (90) Left_Cerebral_Cortex (3): linear fit = 0.99 x + 0.0 (22718 voxels, overlap=0.889) Left_Cerebral_Cortex (3): linear fit = 0.99 x + 0.0 (22718 voxels, peak = 82), gca=81.8 gca peak = 0.06506 (86) mri peak = 0.05728 (89) Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (21527 voxels, overlap=0.833) Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (21527 voxels, peak = 86), gca=86.4 gca peak = 0.23523 (93) mri peak = 0.10688 (91) Right_Caudate (50): linear fit = 1.00 x + 0.0 (456 voxels, overlap=1.000) Right_Caudate (50): linear fit = 1.00 x + 0.0 (456 voxels, peak = 93), gca=93.0 gca peak = 0.14376 (89) mri peak = 0.11722 (92) Left_Caudate (11): linear fit = 1.00 x + 0.0 (698 voxels, overlap=0.870) Left_Caudate (11): linear fit = 1.00 x + 0.0 (698 voxels, peak = 89), gca=89.4 gca peak = 0.08269 (82) mri peak = 0.05384 (79) Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (22630 voxels, overlap=0.959) Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (22630 voxels, peak = 81), gca=80.8 gca peak = 0.09637 (76) mri peak = 0.06246 (77) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (24217 voxels, overlap=0.964) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (24217 voxels, peak = 75), gca=74.9 gca peak = 0.17465 (92) mri peak = 0.10646 (93) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6712 voxels, overlap=0.954) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6712 voxels, peak = 92), gca=91.5 gca peak = 0.15964 (90) mri peak = 0.08651 (91) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (7558 voxels, overlap=0.993) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (7558 voxels, peak = 90), gca=89.6 gca peak = 0.32287 (83) mri peak = 0.11864 (84) Left_Amygdala (18): linear fit = 0.99 x + 0.0 (301 voxels, overlap=1.014) Left_Amygdala (18): linear fit = 0.99 x + 0.0 (301 voxels, peak = 82), gca=81.8 gca peak = 0.33048 (81) mri peak = 0.10997 (83) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (249 voxels, overlap=1.018) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (249 voxels, peak = 81), gca=81.0 gca peak = 0.10661 (101) mri peak = 0.08609 (99) Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4424 voxels, overlap=0.913) Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4424 voxels, peak = 100), gca=100.5 gca peak = 0.11554 (95) mri peak = 0.09708 (98) Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4419 voxels, overlap=0.924) Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4419 voxels, peak = 96), gca=96.4 gca peak = 0.07781 (94) mri peak = 0.06991 (91) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1716 voxels, overlap=0.920) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1716 voxels, peak = 94), gca=94.5 gca peak = 0.09070 (85) mri peak = 0.08749 (94) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1473 voxels, overlap=0.879) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1473 voxels, peak = 86), gca=86.3 gca peak = 0.06560 (94) mri peak = 0.07101 (93) Brain_Stem (16): linear fit = 1.01 x + 0.0 (14925 voxels, overlap=0.814) Brain_Stem (16): linear fit = 1.01 x + 0.0 (14925 voxels, peak = 95), gca=95.4 gca peak = 0.14024 (99) mri peak = 0.08721 (99) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1037 voxels, overlap=0.817) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1037 voxels, peak = 99), gca=99.5 gca peak = 0.15550 (96) mri peak = 0.07926 (98) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1369 voxels, overlap=0.886) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1369 voxels, peak = 96), gca=96.5 gca peak = 0.13658 (49) mri peak = 0.16393 (41) gca peak = 0.18673 (29) mri peak = 0.16832 (30) Fourth_Ventricle (15): linear fit = 0.96 x + 0.0 (215 voxels, overlap=0.696) Fourth_Ventricle (15): linear fit = 0.96 x + 0.0 (215 voxels, peak = 28), gca=28.0 gca peak Unknown = 0.94427 ( 0) gca peak Left_Inf_Lat_Vent = 0.22588 (43) gca peak Third_Ventricle = 0.13658 (49) gca peak CSF = 0.15453 (62) gca peak Left_Accumbens_area = 0.35939 (84) gca peak Left_undetermined = 0.95107 (42) gca peak Left_vessel = 0.63670 (62) gca peak Left_choroid_plexus = 0.08662 (41) gca peak Right_Inf_Lat_Vent = 0.24786 (39) gca peak Right_Accumbens_area = 0.26685 (91) gca peak Right_vessel = 0.83418 (60) gca peak Right_choroid_plexus = 0.13261 (46) gca peak Fifth_Ventricle = 0.45827 (57) gca peak WM_hypointensities = 0.15622 (81) gca peak non_WM_hypointensities = 0.10275 (53) gca peak Optic_Chiasm = 0.34132 (76) not using caudate to estimate GM means estimating mean gm scale to be 0.99 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.02 x + 0.0 saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 80499 gm and wm labels changed (%23 to gray, %77 to white out of all changed labels) 569 hippocampal voxels changed. 2 amygdala voxels changed. pass 1: 115045 changed. image ll: -2.277, PF=1.000 pass 2: 21429 changed. image ll: -2.272, PF=1.000 pass 3: 7131 changed. pass 4: 2944 changed. writing labeled volume to aseg.auto_noCCseg.mgz... auto-labeling took 15 minutes and 0 seconds. \n mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/transforms/cc_up.lta recon0256 \n will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/transforms/cc_up.lta reading aseg from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.auto_noCCseg.mgz reading norm from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/norm.mgz 43357 voxels in left wm, 39877 in right wm, xrange [123, 133] searching rotation angles z=[-7 7], y=[-5 9] searching scale 1 Z rot -7.4 searching scale 1 Z rot -7.2 searching scale 1 Z rot -6.9 searching scale 1 Z rot -6.7 searching scale 1 Z rot -6.4 searching scale 1 Z rot -6.2 searching scale 1 Z rot -5.9 searching scale 1 Z rot -5.7 searching scale 1 Z rot -5.4 searching scale 1 Z rot -5.2 searching scale 1 Z rot -4.9 searching scale 1 Z rot -4.7 searching scale 1 Z rot -4.4 searching scale 1 Z rot -4.2 searching scale 1 Z rot -3.9 searching scale 1 Z rot -3.7 searching scale 1 Z rot -3.4 searching scale 1 Z rot -3.2 searching scale 1 Z rot -2.9 searching scale 1 Z rot -2.7 searching scale 1 Z rot -2.4 searching scale 1 Z rot -2.2 searching scale 1 Z rot -1.9 searching scale 1 Z rot -1.7 searching scale 1 Z rot -1.4 searching scale 1 Z rot -1.2 searching scale 1 Z rot -0.9 searching scale 1 Z rot -0.7 searching scale 1 Z rot -0.4 searching scale 1 Z rot -0.2 searching scale 1 Z rot 0.1 searching scale 1 Z rot 0.3 searching scale 1 Z rot 0.6 searching scale 1 Z rot 0.8 searching scale 1 Z rot 1.1 searching scale 1 Z rot 1.3 searching scale 1 Z rot 1.6 searching scale 1 Z rot 1.8 searching scale 1 Z rot 2.1 searching scale 1 Z rot 2.3 searching scale 1 Z rot 2.6 searching scale 1 Z rot 2.8 searching scale 1 Z rot 3.1 searching scale 1 Z rot 3.3 searching scale 1 Z rot 3.6 searching scale 1 Z rot 3.8 searching scale 1 Z rot 4.1 searching scale 1 Z rot 4.3 searching scale 1 Z rot 4.6 searching scale 1 Z rot 4.8 searching scale 1 Z rot 5.1 searching scale 1 Z rot 5.3 searching scale 1 Z rot 5.6 searching scale 1 Z rot 5.8 searching scale 1 Z rot 6.1 searching scale 1 Z rot 6.3 global minimum found at slice 128.0, rotations (1.93, -0.41) final transformation (x=128.0, yr=1.930, zr=-0.410): 0.999 0.007 0.034 -3.653; -0.007 1.000 -0.000 40.941; -0.034 0.000 0.999 40.364; 0.000 0.000 0.000 1.000; updating x range to be [127, 131] in xformed coordinates best xformed slice 129 cc center is found at 129 158 119 eigenvectors: -0.001 0.003 1.000; -0.192 -0.981 0.003; 0.981 -0.192 0.002; error in mid anterior detected - correcting... writing aseg with callosum to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.auto.mgz... corpus callosum matter segmentation took 0.8 minutes #-------------------------------------- #@# Merge ASeg Thu Aug 10 16:10:59 BRT 2017 \n cp aseg.auto.mgz aseg.mgz \n #-------------------------------------------- #@# Intensity Normalization2 Thu Aug 10 16:11:00 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_normalize -aseg aseg.mgz -mask brainmask.mgz norm.mgz brain.mgz \n using segmentation for initial intensity normalization using MR volume brainmask.mgz to mask input volume... reading from norm.mgz... Reading aseg aseg.mgz normalizing image... processing with aseg removing outliers in the aseg WM... 1341 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 111 white matter peak found at 109 gm peak at 40 (40), valley at 22 (22) csf peak at 20, setting threshold to 33 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 111 white matter peak found at 110 gm peak at 88 (88), valley at 53 (53) csf peak at 42, setting threshold to 72 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 3 minutes and 8 seconds. #-------------------------------------------- #@# Mask BFS Thu Aug 10 16:14:09 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz \n threshold mask volume at 5 DoAbs = 0 Found 1774903 voxels in mask (pct= 10.58) Writing masked volume to brain.finalsurfs.mgz...done. #-------------------------------------------- #@# WM Segmentation Thu Aug 10 16:14:11 BRT 2017 \n mri_segment brain.mgz wm.seg.mgz \n doing initial intensity segmentation... using local statistics to label ambiguous voxels... computing class statistics for intensity windows... WM (105.0): 105.8 +- 5.3 [80.0 --> 125.0] GM (73.0) : 70.4 +- 15.3 [30.0 --> 96.0] setting bottom of white matter range to 85.7 setting top of gray matter range to 100.9 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... 12258 sparsely connected voxels removed... thickening thin strands.... 20 segments, 2517 filled 1933 bright non-wm voxels segmented. 7487 diagonally connected voxels added... white matter segmentation took 2.0 minutes writing output to wm.seg.mgz... \n mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.mgz wm.asegedit.mgz \n preserving editing changes in input volume... auto filling took 0.53 minutes reading wm segmentation from wm.seg.mgz... 9 voxels added to wm to prevent paths from MTL structures to cortex 3781 additional wm voxels added 0 additional wm voxels added SEG EDIT: 59566 voxels turned on, 71056 voxels turned off. propagating editing to output volume from wm.seg.mgz 115,126,128 old 0 new 0 115,126,128 old 0 new 0 writing edited volume to wm.asegedit.mgz.... \n mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz \n Iteration Number : 1 pass 1 (xy+): 36 found - 36 modified | TOTAL: 36 pass 2 (xy+): 0 found - 36 modified | TOTAL: 36 pass 1 (xy-): 40 found - 40 modified | TOTAL: 76 pass 2 (xy-): 0 found - 40 modified | TOTAL: 76 pass 1 (yz+): 47 found - 47 modified | TOTAL: 123 pass 2 (yz+): 0 found - 47 modified | TOTAL: 123 pass 1 (yz-): 42 found - 42 modified | TOTAL: 165 pass 2 (yz-): 0 found - 42 modified | TOTAL: 165 pass 1 (xz+): 31 found - 31 modified | TOTAL: 196 pass 2 (xz+): 0 found - 31 modified | TOTAL: 196 pass 1 (xz-): 40 found - 40 modified | TOTAL: 236 pass 2 (xz-): 0 found - 40 modified | TOTAL: 236 Iteration Number : 1 pass 1 (+++): 45 found - 45 modified | TOTAL: 45 pass 2 (+++): 0 found - 45 modified | TOTAL: 45 pass 1 (+++): 56 found - 56 modified | TOTAL: 101 pass 2 (+++): 0 found - 56 modified | TOTAL: 101 pass 1 (+++): 34 found - 34 modified | TOTAL: 135 pass 2 (+++): 0 found - 34 modified | TOTAL: 135 pass 1 (+++): 77 found - 77 modified | TOTAL: 212 pass 2 (+++): 0 found - 77 modified | TOTAL: 212 Iteration Number : 1 pass 1 (++): 129 found - 129 modified | TOTAL: 129 pass 2 (++): 0 found - 129 modified | TOTAL: 129 pass 1 (+-): 117 found - 117 modified | TOTAL: 246 pass 2 (+-): 1 found - 118 modified | TOTAL: 247 pass 3 (+-): 0 found - 118 modified | TOTAL: 247 pass 1 (--): 106 found - 106 modified | TOTAL: 353 pass 2 (--): 0 found - 106 modified | TOTAL: 353 pass 1 (-+): 121 found - 121 modified | TOTAL: 474 pass 2 (-+): 0 found - 121 modified | TOTAL: 474 Iteration Number : 2 pass 1 (xy+): 14 found - 14 modified | TOTAL: 14 pass 2 (xy+): 0 found - 14 modified | TOTAL: 14 pass 1 (xy-): 14 found - 14 modified | TOTAL: 28 pass 2 (xy-): 0 found - 14 modified | TOTAL: 28 pass 1 (yz+): 12 found - 12 modified | TOTAL: 40 pass 2 (yz+): 0 found - 12 modified | TOTAL: 40 pass 1 (yz-): 16 found - 16 modified | TOTAL: 56 pass 2 (yz-): 0 found - 16 modified | TOTAL: 56 pass 1 (xz+): 12 found - 12 modified | TOTAL: 68 pass 2 (xz+): 0 found - 12 modified | TOTAL: 68 pass 1 (xz-): 13 found - 13 modified | TOTAL: 81 pass 2 (xz-): 0 found - 13 modified | TOTAL: 81 Iteration Number : 2 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 5 found - 5 modified | TOTAL: 7 pass 2 (+++): 0 found - 5 modified | TOTAL: 7 pass 1 (+++): 10 found - 10 modified | TOTAL: 17 pass 2 (+++): 0 found - 10 modified | TOTAL: 17 pass 1 (+++): 0 found - 0 modified | TOTAL: 17 Iteration Number : 2 pass 1 (++): 11 found - 11 modified | TOTAL: 11 pass 2 (++): 0 found - 11 modified | TOTAL: 11 pass 1 (+-): 4 found - 4 modified | TOTAL: 15 pass 2 (+-): 0 found - 4 modified | TOTAL: 15 pass 1 (--): 9 found - 9 modified | TOTAL: 24 pass 2 (--): 0 found - 9 modified | TOTAL: 24 pass 1 (-+): 8 found - 8 modified | TOTAL: 32 pass 2 (-+): 0 found - 8 modified | TOTAL: 32 Iteration Number : 3 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 0 found - 0 modified | TOTAL: 1 pass 1 (yz+): 1 found - 1 modified | TOTAL: 2 pass 2 (yz+): 0 found - 1 modified | TOTAL: 2 pass 1 (yz-): 3 found - 3 modified | TOTAL: 5 pass 2 (yz-): 0 found - 3 modified | TOTAL: 5 pass 1 (xz+): 1 found - 1 modified | TOTAL: 6 pass 2 (xz+): 0 found - 1 modified | TOTAL: 6 pass 1 (xz-): 0 found - 0 modified | TOTAL: 6 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 (++): 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 : 4 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 1060 (out of 809050: 0.131018) binarizing input wm segmentation... Ambiguous edge configurations... mri_pretess done #-------------------------------------------- #@# Fill Thu Aug 10 16:16:47 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz \n logging cutting plane coordinates to ../scripts/ponscc.cut.log... INFO: Using transforms/talairach.lta and its offset for Talairach volume ... using segmentation aseg.auto_noCCseg.mgz... reading input volume...done. searching for cutting planes...voxel to talairach voxel transform 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; voxel to talairach voxel transform 0.942 0.009 0.027 1.060; -0.016 1.006 0.260 -16.396; -0.024 -0.249 0.965 37.620; 0.000 0.000 0.000 1.000; reading segmented volume aseg.auto_noCCseg.mgz... Looking for area (min, max) = (350, 1400) area[0] = 1104 (min = 350, max = 1400), aspect = 0.37 (min = 0.10, max = 0.75) no need to search using seed (125, 116, 89), TAL = (3.0, -39.0, 12.0) talairach voxel to voxel transform 1.060 -0.016 -0.026 -0.428; 0.009 0.931 -0.252 24.729; 0.029 0.240 0.971 -32.614; 0.000 0.000 0.000 1.000; segmentation indicates cc at (125, 116, 89) --> (3.0, -39.0, 12.0) done. writing output to filled.mgz... filling took 0.7 minutes talairach cc position changed to (3.00, -39.00, 12.00) Erasing brainstem...done. seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(21.00, -39.00, 12.00) SRC: (108.84, 111.34, 84.76) search lh wm seed point around talairach space (-15.00, -39.00, 12.00), SRC: (147.00, 111.68, 85.80) 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 Thu Aug 10 16:17:29 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz \n Iteration Number : 1 pass 1 (xy+): 3 found - 3 modified | TOTAL: 3 pass 2 (xy+): 0 found - 3 modified | TOTAL: 3 pass 1 (xy-): 7 found - 7 modified | TOTAL: 10 pass 2 (xy-): 0 found - 7 modified | TOTAL: 10 pass 1 (yz+): 4 found - 4 modified | TOTAL: 14 pass 2 (yz+): 0 found - 4 modified | TOTAL: 14 pass 1 (yz-): 8 found - 8 modified | TOTAL: 22 pass 2 (yz-): 0 found - 8 modified | TOTAL: 22 pass 1 (xz+): 2 found - 2 modified | TOTAL: 24 pass 2 (xz+): 0 found - 2 modified | TOTAL: 24 pass 1 (xz-): 5 found - 5 modified | TOTAL: 29 pass 2 (xz-): 0 found - 5 modified | TOTAL: 29 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 (++): 3 found - 3 modified | TOTAL: 3 pass 2 (++): 0 found - 3 modified | TOTAL: 3 pass 1 (+-): 3 found - 3 modified | TOTAL: 6 pass 2 (+-): 0 found - 3 modified | TOTAL: 6 pass 1 (--): 0 found - 0 modified | TOTAL: 6 pass 1 (-+): 2 found - 2 modified | TOTAL: 8 pass 2 (-+): 0 found - 2 modified | TOTAL: 8 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-): 1 found - 1 modified | TOTAL: 2 pass 2 (yz-): 0 found - 1 modified | TOTAL: 2 pass 1 (xz+): 0 found - 0 modified | TOTAL: 2 pass 1 (xz-): 0 found - 0 modified | TOTAL: 2 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 39 (out of 393750: 0.009905) Ambiguous edge configurations... mri_pretess done \n mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix \n $Id: mri_tessellate.c,v 1.36 2011/03/02 00:04:25 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ slice 30: 154 vertices, 197 faces slice 40: 6038 vertices, 6361 faces slice 50: 18211 vertices, 18699 faces slice 60: 32442 vertices, 32937 faces slice 70: 46659 vertices, 47130 faces slice 80: 59833 vertices, 60263 faces slice 90: 72074 vertices, 72578 faces slice 100: 84287 vertices, 84738 faces slice 110: 96940 vertices, 97474 faces slice 120: 110106 vertices, 110668 faces slice 130: 124019 vertices, 124659 faces slice 140: 137407 vertices, 138035 faces slice 150: 150090 vertices, 150677 faces slice 160: 160775 vertices, 161267 faces slice 170: 168607 vertices, 169020 faces slice 180: 174534 vertices, 174893 faces slice 190: 177825 vertices, 178018 faces slice 200: 177882 vertices, 178058 faces slice 210: 177882 vertices, 178058 faces slice 220: 177882 vertices, 178058 faces slice 230: 177882 vertices, 178058 faces slice 240: 177882 vertices, 178058 faces slice 250: 177882 vertices, 178058 faces using the conformed surface RAS to save vertex points... writing ../surf/lh.orig.nofix using vox2ras matrix: -1.000 0.000 0.000 128.000; 0.000 0.000 1.000 -128.000; 0.000 -1.000 0.000 128.000; 0.000 0.000 0.000 1.000; \n rm -f ../mri/filled-pretess255.mgz \n \n mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix \n counting number of connected components... 177882 voxel in cpt #1: X=-176 [v=177882,e=534174,f=356116] located at (-30.265642, -25.062817, 23.910671) For the whole surface: X=-176 [v=177882,e=534174,f=356116] One single component has been found nothing to do done #-------------------------------------------- #@# Smooth1 lh Thu Aug 10 16:17:37 BRT 2017 \n mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation1 lh Thu Aug 10 16:17:43 BRT 2017 \n mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts avg radius = 49.9 mm, total surface area = 91564 mm^2 writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.5 minutes Not saving sulc step 000: RMS=0.110 (target=0.015) step 005: RMS=0.084 (target=0.015) step 010: RMS=0.069 (target=0.015) step 015: RMS=0.060 (target=0.015) step 020: RMS=0.056 (target=0.015) step 025: RMS=0.054 (target=0.015) step 030: RMS=0.051 (target=0.015) step 035: RMS=0.049 (target=0.015) step 040: RMS=0.047 (target=0.015) step 045: RMS=0.047 (target=0.015) step 050: RMS=0.046 (target=0.015) step 055: RMS=0.046 (target=0.015) step 060: RMS=0.046 (target=0.015) inflation complete. Not saving sulc #-------------------------------------------- #@# QSphere lh Thu Aug 10 16:18:11 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix \n doing quick spherical unfolding. setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... vertex spacing 0.87 +- 0.53 (0.00-->5.89) (max @ vno 131814 --> 131815) face area 0.02 +- 0.03 (-0.15-->0.59) writing spherical brain to ../surf/lh.qsphere.nofix spherical transformation took 0.05 hours scaling brain by 0.306... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=175.120, avgs=0 005/300: dt: 0.9000, rms radial error=174.860, avgs=0 010/300: dt: 0.9000, rms radial error=174.302, avgs=0 015/300: dt: 0.9000, rms radial error=173.567, avgs=0 020/300: dt: 0.9000, rms radial error=172.731, avgs=0 025/300: dt: 0.9000, rms radial error=171.842, avgs=0 030/300: dt: 0.9000, rms radial error=170.921, avgs=0 035/300: dt: 0.9000, rms radial error=169.984, avgs=0 040/300: dt: 0.9000, rms radial error=169.038, avgs=0 045/300: dt: 0.9000, rms radial error=168.091, avgs=0 050/300: dt: 0.9000, rms radial error=167.144, avgs=0 055/300: dt: 0.9000, rms radial error=166.199, avgs=0 060/300: dt: 0.9000, rms radial error=165.258, avgs=0 065/300: dt: 0.9000, rms radial error=164.322, avgs=0 070/300: dt: 0.9000, rms radial error=163.390, avgs=0 075/300: dt: 0.9000, rms radial error=162.466, avgs=0 080/300: dt: 0.9000, rms radial error=161.549, avgs=0 085/300: dt: 0.9000, rms radial error=160.637, avgs=0 090/300: dt: 0.9000, rms radial error=159.731, avgs=0 095/300: dt: 0.9000, rms radial error=158.833, avgs=0 100/300: dt: 0.9000, rms radial error=157.942, avgs=0 105/300: dt: 0.9000, rms radial error=157.056, avgs=0 110/300: dt: 0.9000, rms radial error=156.175, avgs=0 115/300: dt: 0.9000, rms radial error=155.300, avgs=0 120/300: dt: 0.9000, rms radial error=154.429, avgs=0 125/300: dt: 0.9000, rms radial error=153.562, avgs=0 130/300: dt: 0.9000, rms radial error=152.701, avgs=0 135/300: dt: 0.9000, rms radial error=151.844, avgs=0 140/300: dt: 0.9000, rms radial error=150.991, avgs=0 145/300: dt: 0.9000, rms radial error=150.144, avgs=0 150/300: dt: 0.9000, rms radial error=149.301, avgs=0 155/300: dt: 0.9000, rms radial error=148.462, avgs=0 160/300: dt: 0.9000, rms radial error=147.628, avgs=0 165/300: dt: 0.9000, rms radial error=146.799, avgs=0 170/300: dt: 0.9000, rms radial error=145.974, avgs=0 175/300: dt: 0.9000, rms radial error=145.154, avgs=0 180/300: dt: 0.9000, rms radial error=144.339, avgs=0 185/300: dt: 0.9000, rms radial error=143.528, avgs=0 190/300: dt: 0.9000, rms radial error=142.721, avgs=0 195/300: dt: 0.9000, rms radial error=141.919, avgs=0 200/300: dt: 0.9000, rms radial error=141.122, avgs=0 205/300: dt: 0.9000, rms radial error=140.329, avgs=0 210/300: dt: 0.9000, rms radial error=139.540, avgs=0 215/300: dt: 0.9000, rms radial error=138.756, avgs=0 220/300: dt: 0.9000, rms radial error=137.977, avgs=0 225/300: dt: 0.9000, rms radial error=137.201, avgs=0 230/300: dt: 0.9000, rms radial error=136.430, avgs=0 235/300: dt: 0.9000, rms radial error=135.664, avgs=0 240/300: dt: 0.9000, rms radial error=134.901, avgs=0 245/300: dt: 0.9000, rms radial error=134.142, avgs=0 250/300: dt: 0.9000, rms radial error=133.386, avgs=0 255/300: dt: 0.9000, rms radial error=132.634, avgs=0 260/300: dt: 0.9000, rms radial error=131.887, avgs=0 265/300: dt: 0.9000, rms radial error=131.143, avgs=0 270/300: dt: 0.9000, rms radial error=130.404, avgs=0 275/300: dt: 0.9000, rms radial error=129.669, avgs=0 280/300: dt: 0.9000, rms radial error=128.938, avgs=0 285/300: dt: 0.9000, rms radial error=128.211, avgs=0 290/300: dt: 0.9000, rms radial error=127.488, avgs=0 295/300: dt: 0.9000, rms radial error=126.769, avgs=0 300/300: dt: 0.9000, rms radial error=126.055, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 21058.32 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00010 epoch 2 (K=40.0), pass 1, starting sse = 3668.22 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00006 epoch 3 (K=160.0), pass 1, starting sse = 436.60 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.04/10 = 0.00413 epoch 4 (K=640.0), pass 1, starting sse = 51.26 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.06/11 = 0.00550 final distance error %100000.00 #-------------------------------------------- #@# Fix Topology lh Thu Aug 10 16:21:28 BRT 2017 \n cp ../surf/lh.orig.nofix ../surf/lh.orig \n \n cp ../surf/lh.inflated.nofix ../surf/lh.inflated \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_fix_topology -mgz -sphere qsphere.nofix -ga -seed 1234 recon0256 lh \n 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 1.48 2011/03/02 00:04:32 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ before topology correction, eno=-176 (nv=177882, nf=356116, ne=534174, g=89) 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... 29687 ambiguous faces found in tessellation segmenting defects... 53 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 21 into 18 52 defects to be corrected 0 vertices coincident reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -9.3422 (-4.6711) -vertex loglikelihood: -6.1463 (-3.0731) -normal dot loglikelihood: -3.5911 (-3.5911) -quad curv loglikelihood: -6.4565 (-3.2282) Total Loglikelihood : -25.5360 CORRECTING DEFECT 0 (vertices=143, convex hull=121) After retessellation of defect 0, euler #=-45 (161924,483531,321562) : difference with theory (-49) = -4 CORRECTING DEFECT 1 (vertices=73, convex hull=34) After retessellation of defect 1, euler #=-44 (161932,483565,321589) : difference with theory (-48) = -4 CORRECTING DEFECT 2 (vertices=51, convex hull=89) After retessellation of defect 2, euler #=-43 (161953,483664,321668) : difference with theory (-47) = -4 CORRECTING DEFECT 3 (vertices=344, convex hull=230) After retessellation of defect 3, euler #=-42 (162088,484180,322050) : difference with theory (-46) = -4 CORRECTING DEFECT 4 (vertices=14, convex hull=18) After retessellation of defect 4, euler #=-41 (162090,484190,322059) : difference with theory (-45) = -4 CORRECTING DEFECT 5 (vertices=424, convex hull=256) After retessellation of defect 5, euler #=-40 (162122,484403,322241) : difference with theory (-44) = -4 CORRECTING DEFECT 6 (vertices=5, convex hull=29) After retessellation of defect 6, euler #=-39 (162123,484413,322251) : difference with theory (-43) = -4 CORRECTING DEFECT 7 (vertices=1267, convex hull=221) After retessellation of defect 7, euler #=-38 (162157,484626,322431) : difference with theory (-42) = -4 CORRECTING DEFECT 8 (vertices=95, convex hull=54) After retessellation of defect 8, euler #=-37 (162162,484659,322460) : difference with theory (-41) = -4 CORRECTING DEFECT 9 (vertices=61, convex hull=33) After retessellation of defect 9, euler #=-36 (162166,484684,322482) : difference with theory (-40) = -4 CORRECTING DEFECT 10 (vertices=26, convex hull=33) After retessellation of defect 10, euler #=-35 (162173,484713,322505) : difference with theory (-39) = -4 CORRECTING DEFECT 11 (vertices=143, convex hull=31) After retessellation of defect 11, euler #=-34 (162183,484752,322535) : difference with theory (-38) = -4 CORRECTING DEFECT 12 (vertices=62, convex hull=87) After retessellation of defect 12, euler #=-33 (162197,484828,322598) : difference with theory (-37) = -4 CORRECTING DEFECT 13 (vertices=13, convex hull=23) After retessellation of defect 13, euler #=-32 (162197,484837,322608) : difference with theory (-36) = -4 CORRECTING DEFECT 14 (vertices=16, convex hull=30) After retessellation of defect 14, euler #=-31 (162201,484857,322625) : difference with theory (-35) = -4 CORRECTING DEFECT 15 (vertices=323, convex hull=198) After retessellation of defect 15, euler #=-30 (162315,485303,322958) : difference with theory (-34) = -4 CORRECTING DEFECT 16 (vertices=43, convex hull=87) After retessellation of defect 16, euler #=-29 (162336,485402,323037) : difference with theory (-33) = -4 CORRECTING DEFECT 17 (vertices=35, convex hull=36) After retessellation of defect 17, euler #=-28 (162343,485433,323062) : difference with theory (-32) = -4 CORRECTING DEFECT 18 (vertices=114, convex hull=130) After retessellation of defect 18, euler #=-26 (162374,485589,323189) : difference with theory (-31) = -5 CORRECTING DEFECT 19 (vertices=36, convex hull=54) After retessellation of defect 19, euler #=-25 (162384,485642,323233) : difference with theory (-30) = -5 CORRECTING DEFECT 20 (vertices=16, convex hull=24) After retessellation of defect 20, euler #=-24 (162387,485658,323247) : difference with theory (-29) = -5 CORRECTING DEFECT 21 (vertices=34, convex hull=49) After retessellation of defect 21, euler #=-23 (162396,485704,323285) : difference with theory (-28) = -5 CORRECTING DEFECT 22 (vertices=47, convex hull=30) After retessellation of defect 22, euler #=-22 (162398,485724,323304) : difference with theory (-27) = -5 CORRECTING DEFECT 23 (vertices=21, convex hull=32) After retessellation of defect 23, euler #=-21 (162405,485755,323329) : difference with theory (-26) = -5 CORRECTING DEFECT 24 (vertices=4598, convex hull=887) After retessellation of defect 24, euler #=-23 (163207,488648,325418) : difference with theory (-25) = -2 CORRECTING DEFECT 25 (vertices=21, convex hull=46) After retessellation of defect 25, euler #=-22 (163217,488695,325456) : difference with theory (-24) = -2 CORRECTING DEFECT 26 (vertices=88, convex hull=127) After retessellation of defect 26, euler #=-21 (163250,488851,325580) : difference with theory (-23) = -2 CORRECTING DEFECT 27 (vertices=721, convex hull=87) After retessellation of defect 27, euler #=-20 (163262,488919,325637) : difference with theory (-22) = -2 CORRECTING DEFECT 28 (vertices=60, convex hull=49) After retessellation of defect 28, euler #=-19 (163280,488992,325693) : difference with theory (-21) = -2 CORRECTING DEFECT 29 (vertices=67, convex hull=32) After retessellation of defect 29, euler #=-18 (163285,489018,325715) : difference with theory (-20) = -2 CORRECTING DEFECT 30 (vertices=28, convex hull=62) After retessellation of defect 30, euler #=-17 (163301,489092,325774) : difference with theory (-19) = -2 CORRECTING DEFECT 31 (vertices=7, convex hull=16) After retessellation of defect 31, euler #=-16 (163303,489101,325782) : difference with theory (-18) = -2 CORRECTING DEFECT 32 (vertices=26, convex hull=36) Warning - incorrect dp selected!!!!(-74.136985 >= -74.136987 ) After retessellation of defect 32, euler #=-15 (163309,489132,325808) : difference with theory (-17) = -2 CORRECTING DEFECT 33 (vertices=5594, convex hull=815) After retessellation of defect 33, euler #=-15 (164439,492934,328480) : difference with theory (-16) = -1 CORRECTING DEFECT 34 (vertices=314, convex hull=76) After retessellation of defect 34, euler #=-14 (164447,492988,328527) : difference with theory (-15) = -1 CORRECTING DEFECT 35 (vertices=11, convex hull=25) After retessellation of defect 35, euler #=-13 (164449,493003,328541) : difference with theory (-14) = -1 CORRECTING DEFECT 36 (vertices=21, convex hull=15) After retessellation of defect 36, euler #=-12 (164452,493015,328551) : difference with theory (-13) = -1 CORRECTING DEFECT 37 (vertices=20, convex hull=48) After retessellation of defect 37, euler #=-11 (164461,493058,328586) : difference with theory (-12) = -1 CORRECTING DEFECT 38 (vertices=20, convex hull=25) After retessellation of defect 38, euler #=-10 (164466,493080,328604) : difference with theory (-11) = -1 CORRECTING DEFECT 39 (vertices=6, convex hull=25) After retessellation of defect 39, euler #=-9 (164467,493092,328616) : difference with theory (-10) = -1 CORRECTING DEFECT 40 (vertices=49, convex hull=90) After retessellation of defect 40, euler #=-8 (164502,493241,328731) : difference with theory (-9) = -1 CORRECTING DEFECT 41 (vertices=22, convex hull=26) After retessellation of defect 41, euler #=-7 (164507,493262,328748) : difference with theory (-8) = -1 CORRECTING DEFECT 42 (vertices=21, convex hull=24) After retessellation of defect 42, euler #=-6 (164510,493278,328762) : difference with theory (-7) = -1 CORRECTING DEFECT 43 (vertices=23, convex hull=54) After retessellation of defect 43, euler #=-5 (164520,493326,328801) : difference with theory (-6) = -1 CORRECTING DEFECT 44 (vertices=24, convex hull=44) After retessellation of defect 44, euler #=-4 (164531,493372,328837) : difference with theory (-5) = -1 CORRECTING DEFECT 45 (vertices=401, convex hull=163) After retessellation of defect 45, euler #=-3 (164549,493495,328943) : difference with theory (-4) = -1 CORRECTING DEFECT 46 (vertices=22, convex hull=27) After retessellation of defect 46, euler #=-2 (164554,493519,328963) : difference with theory (-3) = -1 CORRECTING DEFECT 47 (vertices=7, convex hull=19) After retessellation of defect 47, euler #=-1 (164555,493529,328973) : difference with theory (-2) = -1 CORRECTING DEFECT 48 (vertices=322, convex hull=138) After retessellation of defect 48, euler #=-1 (164632,493836,329203) : difference with theory (-1) = 0 CORRECTING DEFECT 49 (vertices=56, convex hull=82) After retessellation of defect 49, euler #=0 (164649,493921,329272) : difference with theory (0) = 0 CORRECTING DEFECT 50 (vertices=13, convex hull=23) After retessellation of defect 50, euler #=1 (164649,493928,329280) : difference with theory (1) = 0 CORRECTING DEFECT 51 (vertices=26, convex hull=41) After retessellation of defect 51, euler #=2 (164658,493968,329312) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.29 (0.03-->18.77) (max @ vno 111132 --> 166956) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.29 (0.03-->18.77) (max @ vno 111132 --> 166956) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 199 mutations (33.1%), 402 crossovers (66.9%), 521 vertices were eliminated building final representation... 13224 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=164658, nf=329312, ne=493968, g=0) writing corrected surface to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.orig... 0.000 % of the vertices (0 vertices) exhibit an orientation change topology fixing took 40.4 minutes 0 defective edges removing intersecting faces 000: 1790 intersecting 001: 498 intersecting 002: 411 intersecting 003: 348 intersecting 004: 344 intersecting 005: 272 intersecting 006: 237 intersecting 007: 198 intersecting 008: 182 intersecting 009: 166 intersecting expanding nbhd size to 2 010: 176 intersecting 011: 164 intersecting 012: 160 intersecting 013: 150 intersecting 014: 141 intersecting 015: 138 intersecting 016: 132 intersecting 017: 122 intersecting expanding nbhd size to 3 018: 124 intersecting expanding nbhd size to 4 019: 126 intersecting expanding nbhd size to 5 020: 126 intersecting 021: 121 intersecting 022: 115 intersecting expanding nbhd size to 6 023: 120 intersecting 024: 114 intersecting 025: 109 intersecting 026: 106 intersecting 027: 93 intersecting 028: 89 intersecting 029: 79 intersecting 030: 70 intersecting 031: 66 intersecting 032: 60 intersecting 033: 47 intersecting 034: 41 intersecting 035: 32 intersecting \n mris_euler_number ../surf/lh.orig \n euler # = v-e+f = 2g-2: 164658 - 493968 + 329312 = 2 --> 0 holes F =2V-4: 329312 = 329316-4 (0) 2E=3F: 987936 = 987936 (0) total defect index = 0 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_remove_intersection ../surf/lh.orig ../surf/lh.orig \n intersection removal took 0.01 hours removing intersecting faces 000: 1052 intersecting 001: 445 intersecting 002: 387 intersecting 003: 332 intersecting 004: 315 intersecting 005: 292 intersecting 006: 233 intersecting 007: 201 intersecting 008: 181 intersecting expanding nbhd size to 2 009: 193 intersecting 010: 160 intersecting 011: 159 intersecting 012: 148 intersecting 013: 137 intersecting 014: 136 intersecting 015: 124 intersecting 016: 123 intersecting expanding nbhd size to 3 017: 123 intersecting 018: 122 intersecting expanding nbhd size to 4 019: 122 intersecting 020: 116 intersecting expanding nbhd size to 5 021: 121 intersecting expanding nbhd size to 6 022: 121 intersecting 023: 113 intersecting 024: 109 intersecting 025: 100 intersecting 026: 93 intersecting 027: 87 intersecting 028: 76 intersecting 029: 70 intersecting 030: 65 intersecting 031: 56 intersecting 032: 46 intersecting 033: 39 intersecting 034: 34 intersecting writing corrected surface to ../surf/lh.orig \n rm ../surf/lh.inflated \n #-------------------------------------------- #@# Make White Surf lh Thu Aug 10 17:02:23 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_make_surfaces -noaparc -whiteonly -mgz -T1 brain.finalsurfs recon0256 lh \n only generating white matter surface 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 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/filled.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/brain.finalsurfs.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... 19800 bright wm thresholded. 2836 bright non-wm voxels segmented. reading original surface position from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.orig... computing class statistics... border white: 360750 voxels (2.15%) border gray 374950 voxels (2.23%) WM (99.0): 99.6 +- 7.0 [70.0 --> 110.0] GM (88.0) : 84.1 +- 14.4 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 68.6 (was 70) setting MAX_BORDER_WHITE to 114.0 (was 105) setting MIN_BORDER_WHITE to 83.0 (was 85) setting MAX_CSF to 54.3 (was 40) setting MAX_GRAY to 100.0 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 75.8 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 39.9 (was 40) repositioning cortical surface to gray/white boundary reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz... smoothing T1 volume with sigma = 2.000 vertex spacing 0.81 +- 0.23 (0.01-->6.33) (max @ vno 33958 --> 162120) face area 0.28 +- 0.14 (0.00-->10.13) mean absolute distance = 0.75 +- 1.16 4556 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... smoothing contralateral hemisphere... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=107, GM=83 mean inside = 98.6, mean outside = 84.2 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group mean border=92.7, 568 (568) missing vertices, mean dist -0.1 [0.9 (%46.5)->0.7 (%53.5))] %52 local maxima, %43 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=jogad, 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 0.87 +- 0.26 (0.07-->6.49) (max @ vno 33958 --> 162120) face area 0.28 +- 0.14 (0.00-->9.49) mean absolute distance = 0.59 +- 0.90 4513 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4471902.0, rms=7.05 001: dt: 0.5000, sse=6065506.5, rms=4.943 (0.000%) 002: dt: 0.5000, sse=6281360.0, rms=3.834 (0.000%) 003: dt: 0.5000, sse=6606753.5, rms=3.303 (0.000%) 004: dt: 0.5000, sse=6618739.0, rms=3.029 (0.000%) 005: dt: 0.5000, sse=6734526.0, rms=2.845 (0.000%) 006: dt: 0.5000, sse=6660962.0, rms=2.728 (0.000%) 007: dt: 0.5000, sse=6747730.0, rms=2.625 (0.000%) rms = 2.58, time step reduction 1 of 3 to 0.250... 008: dt: 0.5000, sse=6661097.5, rms=2.583 (0.000%) 009: dt: 0.2500, sse=4761051.5, rms=2.174 (0.000%) 010: dt: 0.2500, sse=4540437.0, rms=2.061 (0.000%) rms = 2.03, time step reduction 2 of 3 to 0.125... 011: dt: 0.2500, sse=4452940.5, rms=2.031 (0.000%) rms = 2.00, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=4394987.5, rms=1.996 (0.000%) positioning took 1.5 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 2 vertex label from ripped group removing 1 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 4 vertex label from ripped group mean border=94.0, 627 (353) missing vertices, mean dist -0.3 [0.8 (%54.9)->0.3 (%45.1))] %60 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=jogad, 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 0.86 +- 0.26 (0.06-->6.53) (max @ vno 69708 --> 162282) face area 0.32 +- 0.17 (0.00-->11.55) mean absolute distance = 0.52 +- 0.60 4652 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4807975.0, rms=3.82 013: dt: 0.5000, sse=5251097.0, rms=2.854 (0.000%) 014: dt: 0.5000, sse=5878726.0, rms=2.541 (0.000%) 015: dt: 0.5000, sse=6057345.0, rms=2.435 (0.000%) 016: dt: 0.5000, sse=6448857.0, rms=2.371 (0.000%) rms = 2.36, time step reduction 1 of 3 to 0.250... 017: dt: 0.5000, sse=6516072.5, rms=2.360 (0.000%) 018: dt: 0.2500, sse=5023394.5, rms=1.948 (0.000%) 019: dt: 0.2500, sse=4786944.5, rms=1.854 (0.000%) rms = 1.84, time step reduction 2 of 3 to 0.125... 020: dt: 0.2500, sse=4693482.0, rms=1.835 (0.000%) rms = 1.82, time step reduction 3 of 3 to 0.062... 021: dt: 0.1250, sse=4663680.0, rms=1.820 (0.000%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 3 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group removing 1 vertex label from ripped group mean border=96.7, 704 (285) missing vertices, mean dist -0.4 [0.6 (%72.7)->0.3 (%27.3))] %79 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=jogad, 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 0.84 +- 0.27 (0.05-->6.76) (max @ vno 69708 --> 162282) face area 0.31 +- 0.17 (0.00-->11.58) mean absolute distance = 0.33 +- 0.43 5494 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=5033530.5, rms=4.01 022: dt: 0.5000, sse=5107955.0, rms=2.653 (0.000%) 023: dt: 0.5000, sse=5765968.5, rms=2.240 (0.000%) 024: dt: 0.5000, sse=5898706.5, rms=2.140 (0.000%) rms = 2.16, time step reduction 1 of 3 to 0.250... 025: dt: 0.2500, sse=5079154.5, rms=1.867 (0.000%) 026: dt: 0.2500, sse=4791530.5, rms=1.734 (0.000%) rms = 1.71, time step reduction 2 of 3 to 0.125... 027: dt: 0.2500, sse=4667642.0, rms=1.710 (0.000%) rms = 1.69, time step reduction 3 of 3 to 0.062... 028: dt: 0.1250, sse=4605974.0, rms=1.687 (0.000%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 4 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 removing 1 vertex label from ripped group mean border=97.6, 693 (228) missing vertices, mean dist -0.1 [0.4 (%63.1)->0.3 (%36.9))] %85 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=jogad, 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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=4645192.5, rms=2.21 029: dt: 0.5000, sse=5644042.0, rms=1.723 (0.000%) rms = 1.90, time step reduction 1 of 3 to 0.250... 030: dt: 0.2500, sse=5161994.0, rms=1.580 (0.000%) rms = 1.56, time step reduction 2 of 3 to 0.125... 031: dt: 0.2500, sse=4958982.5, rms=1.556 (0.000%) rms = 1.52, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=4940041.5, rms=1.522 (0.000%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 3 vertex label from ripped group removing 1 vertex label from ripped group generating cortex label... 13 non-cortical segments detected only using segment with 2677 vertices erasing segment 1 (vno[0] = 64799) erasing segment 2 (vno[0] = 66104) erasing segment 3 (vno[0] = 72195) erasing segment 4 (vno[0] = 82489) erasing segment 5 (vno[0] = 113582) erasing segment 6 (vno[0] = 114662) erasing segment 7 (vno[0] = 115730) erasing segment 8 (vno[0] = 115778) erasing segment 9 (vno[0] = 115809) erasing segment 10 (vno[0] = 119147) erasing segment 11 (vno[0] = 121345) erasing segment 12 (vno[0] = 164450) writing cortex label to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.cortex.label... writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.curv writing smoothed area to lh.area writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.area vertex spacing 0.84 +- 0.27 (0.04-->6.79) (max @ vno 69708 --> 162282) face area 0.30 +- 0.17 (0.00-->10.87) refinement took 6.5 minutes #-------------------------------------------- #@# Smooth2 lh Thu Aug 10 17:08:55 BRT 2017 \n mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white ../surf/lh.smoothwm \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts 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... #-------------------------------------------- #@# Inflation2 lh Thu Aug 10 17:09:00 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated \n avg radius = 49.7 mm, total surface area = 89122 mm^2 writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc step 000: RMS=0.110 (target=0.015) step 005: RMS=0.079 (target=0.015) step 010: RMS=0.059 (target=0.015) step 015: RMS=0.048 (target=0.015) step 020: RMS=0.040 (target=0.015) step 025: RMS=0.033 (target=0.015) step 030: RMS=0.027 (target=0.015) step 035: RMS=0.024 (target=0.015) step 040: RMS=0.022 (target=0.015) step 045: RMS=0.019 (target=0.015) step 050: RMS=0.017 (target=0.015) step 055: RMS=0.016 (target=0.015) inflation complete. inflation took 0.4 minutes \n mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 ../surf/lh.inflated \n normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 206 vertices thresholded to be in k1 ~ [-0.22 1.29], k2 ~ [-0.16 0.06] total integrated curvature = 0.421*4pi (5.288) --> 1 handles ICI = 1.6, FI = 10.6, variation=183.067 155 vertices thresholded to be in [-0.02 0.02] writing Gaussian curvature to ../surf/lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 152 vertices thresholded to be in [-0.15 0.39] done. writing mean curvature to ../surf/lh.inflated.H...curvature mean = -0.015, std = 0.025 done. \n#----------------------------------------- #@# Curvature Stats lh Thu Aug 10 17:10:37 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf \n mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm recon0256 lh curv sulc \n Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ recon0256/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 [ 299 ] Gb_filter = 0 WARN: S lookup min: -0.053984 WARN: S explicit min: 0.000000 vertex = 1604 #-------------------------------------------- #@# Sphere lh Thu Aug 10 17:10:44 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere \n setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... scaling brain by 0.304... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=jogad, 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 %19.18 pass 1: epoch 2 of 3 starting distance error %19.10 unfolding complete - removing small folds... starting distance error %19.06 removing remaining folds... final distance error %19.06 MRISunfold() return, current seed 1234 writing spherical brain to ../surf/lh.sphere spherical transformation took 0.54 hours #-------------------------------------------- #@# Surf Reg lh Thu Aug 10 17:42:51 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_register -curv ../surf/lh.sphere /Applications/freesurfer/average/lh.average.curvature.filled.buckner40.tif ../surf/lh.sphere.reg \n using smoothwm curvature for final alignment $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading surface from ../surf/lh.sphere... reading template parameterization from /Applications/freesurfer/average/lh.average.curvature.filled.buckner40.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=jogad, 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=jogad, 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 = 0.562 curvature mean = 0.004, std = 0.931 curvature mean = 0.034, std = 0.843 Starting MRISrigidBodyAlignGlobal() d=32.00 min @ (0.00, -8.00, 0.00) sse = 291743.3, tmin=1.5101 d=16.00 min @ (0.00, 0.00, -4.00) sse = 266203.0, tmin=2.2859 d=4.00 min @ (0.00, 0.00, 1.00) sse = 265817.3, tmin=3.8233 d=2.00 min @ (0.50, 0.00, -0.50) sse = 264905.9, tmin=4.6048 d=1.00 min @ (-0.25, -0.25, 0.00) sse = 264693.5, tmin=5.3941 d=0.50 min @ (0.12, 0.00, 0.00) sse = 264676.4, tmin=6.1730 tol=1.0e+00, sigma=0.5, host=jogad, 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 6.17 min curvature mean = -0.032, std = 0.932 curvature mean = 0.016, std = 0.931 curvature mean = -0.037, std = 0.940 curvature mean = 0.007, std = 0.968 curvature mean = -0.042, std = 0.938 curvature mean = 0.002, std = 0.984 2 Reading smoothwm curvature mean = -0.031, std = 0.297 curvature mean = 0.000, std = 0.065 curvature mean = 0.067, std = 0.329 curvature mean = 0.000, std = 0.078 curvature mean = 0.027, std = 0.508 curvature mean = 0.000, std = 0.083 curvature mean = 0.014, std = 0.645 curvature mean = 0.000, std = 0.086 curvature mean = 0.006, std = 0.748 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... expanding nbhd size to 1 #-------------------------------------------- #@# Jacobian white lh Thu Aug 10 18:02:40 BRT 2017 \n mris_jacobian ../surf/lh.white ../surf/lh.sphere.reg ../surf/lh.jacobian_white \n reading surface from ../surf/lh.white... writing curvature file ../surf/lh.jacobian_white #-------------------------------------------- #@# AvgCurv lh Thu Aug 10 18:02:43 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mrisp_paint -a 5 /Applications/freesurfer/average/lh.average.curvature.filled.buckner40.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv \n averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /Applications/freesurfer/average/lh.average.curvature.filled.buckner40.tif... writing curvature file to ../surf/lh.avg_curv... #----------------------------------------- #@# Cortical Parc lh Thu Aug 10 18:02:44 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.mgz -seed 1234 recon0256 lh ../surf/lh.sphere.reg /Applications/freesurfer/average/lh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs ../label/lh.aparc.annot \n setting seed for random number generator to 1234 using ../mri/aseg.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading atlas from /Applications/freesurfer/average/lh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs... reading color table from GCSA file.... average std = 1.0 using min determinant for regularization = 0.011 0 singular and 384 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 999 labels changed using aseg relabeling using gibbs priors... 000: 3397 changed, 164658 examined... 001: 805 changed, 14537 examined... 002: 197 changed, 4376 examined... 003: 67 changed, 1207 examined... 004: 22 changed, 397 examined... 005: 10 changed, 103 examined... 006: 5 changed, 55 examined... 007: 1 changed, 30 examined... 008: 1 changed, 10 examined... 009: 0 changed, 5 examined... 233 labels changed using aseg 000: 111 total segments, 69 labels (323 vertices) changed 001: 44 total segments, 4 labels (6 vertices) changed 002: 40 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 42 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 2030 vertices marked for relabeling... 2030 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 48 seconds. #-------------------------------------------- #@# Make Pial Surf lh Thu Aug 10 18:03:32 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_make_surfaces -white NOWRITE -mgz -T1 brain.finalsurfs recon0256 lh \n -white NOWRITE indicates that white, curv, area, and cortex.label files will not be written... INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/filled.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/brain.finalsurfs.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... 19800 bright wm thresholded. 2836 bright non-wm voxels segmented. reading original surface position from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.orig... computing class statistics... border white: 360750 voxels (2.15%) border gray 374950 voxels (2.23%) WM (99.0): 99.6 +- 7.0 [70.0 --> 110.0] GM (88.0) : 84.1 +- 14.4 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 68.6 (was 70) setting MAX_BORDER_WHITE to 114.0 (was 105) setting MIN_BORDER_WHITE to 83.0 (was 85) setting MAX_CSF to 54.3 (was 40) setting MAX_GRAY to 100.0 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 75.8 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 39.9 (was 40) smoothing contralateral hemisphere... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=107, GM=83 mean inside = 98.6, mean outside = 84.2 smoothing surface for 5 iterations... reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) repositioning cortical surface to gray/white boundary reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz... smoothing T1 volume with sigma = 2.000 vertex spacing 0.81 +- 0.23 (0.01-->6.33) (max @ vno 33958 --> 162120) face area 0.28 +- 0.14 (0.00-->10.13) mean absolute distance = 0.75 +- 1.16 4627 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... deleting segment 0 with 51 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 1 with 4 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 2 with 4 points - only 0.00% unknown deleting segment 4 with 104 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 5 with 4 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 7 with 43 points - only 0.00% unknown deleting segment 8 with 112 points - only 0.00% unknown deleting segment 11 with 106 points - only 0.00% unknown mean border=92.7, 569 (569) missing vertices, mean dist -0.1 [0.9 (%46.5)->0.7 (%53.5))] %52 local maxima, %43 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=jogad, 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 0.87 +- 0.26 (0.07-->6.49) (max @ vno 33958 --> 162120) face area 0.28 +- 0.14 (0.00-->9.49) mean absolute distance = 0.59 +- 0.90 4521 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4489341.0, rms=7.07 001: dt: 0.5000, sse=6088338.5, rms=4.958 (0.000%) 002: dt: 0.5000, sse=6304427.0, rms=3.850 (0.000%) 003: dt: 0.5000, sse=6626349.5, rms=3.320 (0.000%) 004: dt: 0.5000, sse=6639050.5, rms=3.046 (0.000%) 005: dt: 0.5000, sse=6752248.5, rms=2.861 (0.000%) 006: dt: 0.5000, sse=6679157.5, rms=2.740 (0.000%) 007: dt: 0.5000, sse=6765333.0, rms=2.634 (0.000%) rms = 2.59, time step reduction 1 of 3 to 0.250... 008: dt: 0.5000, sse=6679177.0, rms=2.589 (0.000%) 009: dt: 0.2500, sse=4774055.5, rms=2.179 (0.000%) 010: dt: 0.2500, sse=4552491.0, rms=2.064 (0.000%) rms = 2.03, time step reduction 2 of 3 to 0.125... 011: dt: 0.2500, sse=4464312.0, rms=2.033 (0.000%) rms = 2.00, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=4406536.0, rms=1.997 (0.000%) positioning took 1.5 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 51 points - only 0.00% unknown deleting segment 1 with 5 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 2 with 4 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 3 with 4 points - only 0.00% unknown deleting segment 10 with 69 points - only 0.00% unknown deleting segment 11 with 8 points - only 0.00% unknown removing 1 vertex label from ripped group removing 2 vertex label from ripped group removing 3 vertex label from ripped group deleting segment 16 with 25 points - only 0.00% unknown deleting segment 17 with 12 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 18 with 4 points - only 25.00% unknown deleting segment 20 with 66 points - only 0.00% unknown deleting segment 22 with 8 points - only 0.00% unknown deleting segment 24 with 159 points - only 0.00% unknown mean border=94.0, 626 (353) missing vertices, mean dist -0.3 [0.8 (%54.9)->0.3 (%45.1))] %60 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=jogad, 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 0.86 +- 0.26 (0.06-->6.53) (max @ vno 69708 --> 162282) face area 0.32 +- 0.17 (0.00-->11.55) mean absolute distance = 0.52 +- 0.60 4665 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4824776.0, rms=3.82 013: dt: 0.5000, sse=5264597.0, rms=2.855 (0.000%) 014: dt: 0.5000, sse=5895452.5, rms=2.542 (0.000%) 015: dt: 0.5000, sse=6070900.5, rms=2.436 (0.000%) 016: dt: 0.5000, sse=6462813.0, rms=2.371 (0.000%) rms = 2.36, time step reduction 1 of 3 to 0.250... 017: dt: 0.5000, sse=6530059.5, rms=2.360 (0.000%) 018: dt: 0.2500, sse=5031505.5, rms=1.947 (0.000%) 019: dt: 0.2500, sse=4794495.5, rms=1.855 (0.000%) rms = 1.84, time step reduction 2 of 3 to 0.125... 020: dt: 0.2500, sse=4702167.0, rms=1.836 (0.000%) rms = 1.82, time step reduction 3 of 3 to 0.062... 021: dt: 0.1250, sse=4668144.5, rms=1.821 (0.000%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 59 points - only 0.00% unknown deleting segment 1 with 5 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 2 with 2 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 3 with 3 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 7 with 4 points - only 25.00% unknown deleting segment 8 with 128 points - only 0.00% unknown deleting segment 10 with 17 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 12 with 37 points - only 0.00% unknown deleting segment 13 with 101 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 15 with 8 points - only 0.00% unknown deleting segment 16 with 148 points - only 0.00% unknown mean border=96.7, 700 (285) missing vertices, mean dist -0.4 [0.6 (%72.7)->0.3 (%27.3))] %79 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=jogad, 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 0.84 +- 0.27 (0.05-->6.76) (max @ vno 69708 --> 162282) face area 0.31 +- 0.17 (0.00-->11.57) mean absolute distance = 0.33 +- 0.43 5521 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=5043618.0, rms=4.02 022: dt: 0.5000, sse=5115066.5, rms=2.660 (0.000%) 023: dt: 0.5000, sse=5758757.5, rms=2.246 (0.000%) 024: dt: 0.5000, sse=5913766.0, rms=2.148 (0.000%) rms = 2.17, time step reduction 1 of 3 to 0.250... 025: dt: 0.2500, sse=5089739.5, rms=1.876 (0.000%) 026: dt: 0.2500, sse=4800613.5, rms=1.739 (0.000%) rms = 1.72, time step reduction 2 of 3 to 0.125... 027: dt: 0.2500, sse=4683257.0, rms=1.718 (0.000%) rms = 1.69, time step reduction 3 of 3 to 0.062... 028: dt: 0.1250, sse=4615977.0, rms=1.693 (0.000%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 49 points - only 0.00% unknown deleting segment 1 with 5 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 2 with 4 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 3 with 4 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 4 with 4 points - only 25.00% unknown deleting segment 5 with 10 points - only 0.00% unknown deleting segment 6 with 139 points - only 0.00% unknown deleting segment 7 with 20 points - only 0.00% unknown deleting segment 8 with 57 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 10 with 157 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 13 with 17 points - only 0.00% unknown deleting segment 14 with 125 points - only 0.00% unknown mean border=97.6, 700 (229) missing vertices, mean dist -0.1 [0.4 (%63.1)->0.3 (%36.9))] %85 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=jogad, 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 repositioning cortical surface to gray/csf boundary. smoothing T1 volume with sigma = 2.000 averaging target values for 5 iterations... 000: dt: 0.0000, sse=4657964.5, rms=2.22 029: dt: 0.5000, sse=5660276.0, rms=1.736 (0.000%) rms = 1.92, time step reduction 1 of 3 to 0.250... 030: dt: 0.2500, sse=5176617.0, rms=1.595 (0.000%) rms = 1.57, time step reduction 2 of 3 to 0.125... 031: dt: 0.2500, sse=4974929.0, rms=1.572 (0.000%) rms = 1.54, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=4954346.5, rms=1.539 (0.000%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group deleting segment 1 with 4 points - only 25.00% unknown removing 3 vertex label from ripped group smoothing surface for 5 iterations... mean border=70.4, 473 (473) missing vertices, mean dist 1.8 [1.6 (%0.2)->2.7 (%99.8))] %23 local maxima, %41 large gradients and %32 min vals, 995 gradients ignored tol=1.0e-04, sigma=2.0, host=jogad, 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=27329522.0, rms=28.06 001: dt: 0.5000, sse=22759478.0, rms=25.328 (0.000%) 002: dt: 0.5000, sse=18910364.0, rms=22.773 (0.000%) 003: dt: 0.5000, sse=15819846.0, rms=20.452 (0.000%) 004: dt: 0.5000, sse=13471189.0, rms=18.357 (0.000%) 005: dt: 0.5000, sse=11806445.0, rms=16.433 (0.000%) 006: dt: 0.5000, sse=10534587.0, rms=14.517 (0.000%) 007: dt: 0.5000, sse=9461660.0, rms=12.506 (0.000%) 008: dt: 0.5000, sse=8760262.0, rms=10.509 (0.000%) 009: dt: 0.5000, sse=8312198.0, rms=8.690 (0.000%) 010: dt: 0.5000, sse=8263673.5, rms=7.352 (0.000%) 011: dt: 0.5000, sse=8315726.5, rms=6.467 (0.000%) 012: dt: 0.5000, sse=8473790.0, rms=6.016 (0.000%) 013: dt: 0.5000, sse=8566660.0, rms=5.720 (0.000%) 014: dt: 0.5000, sse=8677292.0, rms=5.602 (0.000%) 015: dt: 0.5000, sse=8707961.0, rms=5.471 (0.000%) rms = 5.43, time step reduction 1 of 3 to 0.250... 016: dt: 0.5000, sse=8767895.0, rms=5.429 (0.000%) 017: dt: 0.2500, sse=5704915.0, rms=4.365 (0.000%) 018: dt: 0.2500, sse=5514852.5, rms=4.111 (0.000%) rms = 4.08, time step reduction 2 of 3 to 0.125... 019: dt: 0.2500, sse=5303711.5, rms=4.083 (0.000%) 020: dt: 0.1250, sse=4775721.0, rms=3.730 (0.000%) 021: dt: 0.1250, sse=4721002.5, rms=3.671 (0.000%) rms = 3.66, time step reduction 3 of 3 to 0.062... 022: dt: 0.1250, sse=4695733.5, rms=3.663 (0.000%) positioning took 2.7 minutes mean border=69.3, 1983 (157) missing vertices, mean dist 0.1 [0.2 (%52.5)->0.6 (%47.5))] %40 local maxima, %28 large gradients and %27 min vals, 551 gradients ignored tol=1.0e-04, sigma=1.0, host=jogad, 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=5119312.5, rms=4.61 rms = 5.04, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=4934613.0, rms=4.134 (0.000%) 024: dt: 0.2500, sse=4993689.0, rms=3.894 (0.000%) rms = 3.91, time step reduction 2 of 3 to 0.125... 025: dt: 0.1250, sse=4891202.5, rms=3.811 (0.000%) 026: dt: 0.1250, sse=4790074.0, rms=3.684 (0.000%) rms = 3.64, time step reduction 3 of 3 to 0.062... 027: dt: 0.1250, sse=4795323.5, rms=3.636 (0.000%) positioning took 0.8 minutes mean border=68.4, 2543 (151) missing vertices, mean dist 0.1 [0.2 (%45.7)->0.4 (%54.3))] %53 local maxima, %14 large gradients and %27 min vals, 633 gradients ignored tol=1.0e-04, sigma=0.5, host=jogad, 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=4907177.5, rms=4.09 rms = 4.93, time step reduction 1 of 3 to 0.250... 028: dt: 0.2500, sse=4796372.0, rms=3.694 (0.000%) 029: dt: 0.2500, sse=5021130.0, rms=3.635 (0.000%) rms = 3.71, time step reduction 2 of 3 to 0.125... 030: dt: 0.1250, sse=4946415.0, rms=3.570 (0.000%) 031: dt: 0.1250, sse=4906372.5, rms=3.487 (0.000%) rms = 3.46, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=4928300.0, rms=3.459 (0.000%) positioning took 0.8 minutes mean border=67.7, 4743 (141) missing vertices, mean dist 0.1 [0.2 (%50.8)->0.3 (%49.2))] %55 local maxima, %12 large gradients and %26 min vals, 589 gradients ignored tol=1.0e-04, sigma=0.2, host=jogad, 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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial... writing smoothed curvature to lh.curv.pial 000: dt: 0.0000, sse=4956909.5, rms=3.58 rms = 4.33, time step reduction 1 of 3 to 0.250... 033: dt: 0.2500, sse=4910218.5, rms=3.391 (0.000%) 034: dt: 0.2500, sse=5279108.5, rms=3.331 (0.000%) rms = 3.40, time step reduction 2 of 3 to 0.125... 035: dt: 0.1250, sse=5210128.5, rms=3.280 (0.000%) 036: dt: 0.1250, sse=5143823.5, rms=3.212 (0.000%) rms = 3.18, time step reduction 3 of 3 to 0.062... 037: dt: 0.1250, sse=5157545.5, rms=3.175 (0.000%) positioning took 0.8 minutes writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.curv.pial writing smoothed area to lh.area.pial writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.area.pial vertex spacing 0.90 +- 0.36 (0.02-->8.31) (max @ vno 68626 --> 68613) face area 0.33 +- 0.24 (0.00-->12.28) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 164658 vertices processed 25000 of 164658 vertices processed 50000 of 164658 vertices processed 75000 of 164658 vertices processed 100000 of 164658 vertices processed 125000 of 164658 vertices processed 150000 of 164658 vertices processed 0 of 164658 vertices processed 25000 of 164658 vertices processed 50000 of 164658 vertices processed 75000 of 164658 vertices processed 100000 of 164658 vertices processed 125000 of 164658 vertices processed 150000 of 164658 vertices processed thickness calculation complete, 52:310 truncations. 52952 vertices at 0 distance 131545 vertices at 1 distance 85583 vertices at 2 distance 31658 vertices at 3 distance 10046 vertices at 4 distance 2830 vertices at 5 distance 760 vertices at 6 distance 236 vertices at 7 distance 87 vertices at 8 distance 36 vertices at 9 distance 26 vertices at 10 distance 19 vertices at 11 distance 12 vertices at 12 distance 13 vertices at 13 distance 4 vertices at 14 distance 2 vertices at 15 distance 4 vertices at 16 distance 2 vertices at 17 distance 6 vertices at 18 distance 7 vertices at 19 distance 20 vertices at 20 distance writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.thickness positioning took 12.1 minutes #-------------------------------------------- #@# Surf Volume lh Thu Aug 10 18:15:37 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf \n mris_calc -o lh.area.mid lh.area add lh.area.pial \n Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] \n mris_calc -o lh.area.mid lh.area.mid div 2 \n Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] \n mris_calc -o lh.volume lh.area.mid mul lh.thickness \n Saving result to 'lh.volume' (type = MRI_CURV_FILE) [ ok ] #----------------------------------------- #@# WM/GM Contrast lh Thu Aug 10 18:15:37 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n pctsurfcon --s recon0256 --lh-only \n Log file is /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts/pctsurfcon.log Thu Aug 10 18:15:37 BRT 2017 setenv SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores cd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts /Applications/freesurfer/bin/pctsurfcon $Id: pctsurfcon,v 1.11.2.1 2011/11/10 20:37:10 nicks Exp $ Darwin jogadores-02.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 FREESURFER_HOME /Applications/freesurfer mri_vol2surf --mov /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.46181/lh.wm.mgh --regheader recon0256 --cortex srcvol = /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz as target reference. Loading label /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.cortex.label Reading surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 = 84315 Masking with /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.cortex.label Writing to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.46181/lh.wm.mgh Dim: 164658 1 1 mri_vol2surf --mov /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.46181/lh.gm.mgh --projfrac 0.3 --regheader recon0256 --cortex srcvol = /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz as target reference. Loading label /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.cortex.label Reading surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Done reading source surface Reading thickness /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 = 99637 Masking with /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.cortex.label Writing to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.46181/lh.gm.mgh Dim: 164658 1 1 mri_concat /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.46181/lh.wm.mgh /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.46181/lh.gm.mgh --paired-diff-norm --mul 100 --o /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.w-g.pct.mgh mri_segstats --in /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.w-g.pct.mgh --annot recon0256 lh aparc --sum /Users/jogadores/Desktop/volumetria_jogadores/recon0256/stats/lh.w-g.pct.stats --snr $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ cwd cmdline mri_segstats --in /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.w-g.pct.mgh --annot recon0256 lh aparc --sum /Users/jogadores/Desktop/volumetria_jogadores/recon0256/stats/lh.w-g.pct.stats --snr sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores UseRobust 0 Constructing seg from annotation Reading annotation reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Seg base 1000 Loading /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.w-g.pct.mgh Vertex Area is 0.59207 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation 0 1000 unknown 0 0.000 1 1001 bankssts 1400 894.211 2 1002 caudalanteriorcingulate 818 536.294 3 1003 caudalmiddlefrontal 4361 2642.153 4 1004 corpuscallosum 0 0.000 5 1005 cuneus 2576 1570.962 6 1006 entorhinal 758 481.918 7 1007 fusiform 6683 3971.505 8 1008 inferiorparietal 8467 4728.538 9 1009 inferiortemporal 6608 3997.845 10 1010 isthmuscingulate 1618 959.998 11 1011 lateraloccipital 9421 5601.152 12 1012 lateralorbitofrontal 5608 3270.187 13 1013 lingual 4624 2917.524 14 1014 medialorbitofrontal 3800 2345.284 15 1015 middletemporal 5233 3268.023 16 1016 parahippocampal 898 588.712 17 1017 paracentral 2588 1557.870 18 1018 parsopercularis 2835 1522.231 19 1019 parsorbitalis 1297 711.340 20 1020 parstriangularis 2409 1292.296 21 1021 pericalcarine 1698 1355.350 22 1022 postcentral 6823 4164.209 23 1023 posteriorcingulate 1591 1033.081 24 1024 precentral 8601 5418.568 25 1025 precuneus 6595 3887.848 26 1026 rostralanteriorcingulate 1377 872.845 27 1027 rostralmiddlefrontal 11955 6388.512 28 1028 superiorfrontal 13177 7586.636 29 1029 superiorparietal 11511 6565.550 30 1030 superiortemporal 6535 3833.314 31 1031 supramarginal 6641 3551.553 32 1032 frontalpole 294 136.758 33 1033 temporalpole 851 466.779 34 1034 transversetemporal 1096 643.623 35 1035 insula 3812 2339.100 Reporting on 34 segmentations mri_segstats done Cleaning up #----------------------------------------- #@# Parcellation Stats lh Thu Aug 10 18:15:44 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_anatomical_stats -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab recon0256 lh white \n computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/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 1400 894 2317 2.454 0.400 0.106 0.045 17 2.9 bankssts 818 536 1301 2.368 0.473 0.169 0.053 23 1.8 caudalanteriorcingulate 4361 2642 5700 2.137 0.478 0.145 0.072 76 14.2 caudalmiddlefrontal 2576 1571 2334 1.418 0.476 0.165 0.078 77 9.0 cuneus 758 482 1754 2.965 0.618 0.150 0.107 35 2.8 entorhinal 6683 3971 10892 2.409 0.648 0.151 0.153 193 28.4 fusiform 8467 4729 11812 2.340 0.456 0.128 0.184 294 100.9 inferiorparietal 6608 3998 11419 2.534 0.701 0.155 0.096 191 25.9 inferiortemporal 1618 960 2235 2.271 0.658 0.140 0.069 31 5.0 isthmuscingulate 9421 5601 10116 1.769 0.552 0.158 0.086 199 40.1 lateraloccipital 5608 3270 7699 2.283 0.558 0.151 0.085 119 20.8 lateralorbitofrontal 4624 2918 4727 1.578 0.517 0.172 0.074 86 14.6 lingual 3800 2345 5492 2.231 0.632 0.165 0.239 244 19.0 medialorbitofrontal 5233 3268 10562 2.785 0.585 0.138 0.079 203 15.9 middletemporal 898 589 1774 2.744 0.863 0.152 0.060 21 2.4 parahippocampal 2588 1558 3292 1.997 0.548 0.140 0.082 78 8.6 paracentral 2835 1522 4021 2.375 0.410 0.123 0.097 70 8.2 parsopercularis 1297 711 2213 2.471 0.593 0.158 0.104 77 6.9 parsorbitalis 2409 1292 3205 2.340 0.415 0.127 0.157 73 22.2 parstriangularis 1698 1355 1473 1.205 0.257 0.232 0.097 86 6.6 pericalcarine 6823 4164 7934 1.718 0.657 0.139 0.064 119 19.9 postcentral 1591 1033 2574 2.317 0.463 0.157 0.060 28 3.9 posteriorcingulate 8601 5419 11384 1.994 0.744 0.147 0.072 149 30.0 precentral 6595 3888 9028 2.216 0.415 0.135 0.189 160 17.7 precuneus 1377 873 2241 2.367 0.609 0.144 0.077 29 5.2 rostralanteriorcingulate 11955 6389 13688 2.038 0.558 0.190 0.337 1374 135.2 rostralmiddlefrontal 13177 7587 19599 2.447 0.533 0.152 0.189 1405 99.5 superiorfrontal 11511 6566 13322 1.970 0.485 0.145 0.121 988 80.8 superiorparietal 6535 3833 9745 2.338 0.646 0.128 0.061 147 17.3 superiortemporal 6641 3552 9043 2.377 0.537 0.121 0.072 173 21.8 supramarginal 294 137 404 2.106 0.434 0.166 0.111 46 1.8 frontalpole 851 467 1806 3.073 0.557 0.154 0.119 31 4.1 temporalpole 1096 644 1011 1.468 0.345 0.136 0.060 17 3.0 transversetemporal 3812 2339 5901 2.574 0.607 0.135 0.084 88 10.7 insula #----------------------------------------- #@# Cortical Parc 2 lh Thu Aug 10 18:16:04 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.mgz -seed 1234 recon0256 lh ../surf/lh.sphere.reg /Applications/freesurfer/average/lh.destrieux.simple.2009-07-29.gcs ../label/lh.aparc.a2009s.annot \n setting seed for random number generator to 1234 using ../mri/aseg.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading atlas from /Applications/freesurfer/average/lh.destrieux.simple.2009-07-29.gcs... reading color table from GCSA file.... average std = 3.9 0.2 using min determinant for regularization = 0.000 0 singular and 1066 ill-conditioned covariance matrices regularized input 1: CURVATURE FILE, flags 0, avgs 0, name sulc input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 106 labels changed using aseg relabeling using gibbs priors... 000: 10834 changed, 164658 examined... 001: 2608 changed, 41353 examined... 002: 790 changed, 13327 examined... 003: 323 changed, 4527 examined... 004: 167 changed, 1910 examined... 005: 75 changed, 941 examined... 006: 46 changed, 431 examined... 007: 30 changed, 268 examined... 008: 20 changed, 155 examined... 009: 16 changed, 103 examined... 010: 5 changed, 86 examined... 011: 1 changed, 28 examined... 012: 0 changed, 5 examined... 42 labels changed using aseg 000: 328 total segments, 242 labels (3113 vertices) changed 001: 99 total segments, 15 labels (114 vertices) changed 002: 85 total segments, 2 labels (108 vertices) changed 003: 83 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 157 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1131 vertices marked for relabeling... 1131 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 1 minutes and 3 seconds. #----------------------------------------- #@# Parcellation Stats 2 lh Thu Aug 10 18:17:07 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_anatomical_stats -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 recon0256 lh white \n computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. reading colortable from annotation file... colortable with 76 entries read (originally /autofs/space/birn_044/users/christophe_atlas_rebuild//scripts_2008/Simple_surface_labels2009.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 1350 777 1694 2.038 0.471 0.152 0.095 67 5.6 G_and_S_frontomargin 2223 1282 2971 1.998 0.712 0.145 0.067 39 6.5 G_and_S_occipital_inf 1828 1119 2533 1.813 0.686 0.125 0.053 22 4.6 G_and_S_paracentral 2205 1170 2865 2.290 0.419 0.129 0.078 54 8.2 G_and_S_subcentral 919 447 1106 2.140 0.447 0.128 0.058 16 2.3 G_and_S_transv_frontopol 2326 1527 3829 2.440 0.503 0.140 0.062 38 6.5 G_and_S_cingul-Ant 1045 745 1758 2.293 0.421 0.147 0.042 15 1.9 G_and_S_cingul-Mid-Ant 1278 882 1985 2.184 0.418 0.148 0.086 58 3.1 G_and_S_cingul-Mid-Post 687 407 1184 2.476 0.438 0.155 0.060 12 1.7 G_cingul-Post-dorsal 397 212 567 2.353 0.799 0.136 0.088 9 1.5 G_cingul-Post-ventral 2058 1319 1943 1.310 0.429 0.158 0.065 31 5.4 G_cuneus 1652 799 2621 2.474 0.391 0.135 0.104 56 7.1 G_front_inf-Opercular 488 221 697 2.295 0.357 0.141 0.092 15 2.5 G_front_inf-Orbital 1654 727 2374 2.502 0.396 0.133 0.263 91 21.4 G_front_inf-Triangul 6964 3538 8218 1.968 0.634 0.215 0.479 1065 110.0 G_front_middle 9741 5312 14886 2.465 0.563 0.161 0.237 1343 89.9 G_front_sup 649 329 1052 2.785 0.442 0.135 0.105 27 2.7 G_Ins_lg_and_S_cent_ins 889 482 1789 2.932 0.581 0.149 0.083 22 3.2 G_insular_short 2969 1473 4087 2.289 0.538 0.135 0.077 74 8.6 G_occipital_middle 2209 1334 2245 1.626 0.473 0.169 0.077 48 7.2 G_occipital_sup 3200 1750 5300 2.488 0.600 0.157 0.253 141 19.6 G_oc-temp_lat-fusifor 3494 2177 3714 1.565 0.552 0.178 0.079 70 12.0 G_oc-temp_med-Lingual 1307 830 3196 2.993 0.742 0.160 0.092 48 4.6 G_oc-temp_med-Parahip 3598 1972 5593 2.310 0.604 0.166 0.135 156 19.2 G_orbital 3127 1415 4095 2.343 0.462 0.131 0.403 212 88.6 G_pariet_inf-Angular 3554 1750 5555 2.558 0.521 0.124 0.095 143 16.7 G_pariet_inf-Supramar 4964 2620 6268 2.073 0.490 0.147 0.086 164 19.1 G_parietal_sup 2673 1623 3329 1.641 0.673 0.156 0.072 50 8.7 G_postcentral 3560 2115 5481 2.081 0.854 0.146 0.092 74 17.0 G_precentral 3521 1917 5388 2.334 0.414 0.146 0.321 133 12.6 G_precuneus 1183 692 2098 2.352 0.454 0.170 0.089 33 4.2 G_rectus 864 538 1164 2.160 0.798 0.210 0.820 185 11.6 G_subcallosal 824 462 825 1.544 0.364 0.141 0.068 15 2.6 G_temp_sup-G_T_transv 2507 1316 4529 2.549 0.613 0.133 0.072 93 8.6 G_temp_sup-Lateral 864 555 1624 2.843 0.593 0.103 0.033 5 1.2 G_temp_sup-Plan_polar 1287 692 1637 2.234 0.507 0.122 0.079 27 3.4 G_temp_sup-Plan_tempo 3886 2199 7547 2.575 0.786 0.168 0.134 168 21.3 G_temporal_inf 3347 1999 7775 2.965 0.529 0.141 0.093 171 11.2 G_temporal_middle 385 254 435 2.036 0.279 0.115 0.035 2 0.6 Lat_Fis-ant-Horizont 363 241 429 2.048 0.446 0.109 0.027 2 0.4 Lat_Fis-ant-Vertical 1347 865 1391 1.983 0.574 0.134 0.054 14 2.6 Lat_Fis-post 2891 1769 2829 1.509 0.469 0.178 0.128 73 21.4 Pole_occipital 2196 1289 4532 2.913 0.684 0.162 0.107 63 9.6 Pole_temporal 2445 1785 2337 1.527 0.562 0.199 0.082 101 8.3 S_calcarine 2911 2100 2393 1.273 0.381 0.155 0.054 35 6.9 S_central 1170 737 1437 2.140 0.397 0.121 0.036 11 1.9 S_cingul-Marginalis 756 459 1041 2.696 0.376 0.121 0.057 8 2.3 S_circular_insula_ant 1487 1011 2010 2.333 0.660 0.113 0.032 13 2.0 S_circular_insula_inf 1947 1279 2535 2.347 0.381 0.114 0.039 20 3.2 S_circular_insula_sup 1178 801 1750 2.421 0.521 0.137 0.045 13 2.2 S_collat_transv_ant 430 273 329 1.434 0.359 0.169 0.064 6 1.2 S_collat_transv_post 2429 1396 2785 2.199 0.365 0.125 0.055 38 5.4 S_front_inf 2713 1626 3218 2.138 0.461 0.178 0.185 252 18.1 S_front_middle 4141 2420 5050 2.278 0.435 0.135 0.086 104 17.5 S_front_sup 296 165 282 2.074 0.584 0.127 0.044 3 0.5 S_interm_prim-Jensen 4264 2565 4808 2.093 0.378 0.126 0.186 779 54.5 S_intrapariet_and_P_trans 1134 735 1063 1.650 0.415 0.145 0.072 18 3.5 S_oc_middle_and_Lunatus 1263 823 1405 1.873 0.386 0.151 0.047 16 2.4 S_oc_sup_and_transversal 1632 1056 1994 2.088 0.450 0.139 0.044 18 3.0 S_occipital_ant 1208 795 1609 2.419 0.468 0.135 0.045 12 2.3 S_oc-temp_lat 1709 1166 2100 2.025 0.623 0.146 0.049 20 3.6 S_oc-temp_med_and_Lingual 399 257 433 1.837 0.352 0.123 0.032 3 0.5 S_orbital_lateral 1082 704 1180 1.943 0.579 0.124 0.037 10 1.8 S_orbital_med-olfact 2009 1249 2859 2.334 0.540 0.154 0.072 36 5.8 S_orbital-H_Shaped 2509 1519 2696 1.918 0.422 0.144 0.066 71 7.7 S_parieto_occipital 895 528 804 1.974 0.753 0.167 0.089 30 3.8 S_pericallosal 2916 1786 2939 1.786 0.480 0.136 0.051 37 6.1 S_postcentral 1236 782 1562 2.292 0.413 0.114 0.035 9 1.8 S_precentral-inf-part 1869 1344 2285 2.076 0.538 0.161 0.065 23 5.7 S_precentral-sup-part 863 562 1162 2.348 0.577 0.152 0.050 14 1.7 S_suborbital 1075 726 1417 2.211 0.358 0.122 0.032 8 1.5 S_subparietal 1543 1006 1861 2.287 0.438 0.138 0.041 17 2.7 S_temporal_inf 6120 4016 9222 2.402 0.417 0.116 0.045 71 12.4 S_temporal_sup 457 285 319 1.388 0.352 0.148 0.049 6 0.9 S_temporal_transverse #----------------------------------------- #@# Cortical Parc 3 lh Thu Aug 10 18:17:27 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.mgz -seed 1234 recon0256 lh ../surf/lh.sphere.reg /Applications/freesurfer/average/lh.DKTatlas40.gcs ../label/lh.aparc.DKTatlas40.annot \n setting seed for random number generator to 1234 using ../mri/aseg.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading atlas from /Applications/freesurfer/average/lh.DKTatlas40.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.007 0 singular and 293 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1229 labels changed using aseg relabeling using gibbs priors... 000: 2985 changed, 164658 examined... 001: 734 changed, 12825 examined... 002: 216 changed, 3976 examined... 003: 85 changed, 1228 examined... 004: 39 changed, 516 examined... 005: 17 changed, 222 examined... 006: 10 changed, 100 examined... 007: 6 changed, 64 examined... 008: 3 changed, 30 examined... 009: 2 changed, 19 examined... 010: 1 changed, 8 examined... 011: 1 changed, 9 examined... 012: 1 changed, 8 examined... 013: 1 changed, 8 examined... 014: 1 changed, 6 examined... 015: 2 changed, 7 examined... 016: 2 changed, 12 examined... 017: 0 changed, 13 examined... 207 labels changed using aseg 000: 70 total segments, 37 labels (300 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 46 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 713 vertices marked for relabeling... 713 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas40.annot... classification took 0 minutes and 48 seconds. #----------------------------------------- #@# Parcellation Stats 3 lh Thu Aug 10 18:18:15 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_anatomical_stats -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas40.stats -b -a ../label/lh.aparc.DKTatlas40.annot -c ../label/aparc.annot.DKTatlas40.ctab recon0256 lh white \n computing statistics for each annotation in ../label/lh.aparc.DKTatlas40.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. reading colortable from annotation file... colortable with 36 entries read (originally /Applications/freesurfer/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.DKTatlas40.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 1279 854 1999 2.428 0.482 0.153 0.047 27 2.5 caudalanteriorcingulate 4419 2660 5732 2.134 0.481 0.145 0.078 84 16.2 caudalmiddlefrontal 3653 2243 3449 1.517 0.495 0.161 0.073 97 11.8 cuneus 699 452 1657 2.990 0.626 0.153 0.111 35 2.6 entorhinal 6028 3594 9608 2.371 0.628 0.148 0.157 175 25.5 fusiform 8124 4476 11004 2.317 0.458 0.130 0.192 301 100.8 inferiorparietal 6725 4033 11798 2.558 0.730 0.160 0.102 201 28.0 inferiortemporal 1612 956 2245 2.285 0.649 0.138 0.070 29 4.9 isthmuscingulate 9833 5847 10601 1.754 0.545 0.158 0.085 198 41.4 lateraloccipital 6091 3565 8268 2.204 0.585 0.161 0.191 262 29.5 lateralorbitofrontal 4638 2922 4714 1.574 0.517 0.174 0.075 96 15.1 lingual 2906 1758 4293 2.218 0.584 0.161 0.105 112 10.6 medialorbitofrontal 7130 4500 13903 2.713 0.552 0.132 0.071 230 20.2 middletemporal 854 561 1716 2.777 0.839 0.147 0.053 12 1.9 parahippocampal 2982 1789 3901 2.053 0.560 0.144 0.201 528 37.6 paracentral 2585 1402 3655 2.363 0.408 0.126 0.097 75 8.2 parsopercularis 1513 833 2252 2.359 0.545 0.149 0.100 77 7.9 parsorbitalis 2705 1448 3641 2.374 0.404 0.126 0.151 71 22.4 parstriangularis 1679 1336 1446 1.208 0.259 0.234 0.100 86 6.7 pericalcarine 7573 4628 8744 1.738 0.650 0.139 0.063 129 21.7 postcentral 1766 1145 2704 2.254 0.491 0.159 0.065 32 4.9 posteriorcingulate 8590 5407 11377 1.997 0.745 0.146 0.071 148 29.7 precentral 6541 3855 8914 2.205 0.425 0.136 0.191 159 17.9 precuneus 1791 1140 2768 2.363 0.610 0.144 0.071 33 6.0 rostralanteriorcingulate 8156 4439 9427 1.997 0.598 0.210 0.425 1076 108.5 rostralmiddlefrontal 15911 8870 22723 2.393 0.530 0.150 0.162 1279 94.1 superiorfrontal 9366 5249 11184 2.041 0.470 0.142 0.134 953 74.6 superiorparietal 8467 4975 13207 2.437 0.661 0.127 0.062 183 22.3 superiortemporal 6392 3414 8610 2.363 0.552 0.122 0.074 172 21.5 supramarginal 1075 632 989 1.460 0.345 0.136 0.059 17 2.9 transversetemporal 3476 2116 5490 2.626 0.568 0.132 0.067 74 9.6 insula #-------------------------------------------- #@# Tessellate rh Thu Aug 10 18:18:35 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz \n Iteration Number : 1 pass 1 (xy+): 7 found - 7 modified | TOTAL: 7 pass 2 (xy+): 0 found - 7 modified | TOTAL: 7 pass 1 (xy-): 1 found - 1 modified | TOTAL: 8 pass 2 (xy-): 0 found - 1 modified | TOTAL: 8 pass 1 (yz+): 3 found - 3 modified | TOTAL: 11 pass 2 (yz+): 0 found - 3 modified | TOTAL: 11 pass 1 (yz-): 3 found - 3 modified | TOTAL: 14 pass 2 (yz-): 0 found - 3 modified | TOTAL: 14 pass 1 (xz+): 0 found - 0 modified | TOTAL: 14 pass 1 (xz-): 0 found - 0 modified | TOTAL: 14 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 3 found - 3 modified | TOTAL: 4 pass 2 (--): 0 found - 3 modified | TOTAL: 4 pass 1 (-+): 0 found - 0 modified | TOTAL: 4 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 18 (out of 389519: 0.004621) Ambiguous edge configurations... mri_pretess done \n mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix \n $Id: mri_tessellate.c,v 1.36 2011/03/02 00:04:25 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ slice 40: 3983 vertices, 4257 faces slice 50: 14936 vertices, 15394 faces slice 60: 28850 vertices, 29312 faces slice 70: 44555 vertices, 45011 faces slice 80: 58222 vertices, 58681 faces slice 90: 70260 vertices, 70719 faces slice 100: 82841 vertices, 83309 faces slice 110: 95603 vertices, 96105 faces slice 120: 108686 vertices, 109295 faces slice 130: 123352 vertices, 123957 faces slice 140: 136228 vertices, 136774 faces slice 150: 147940 vertices, 148518 faces slice 160: 157119 vertices, 157551 faces slice 170: 164202 vertices, 164604 faces slice 180: 169753 vertices, 170133 faces slice 190: 172790 vertices, 172992 faces slice 200: 172866 vertices, 173050 faces slice 210: 172866 vertices, 173050 faces slice 220: 172866 vertices, 173050 faces slice 230: 172866 vertices, 173050 faces slice 240: 172866 vertices, 173050 faces slice 250: 172866 vertices, 173050 faces using the conformed surface RAS to save vertex points... writing ../surf/rh.orig.nofix using vox2ras matrix: -1.000 0.000 0.000 128.000; 0.000 0.000 1.000 -128.000; 0.000 -1.000 0.000 128.000; 0.000 0.000 0.000 1.000; \n rm -f ../mri/filled-pretess127.mgz \n \n mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix \n counting number of connected components... 172866 voxel in cpt #1: X=-184 [v=172866,e=519150,f=346100] located at (31.559561, -25.368036, 26.023643) For the whole surface: X=-184 [v=172866,e=519150,f=346100] One single component has been found nothing to do done #-------------------------------------------- #@# Smooth1 rh Thu Aug 10 18:18:42 BRT 2017 \n mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation1 rh Thu Aug 10 18:18:48 BRT 2017 \n mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts avg radius = 49.1 mm, total surface area = 89385 mm^2 writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.5 minutes Not saving sulc step 000: RMS=0.110 (target=0.015) step 005: RMS=0.084 (target=0.015) step 010: RMS=0.067 (target=0.015) step 015: RMS=0.062 (target=0.015) step 020: RMS=0.056 (target=0.015) step 025: RMS=0.053 (target=0.015) step 030: RMS=0.050 (target=0.015) step 035: RMS=0.048 (target=0.015) step 040: RMS=0.047 (target=0.015) step 045: RMS=0.045 (target=0.015) step 050: RMS=0.045 (target=0.015) step 055: RMS=0.045 (target=0.015) step 060: RMS=0.045 (target=0.015) inflation complete. Not saving sulc #-------------------------------------------- #@# QSphere rh Thu Aug 10 18:19:16 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix \n doing quick spherical unfolding. setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... vertex spacing 0.89 +- 0.52 (0.00-->7.38) (max @ vno 72357 --> 72358) face area 0.02 +- 0.03 (-0.09-->0.74) writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.05 hours scaling brain by 0.307... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=175.244, avgs=0 005/300: dt: 0.9000, rms radial error=174.983, avgs=0 010/300: dt: 0.9000, rms radial error=174.422, avgs=0 015/300: dt: 0.9000, rms radial error=173.686, avgs=0 020/300: dt: 0.9000, rms radial error=172.849, avgs=0 025/300: dt: 0.9000, rms radial error=171.954, avgs=0 030/300: dt: 0.9000, rms radial error=171.026, avgs=0 035/300: dt: 0.9000, rms radial error=170.082, avgs=0 040/300: dt: 0.9000, rms radial error=169.131, avgs=0 045/300: dt: 0.9000, rms radial error=168.180, avgs=0 050/300: dt: 0.9000, rms radial error=167.234, avgs=0 055/300: dt: 0.9000, rms radial error=166.290, avgs=0 060/300: dt: 0.9000, rms radial error=165.351, avgs=0 065/300: dt: 0.9000, rms radial error=164.416, avgs=0 070/300: dt: 0.9000, rms radial error=163.487, avgs=0 075/300: dt: 0.9000, rms radial error=162.562, avgs=0 080/300: dt: 0.9000, rms radial error=161.643, avgs=0 085/300: dt: 0.9000, rms radial error=160.729, avgs=0 090/300: dt: 0.9000, rms radial error=159.820, avgs=0 095/300: dt: 0.9000, rms radial error=158.917, avgs=0 100/300: dt: 0.9000, rms radial error=158.017, avgs=0 105/300: dt: 0.9000, rms radial error=157.124, avgs=0 110/300: dt: 0.9000, rms radial error=156.231, avgs=0 115/300: dt: 0.9000, rms radial error=155.347, avgs=0 120/300: dt: 0.9000, rms radial error=154.473, avgs=0 125/300: dt: 0.9000, rms radial error=153.596, avgs=0 130/300: dt: 0.9000, rms radial error=152.730, avgs=0 135/300: dt: 0.9000, rms radial error=151.867, avgs=0 140/300: dt: 0.9000, rms radial error=151.009, avgs=0 145/300: dt: 0.9000, rms radial error=150.156, avgs=0 150/300: dt: 0.9000, rms radial error=149.307, avgs=0 155/300: dt: 0.9000, rms radial error=148.462, avgs=0 160/300: dt: 0.9000, rms radial error=147.625, avgs=0 165/300: dt: 0.9000, rms radial error=146.791, avgs=0 170/300: dt: 0.9000, rms radial error=145.961, avgs=0 175/300: dt: 0.9000, rms radial error=145.132, avgs=0 180/300: dt: 0.9000, rms radial error=144.315, avgs=0 185/300: dt: 0.9000, rms radial error=143.500, avgs=0 190/300: dt: 0.9000, rms radial error=142.687, avgs=0 195/300: dt: 0.9000, rms radial error=141.878, avgs=0 200/300: dt: 0.9000, rms radial error=141.083, avgs=0 205/300: dt: 0.9000, rms radial error=140.288, avgs=0 210/300: dt: 0.9000, rms radial error=139.503, avgs=0 215/300: dt: 0.9000, rms radial error=138.733, avgs=0 220/300: dt: 0.9000, rms radial error=137.937, avgs=0 225/300: dt: 0.9000, rms radial error=137.161, avgs=0 230/300: dt: 0.9000, rms radial error=136.386, avgs=0 235/300: dt: 0.9000, rms radial error=135.622, avgs=0 240/300: dt: 0.9000, rms radial error=134.869, avgs=0 245/300: dt: 0.9000, rms radial error=134.099, avgs=0 250/300: dt: 0.9000, rms radial error=133.344, avgs=0 255/300: dt: 0.9000, rms radial error=132.593, avgs=0 260/300: dt: 0.9000, rms radial error=131.851, avgs=0 265/300: dt: 0.9000, rms radial error=131.108, avgs=0 270/300: dt: 0.9000, rms radial error=130.367, avgs=0 275/300: dt: 0.9000, rms radial error=129.634, avgs=0 280/300: dt: 0.9000, rms radial error=128.906, avgs=0 285/300: dt: 0.9000, rms radial error=128.182, avgs=0 290/300: dt: 0.9000, rms radial error=127.462, avgs=0 295/300: dt: 0.9000, rms radial error=126.745, avgs=0 300/300: dt: 0.9000, rms radial error=126.031, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 20386.93 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00010 epoch 2 (K=40.0), pass 1, starting sse = 3475.11 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00005 epoch 3 (K=160.0), pass 1, starting sse = 381.96 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.04/10 = 0.00417 epoch 4 (K=640.0), pass 1, starting sse = 38.23 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.06/12 = 0.00499 final distance error %100000.00 #-------------------------------------------- #@# Fix Topology rh Thu Aug 10 18:22:33 BRT 2017 \n cp ../surf/rh.orig.nofix ../surf/rh.orig \n \n cp ../surf/rh.inflated.nofix ../surf/rh.inflated \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_fix_topology -mgz -sphere qsphere.nofix -ga -seed 1234 recon0256 rh \n 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 1.48 2011/03/02 00:04:32 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ before topology correction, eno=-184 (nv=172866, nf=346100, ne=519150, g=93) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 7 iterations marking ambiguous vertices... 20667 ambiguous faces found in tessellation segmenting defects... 69 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 34 into 31 -merging segment 39 into 31 -merging segment 42 into 31 66 defects to be corrected 0 vertices coincident reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -9.3267 (-4.6633) -vertex loglikelihood: -6.1337 (-3.0669) -normal dot loglikelihood: -3.5168 (-3.5168) -quad curv loglikelihood: -6.2858 (-3.1429) Total Loglikelihood : -25.2630 CORRECTING DEFECT 0 (vertices=36, convex hull=30) After retessellation of defect 0, euler #=-64 (161273,481192,319855) : difference with theory (-63) = 1 CORRECTING DEFECT 1 (vertices=75, convex hull=37) After retessellation of defect 1, euler #=-63 (161277,481215,319875) : difference with theory (-62) = 1 CORRECTING DEFECT 2 (vertices=224, convex hull=60) After retessellation of defect 2, euler #=-62 (161296,481297,319939) : difference with theory (-61) = 1 CORRECTING DEFECT 3 (vertices=185, convex hull=128) After retessellation of defect 3, euler #=-61 (161326,481449,320062) : difference with theory (-60) = 1 CORRECTING DEFECT 4 (vertices=25, convex hull=27) After retessellation of defect 4, euler #=-60 (161326,481459,320073) : difference with theory (-59) = 1 CORRECTING DEFECT 5 (vertices=127, convex hull=104) After retessellation of defect 5, euler #=-59 (161357,481598,320182) : difference with theory (-58) = 1 CORRECTING DEFECT 6 (vertices=103, convex hull=97) After retessellation of defect 6, euler #=-58 (161380,481709,320271) : difference with theory (-57) = 1 CORRECTING DEFECT 7 (vertices=130, convex hull=34) After retessellation of defect 7, euler #=-57 (161383,481731,320291) : difference with theory (-56) = 1 CORRECTING DEFECT 8 (vertices=39, convex hull=80) After retessellation of defect 8, euler #=-56 (161401,481817,320360) : difference with theory (-55) = 1 CORRECTING DEFECT 9 (vertices=32, convex hull=75) After retessellation of defect 9, euler #=-55 (161417,481894,320422) : difference with theory (-54) = 1 CORRECTING DEFECT 10 (vertices=1250, convex hull=160) After retessellation of defect 10, euler #=-54 (161427,482004,320523) : difference with theory (-53) = 1 CORRECTING DEFECT 11 (vertices=62, convex hull=89) After retessellation of defect 11, euler #=-53 (161463,482150,320634) : difference with theory (-52) = 1 CORRECTING DEFECT 12 (vertices=33, convex hull=86) After retessellation of defect 12, euler #=-52 (161480,482231,320699) : difference with theory (-51) = 1 CORRECTING DEFECT 13 (vertices=41, convex hull=66) After retessellation of defect 13, euler #=-51 (161494,482303,320758) : difference with theory (-50) = 1 CORRECTING DEFECT 14 (vertices=108, convex hull=82) After retessellation of defect 14, euler #=-50 (161527,482439,320862) : difference with theory (-49) = 1 CORRECTING DEFECT 15 (vertices=68, convex hull=41) Warning - incorrect dp selected!!!!(-75.768462 >= -75.768470 ) After retessellation of defect 15, euler #=-49 (161532,482468,320887) : difference with theory (-48) = 1 CORRECTING DEFECT 16 (vertices=154, convex hull=159) After retessellation of defect 16, euler #=-48 (161561,482635,321026) : difference with theory (-47) = 1 CORRECTING DEFECT 17 (vertices=20, convex hull=47) After retessellation of defect 17, euler #=-47 (161575,482695,321073) : difference with theory (-46) = 1 CORRECTING DEFECT 18 (vertices=49, convex hull=92) After retessellation of defect 18, euler #=-46 (161606,482824,321172) : difference with theory (-45) = 1 CORRECTING DEFECT 19 (vertices=22, convex hull=16) After retessellation of defect 19, euler #=-45 (161609,482835,321181) : difference with theory (-44) = 1 CORRECTING DEFECT 20 (vertices=9, convex hull=25) After retessellation of defect 20, euler #=-44 (161612,482851,321195) : difference with theory (-43) = 1 CORRECTING DEFECT 21 (vertices=6, convex hull=22) Warning - incorrect dp selected!!!!(-104.732789 >= -104.732798 ) After retessellation of defect 21, euler #=-43 (161613,482858,321202) : difference with theory (-42) = 1 CORRECTING DEFECT 22 (vertices=186, convex hull=98) After retessellation of defect 22, euler #=-42 (161637,482978,321299) : difference with theory (-41) = 1 CORRECTING DEFECT 23 (vertices=1358, convex hull=362) normal vector of length zero at vertex 164883 with 4 faces After retessellation of defect 23, euler #=-41 (161685,483296,321570) : difference with theory (-40) = 1 CORRECTING DEFECT 24 (vertices=7, convex hull=17) After retessellation of defect 24, euler #=-40 (161688,483310,321582) : difference with theory (-39) = 1 CORRECTING DEFECT 25 (vertices=18, convex hull=42) After retessellation of defect 25, euler #=-39 (161698,483352,321615) : difference with theory (-38) = 1 CORRECTING DEFECT 26 (vertices=15, convex hull=26) After retessellation of defect 26, euler #=-38 (161702,483370,321630) : difference with theory (-37) = 1 CORRECTING DEFECT 27 (vertices=51, convex hull=43) After retessellation of defect 27, euler #=-37 (161706,483395,321652) : difference with theory (-36) = 1 CORRECTING DEFECT 28 (vertices=20, convex hull=47) After retessellation of defect 28, euler #=-36 (161715,483441,321690) : difference with theory (-35) = 1 CORRECTING DEFECT 29 (vertices=33, convex hull=67) After retessellation of defect 29, euler #=-35 (161727,483499,321737) : difference with theory (-34) = 1 CORRECTING DEFECT 30 (vertices=64, convex hull=36) After retessellation of defect 30, euler #=-34 (161737,483541,321770) : difference with theory (-33) = 1 CORRECTING DEFECT 31 (vertices=3254, convex hull=708) After retessellation of defect 31, euler #=-32 (162504,486249,323713) : difference with theory (-32) = 0 CORRECTING DEFECT 32 (vertices=53, convex hull=32) After retessellation of defect 32, euler #=-31 (162510,486278,323737) : difference with theory (-31) = 0 CORRECTING DEFECT 33 (vertices=38, convex hull=64) After retessellation of defect 33, euler #=-30 (162525,486347,323792) : difference with theory (-30) = 0 CORRECTING DEFECT 34 (vertices=214, convex hull=183) After retessellation of defect 34, euler #=-29 (162597,486654,324028) : difference with theory (-29) = 0 CORRECTING DEFECT 35 (vertices=23, convex hull=56) After retessellation of defect 35, euler #=-28 (162611,486718,324079) : difference with theory (-28) = 0 CORRECTING DEFECT 36 (vertices=1032, convex hull=184) After retessellation of defect 36, euler #=-27 (162660,486948,324261) : difference with theory (-27) = 0 CORRECTING DEFECT 37 (vertices=28, convex hull=60) After retessellation of defect 37, euler #=-26 (162669,486998,324303) : difference with theory (-26) = 0 CORRECTING DEFECT 38 (vertices=485, convex hull=289) After retessellation of defect 38, euler #=-25 (162798,487529,324706) : difference with theory (-25) = 0 CORRECTING DEFECT 39 (vertices=8, convex hull=19) After retessellation of defect 39, euler #=-24 (162800,487541,324717) : difference with theory (-24) = 0 CORRECTING DEFECT 40 (vertices=10, convex hull=30) After retessellation of defect 40, euler #=-23 (162803,487559,324733) : difference with theory (-23) = 0 CORRECTING DEFECT 41 (vertices=8, convex hull=27) After retessellation of defect 41, euler #=-22 (162804,487571,324745) : difference with theory (-22) = 0 CORRECTING DEFECT 42 (vertices=20, convex hull=26) After retessellation of defect 42, euler #=-21 (162807,487589,324761) : difference with theory (-21) = 0 CORRECTING DEFECT 43 (vertices=15, convex hull=22) After retessellation of defect 43, euler #=-20 (162809,487603,324774) : difference with theory (-20) = 0 CORRECTING DEFECT 44 (vertices=169, convex hull=198) After retessellation of defect 44, euler #=-19 (162854,487844,324971) : difference with theory (-19) = 0 CORRECTING DEFECT 45 (vertices=30, convex hull=58) After retessellation of defect 45, euler #=-18 (162872,487926,325036) : difference with theory (-18) = 0 CORRECTING DEFECT 46 (vertices=23, convex hull=55) After retessellation of defect 46, euler #=-17 (162884,487980,325079) : difference with theory (-17) = 0 CORRECTING DEFECT 47 (vertices=5, convex hull=23) After retessellation of defect 47, euler #=-16 (162885,487989,325088) : difference with theory (-16) = 0 CORRECTING DEFECT 48 (vertices=35, convex hull=58) After retessellation of defect 48, euler #=-15 (162894,488037,325128) : difference with theory (-15) = 0 CORRECTING DEFECT 49 (vertices=21, convex hull=21) After retessellation of defect 49, euler #=-14 (162898,488055,325143) : difference with theory (-14) = 0 CORRECTING DEFECT 50 (vertices=226, convex hull=107) After retessellation of defect 50, euler #=-13 (162933,488205,325259) : difference with theory (-13) = 0 CORRECTING DEFECT 51 (vertices=24, convex hull=44) After retessellation of defect 51, euler #=-12 (162942,488250,325296) : difference with theory (-12) = 0 CORRECTING DEFECT 52 (vertices=86, convex hull=132) After retessellation of defect 52, euler #=-11 (163000,488484,325473) : difference with theory (-11) = 0 CORRECTING DEFECT 53 (vertices=23, convex hull=45) After retessellation of defect 53, euler #=-10 (163009,488527,325508) : difference with theory (-10) = 0 CORRECTING DEFECT 54 (vertices=730, convex hull=370) After retessellation of defect 54, euler #=-9 (163199,489296,326088) : difference with theory (-9) = 0 CORRECTING DEFECT 55 (vertices=89, convex hull=107) After retessellation of defect 55, euler #=-8 (163208,489369,326153) : difference with theory (-8) = 0 CORRECTING DEFECT 56 (vertices=38, convex hull=52) After retessellation of defect 56, euler #=-7 (163221,489428,326200) : difference with theory (-7) = 0 CORRECTING DEFECT 57 (vertices=90, convex hull=128) After retessellation of defect 57, euler #=-6 (163230,489513,326277) : difference with theory (-6) = 0 CORRECTING DEFECT 58 (vertices=27, convex hull=21) After retessellation of defect 58, euler #=-5 (163233,489530,326292) : difference with theory (-5) = 0 CORRECTING DEFECT 59 (vertices=87, convex hull=117) After retessellation of defect 59, euler #=-4 (163283,489735,326448) : difference with theory (-4) = 0 CORRECTING DEFECT 60 (vertices=30, convex hull=54) After retessellation of defect 60, euler #=-3 (163296,489792,326493) : difference with theory (-3) = 0 CORRECTING DEFECT 61 (vertices=32, convex hull=47) After retessellation of defect 61, euler #=-2 (163306,489840,326532) : difference with theory (-2) = 0 CORRECTING DEFECT 62 (vertices=23, convex hull=62) After retessellation of defect 62, euler #=-1 (163317,489898,326580) : difference with theory (-1) = 0 CORRECTING DEFECT 63 (vertices=27, convex hull=65) After retessellation of defect 63, euler #=0 (163327,489955,326628) : difference with theory (0) = 0 CORRECTING DEFECT 64 (vertices=19, convex hull=30) After retessellation of defect 64, euler #=1 (163330,489977,326648) : difference with theory (1) = 0 CORRECTING DEFECT 65 (vertices=18, convex hull=24) After retessellation of defect 65, euler #=2 (163333,489993,326662) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.88 +- 0.25 (0.04-->16.14) (max @ vno 39853 --> 50644) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.88 +- 0.25 (0.04-->16.14) (max @ vno 39853 --> 50644) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 277 mutations (35.8%), 496 crossovers (64.2%), 608 vertices were eliminated building final representation... 9533 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=163333, nf=326662, ne=489993, g=0) writing corrected surface to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.orig... 0.000 % of the vertices (0 vertices) exhibit an orientation change topology fixing took 51.4 minutes 0 defective edges removing intersecting faces 000: 728 intersecting 001: 14 intersecting \n mris_euler_number ../surf/rh.orig \n euler # = v-e+f = 2g-2: 163333 - 489993 + 326662 = 2 --> 0 holes F =2V-4: 326662 = 326666-4 (0) 2E=3F: 979986 = 979986 (0) total defect index = 0 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_remove_intersection ../surf/rh.orig ../surf/rh.orig \n intersection removal took 0.00 hours removing intersecting faces 000: 252 intersecting 001: 11 intersecting writing corrected surface to ../surf/rh.orig \n rm ../surf/rh.inflated \n #-------------------------------------------- #@# Make White Surf rh Thu Aug 10 19:14:04 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_make_surfaces -noaparc -whiteonly -mgz -T1 brain.finalsurfs recon0256 rh \n only generating white matter surface 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 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/filled.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/brain.finalsurfs.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... 18976 bright wm thresholded. 2596 bright non-wm voxels segmented. reading original surface position from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.orig... computing class statistics... border white: 360750 voxels (2.15%) border gray 374950 voxels (2.23%) WM (99.0): 99.4 +- 7.1 [70.0 --> 110.0] GM (87.0) : 84.2 +- 14.1 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 69.9 (was 70) setting MAX_BORDER_WHITE to 114.1 (was 105) setting MIN_BORDER_WHITE to 84.0 (was 85) setting MAX_CSF to 55.9 (was 40) setting MAX_GRAY to 99.9 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 77.0 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 41.8 (was 40) repositioning cortical surface to gray/white boundary reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz... smoothing T1 volume with sigma = 2.000 vertex spacing 0.82 +- 0.23 (0.01-->4.95) (max @ vno 162326 --> 162365) face area 0.28 +- 0.13 (0.00-->3.86) mean absolute distance = 0.74 +- 1.12 4194 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... smoothing contralateral hemisphere... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=107, GM=84 mean inside = 98.9, mean outside = 84.4 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 4 vertex label from ripped group mean border=93.1, 186 (186) missing vertices, mean dist -0.1 [0.8 (%48.3)->0.7 (%51.7))] %51 local maxima, %45 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=jogad, 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 0.87 +- 0.25 (0.03-->6.70) (max @ vno 162326 --> 110615) face area 0.28 +- 0.14 (0.00-->6.21) mean absolute distance = 0.54 +- 0.85 5051 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4289147.5, rms=6.91 001: dt: 0.5000, sse=5867075.5, rms=4.568 (0.000%) 002: dt: 0.5000, sse=5964017.5, rms=3.254 (0.000%) 003: dt: 0.5000, sse=6285160.5, rms=2.628 (0.000%) 004: dt: 0.5000, sse=6270325.5, rms=2.357 (0.000%) 005: dt: 0.5000, sse=6373343.0, rms=2.226 (0.000%) 006: dt: 0.5000, sse=6324924.5, rms=2.163 (0.000%) rms = 2.12, time step reduction 1 of 3 to 0.250... 007: dt: 0.5000, sse=6386414.0, rms=2.121 (0.000%) 008: dt: 0.2500, sse=4522597.5, rms=1.705 (0.000%) 009: dt: 0.2500, sse=4344459.5, rms=1.620 (0.000%) rms = 1.61, time step reduction 2 of 3 to 0.125... 010: dt: 0.2500, sse=4269059.5, rms=1.609 (0.000%) rms = 1.59, time step reduction 3 of 3 to 0.062... 011: dt: 0.1250, sse=4216684.5, rms=1.591 (0.000%) positioning took 1.4 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 2 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group mean border=94.3, 142 (64) missing vertices, mean dist -0.3 [0.8 (%55.3)->0.3 (%44.7))] %59 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=jogad, 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 0.86 +- 0.25 (0.07-->7.65) (max @ vno 162326 --> 110615) face area 0.32 +- 0.16 (0.00-->8.41) mean absolute distance = 0.49 +- 0.59 4102 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4583814.5, rms=3.45 012: dt: 0.5000, sse=4945626.0, rms=2.391 (0.000%) 013: dt: 0.5000, sse=5494356.0, rms=2.041 (0.000%) 014: dt: 0.5000, sse=5714974.5, rms=1.957 (0.000%) rms = 1.93, time step reduction 1 of 3 to 0.250... 015: dt: 0.5000, sse=6055234.5, rms=1.925 (0.000%) 016: dt: 0.2500, sse=4760973.0, rms=1.513 (0.000%) 017: dt: 0.2500, sse=4550082.0, rms=1.420 (0.000%) rms = 1.39, time step reduction 2 of 3 to 0.125... 018: dt: 0.2500, sse=4487860.0, rms=1.394 (0.000%) rms = 1.37, time step reduction 3 of 3 to 0.062... 019: dt: 0.1250, sse=4428838.5, rms=1.375 (0.000%) positioning took 1.0 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 3 vertex label from ripped group removing 4 vertex label from ripped group mean border=96.9, 143 (38) missing vertices, mean dist -0.4 [0.6 (%72.8)->0.3 (%27.2))] %79 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=jogad, 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 0.85 +- 0.26 (0.03-->8.12) (max @ vno 162326 --> 110615) face area 0.31 +- 0.16 (0.00-->8.25) mean absolute distance = 0.31 +- 0.41 6022 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4761652.5, rms=3.65 020: dt: 0.5000, sse=4830664.5, rms=2.185 (0.000%) 021: dt: 0.5000, sse=5450951.5, rms=1.773 (0.000%) 022: dt: 0.5000, sse=5536838.0, rms=1.700 (0.000%) rms = 1.76, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=4815396.0, rms=1.402 (0.000%) 024: dt: 0.2500, sse=4572567.0, rms=1.273 (0.000%) rms = 1.25, time step reduction 2 of 3 to 0.125... 025: dt: 0.2500, sse=4476232.5, rms=1.252 (0.000%) rms = 1.24, time step reduction 3 of 3 to 0.062... 026: dt: 0.1250, sse=4417423.5, rms=1.238 (0.000%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 3 vertex label from ripped group mean border=97.8, 153 (18) missing vertices, mean dist -0.1 [0.4 (%62.9)->0.2 (%37.1))] %85 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=jogad, 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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=4450915.5, rms=1.82 027: dt: 0.5000, sse=5402441.5, rms=1.211 (0.000%) rms = 1.47, time step reduction 1 of 3 to 0.250... 028: dt: 0.2500, sse=4937880.0, rms=1.051 (0.000%) rms = 1.04, time step reduction 2 of 3 to 0.125... 029: dt: 0.2500, sse=4726513.0, rms=1.045 (0.000%) rms = 1.01, time step reduction 3 of 3 to 0.062... 030: dt: 0.1250, sse=4724394.5, rms=1.011 (0.000%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... generating cortex label... 10 non-cortical segments detected only using segment with 2301 vertices erasing segment 1 (vno[0] = 72073) erasing segment 2 (vno[0] = 115829) erasing segment 3 (vno[0] = 116966) erasing segment 4 (vno[0] = 116981) erasing segment 5 (vno[0] = 116988) erasing segment 6 (vno[0] = 119229) erasing segment 7 (vno[0] = 119267) erasing segment 8 (vno[0] = 121509) erasing segment 9 (vno[0] = 161797) writing cortex label to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.cortex.label... writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.curv writing smoothed area to rh.area writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.area vertex spacing 0.84 +- 0.26 (0.04-->8.10) (max @ vno 162326 --> 110615) face area 0.30 +- 0.16 (0.00-->7.95) refinement took 6.2 minutes #-------------------------------------------- #@# Smooth2 rh Thu Aug 10 19:20:15 BRT 2017 \n mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white ../surf/rh.smoothwm \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts 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... #-------------------------------------------- #@# Inflation2 rh Thu Aug 10 19:20:21 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated \n avg radius = 49.0 mm, total surface area = 89074 mm^2 writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc step 000: RMS=0.109 (target=0.015) step 005: RMS=0.078 (target=0.015) step 010: RMS=0.059 (target=0.015) step 015: RMS=0.049 (target=0.015) step 020: RMS=0.040 (target=0.015) step 025: RMS=0.033 (target=0.015) step 030: RMS=0.028 (target=0.015) step 035: RMS=0.024 (target=0.015) step 040: RMS=0.020 (target=0.015) step 045: RMS=0.018 (target=0.015) step 050: RMS=0.017 (target=0.015) step 055: RMS=0.016 (target=0.015) inflation complete. inflation took 0.4 minutes \n mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 ../surf/rh.inflated \n normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 216 vertices thresholded to be in k1 ~ [-0.20 0.67], k2 ~ [-0.08 0.08] total integrated curvature = 0.499*4pi (6.267) --> 1 handles ICI = 1.6, FI = 9.8, variation=170.757 140 vertices thresholded to be in [-0.02 0.01] writing Gaussian curvature to ../surf/rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 160 vertices thresholded to be in [-0.11 0.31] done. writing mean curvature to ../surf/rh.inflated.H...curvature mean = -0.014, std = 0.024 done. \n#----------------------------------------- #@# Curvature Stats rh Thu Aug 10 19:21:58 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf \n mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm recon0256 rh curv sulc \n Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ recon0256/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 [ 311 ] Gb_filter = 0 WARN: S lookup min: -0.330664 WARN: S explicit min: 0.000000 vertex = 41 #-------------------------------------------- #@# Sphere rh Thu Aug 10 19:22:05 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere \n setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... scaling brain by 0.305... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=jogad, 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 %19.00 pass 1: epoch 2 of 3 starting distance error %19.00 unfolding complete - removing small folds... starting distance error %18.95 removing remaining folds... final distance error %18.97 MRISunfold() return, current seed 1234 writing spherical brain to ../surf/rh.sphere spherical transformation took 0.50 hours #-------------------------------------------- #@# Surf Reg rh Thu Aug 10 19:51:50 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_register -curv ../surf/rh.sphere /Applications/freesurfer/average/rh.average.curvature.filled.buckner40.tif ../surf/rh.sphere.reg \n using smoothwm curvature for final alignment $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading surface from ../surf/rh.sphere... reading template parameterization from /Applications/freesurfer/average/rh.average.curvature.filled.buckner40.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=jogad, 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=jogad, 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 = 0.573 curvature mean = 0.027, std = 0.941 curvature mean = 0.034, std = 0.847 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (0.00, -16.00, 0.00) sse = 451384.5, tmin=0.7320 d=32.00 min @ (8.00, 8.00, 0.00) sse = 332638.8, tmin=1.4828 d=16.00 min @ (0.00, 0.00, -4.00) sse = 323937.0, tmin=2.2283 d=8.00 min @ (0.00, 0.00, 2.00) sse = 317305.9, tmin=2.9871 d=2.00 min @ (0.00, -0.50, -0.50) sse = 316471.5, tmin=4.5156 d=0.50 min @ (0.12, 0.12, 0.12) sse = 316398.1, tmin=6.0200 tol=1.0e+00, sigma=0.5, host=jogad, 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 6.02 min curvature mean = -0.023, std = 0.935 curvature mean = 0.014, std = 0.934 curvature mean = -0.036, std = 0.937 curvature mean = 0.006, std = 0.969 curvature mean = -0.042, std = 0.934 curvature mean = 0.001, std = 0.986 2 Reading smoothwm curvature mean = -0.032, std = 0.285 curvature mean = 0.003, std = 0.069 curvature mean = 0.066, std = 0.347 curvature mean = 0.003, std = 0.082 curvature mean = 0.030, std = 0.526 curvature mean = 0.003, std = 0.088 curvature mean = 0.015, std = 0.665 curvature mean = 0.002, std = 0.091 curvature mean = 0.005, std = 0.774 MRISregister() return, current seed 0 writing registered surface to ../surf/rh.sphere.reg... expanding nbhd size to 1 #-------------------------------------------- #@# Jacobian white rh Thu Aug 10 20:12:12 BRT 2017 \n mris_jacobian ../surf/rh.white ../surf/rh.sphere.reg ../surf/rh.jacobian_white \n reading surface from ../surf/rh.white... writing curvature file ../surf/rh.jacobian_white #-------------------------------------------- #@# AvgCurv rh Thu Aug 10 20:12:14 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mrisp_paint -a 5 /Applications/freesurfer/average/rh.average.curvature.filled.buckner40.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv \n averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /Applications/freesurfer/average/rh.average.curvature.filled.buckner40.tif... writing curvature file to ../surf/rh.avg_curv... #----------------------------------------- #@# Cortical Parc rh Thu Aug 10 20:12:16 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.mgz -seed 1234 recon0256 rh ../surf/rh.sphere.reg /Applications/freesurfer/average/rh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs ../label/rh.aparc.annot \n setting seed for random number generator to 1234 using ../mri/aseg.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading atlas from /Applications/freesurfer/average/rh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.006 0 singular and 311 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1381 labels changed using aseg relabeling using gibbs priors... 000: 3436 changed, 163333 examined... 001: 776 changed, 14453 examined... 002: 209 changed, 4294 examined... 003: 76 changed, 1266 examined... 004: 28 changed, 486 examined... 005: 14 changed, 165 examined... 006: 7 changed, 83 examined... 007: 2 changed, 43 examined... 008: 1 changed, 15 examined... 009: 0 changed, 7 examined... 206 labels changed using aseg 000: 109 total segments, 72 labels (489 vertices) changed 001: 39 total segments, 2 labels (33 vertices) changed 002: 37 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 57 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 2345 vertices marked for relabeling... 2345 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 47 seconds. #-------------------------------------------- #@# Make Pial Surf rh Thu Aug 10 20:13:04 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_make_surfaces -white NOWRITE -mgz -T1 brain.finalsurfs recon0256 rh \n -white NOWRITE indicates that white, curv, area, and cortex.label files will not be written... INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/filled.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/brain.finalsurfs.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... 18976 bright wm thresholded. 2596 bright non-wm voxels segmented. reading original surface position from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.orig... computing class statistics... border white: 360750 voxels (2.15%) border gray 374950 voxels (2.23%) WM (99.0): 99.4 +- 7.1 [70.0 --> 110.0] GM (87.0) : 84.2 +- 14.1 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 69.9 (was 70) setting MAX_BORDER_WHITE to 114.1 (was 105) setting MIN_BORDER_WHITE to 84.0 (was 85) setting MAX_CSF to 55.9 (was 40) setting MAX_GRAY to 99.9 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 77.0 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 41.8 (was 40) smoothing contralateral hemisphere... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=107, GM=84 mean inside = 98.9, mean outside = 84.4 smoothing surface for 5 iterations... reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) repositioning cortical surface to gray/white boundary reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz... smoothing T1 volume with sigma = 2.000 vertex spacing 0.82 +- 0.23 (0.01-->4.95) (max @ vno 162326 --> 162365) face area 0.28 +- 0.13 (0.00-->3.86) mean absolute distance = 0.74 +- 1.12 4220 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... deleting segment 0 with 32 points - only 0.00% unknown deleting segment 1 with 84 points - only 0.00% unknown deleting segment 2 with 60 points - only 0.00% unknown removing 2 vertex label from ripped group removing 4 vertex label from ripped group deleting segment 8 with 4 points - only 0.00% unknown deleting segment 9 with 22 points - only 0.00% unknown mean border=93.1, 186 (186) missing vertices, mean dist -0.1 [0.8 (%48.4)->0.7 (%51.6))] %51 local maxima, %45 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=jogad, 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 0.87 +- 0.25 (0.03-->6.70) (max @ vno 162326 --> 110615) face area 0.28 +- 0.14 (0.00-->6.20) mean absolute distance = 0.54 +- 0.85 5073 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4301639.5, rms=6.92 001: dt: 0.5000, sse=5875738.0, rms=4.578 (0.000%) 002: dt: 0.5000, sse=5969604.5, rms=3.262 (0.000%) 003: dt: 0.5000, sse=6290132.5, rms=2.634 (0.000%) 004: dt: 0.5000, sse=6278969.0, rms=2.361 (0.000%) 005: dt: 0.5000, sse=6380717.5, rms=2.229 (0.000%) 006: dt: 0.5000, sse=6337068.5, rms=2.165 (0.000%) rms = 2.12, time step reduction 1 of 3 to 0.250... 007: dt: 0.5000, sse=6395182.0, rms=2.123 (0.000%) 008: dt: 0.2500, sse=4528691.5, rms=1.707 (0.000%) 009: dt: 0.2500, sse=4349857.5, rms=1.621 (0.000%) rms = 1.61, time step reduction 2 of 3 to 0.125... 010: dt: 0.2500, sse=4274358.0, rms=1.610 (0.000%) rms = 1.59, time step reduction 3 of 3 to 0.062... 011: dt: 0.1250, sse=4221774.5, rms=1.592 (0.000%) positioning took 1.3 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 55 points - only 0.00% unknown deleting segment 1 with 107 points - only 0.00% unknown deleting segment 2 with 63 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 6 with 4 points - only 25.00% unknown removing 2 vertex label from ripped group deleting segment 11 with 99 points - only 37.37% unknown removing 4 vertex label from ripped group removing 4 vertex label from ripped group deleting segment 13 with 4 points - only 0.00% unknown deleting segment 14 with 21 points - only 0.00% unknown deleting segment 16 with 27 points - only 0.00% unknown mean border=94.3, 142 (64) missing vertices, mean dist -0.3 [0.8 (%55.2)->0.3 (%44.8))] %59 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=jogad, 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 0.86 +- 0.25 (0.07-->7.65) (max @ vno 162326 --> 110615) face area 0.32 +- 0.16 (0.00-->8.42) mean absolute distance = 0.49 +- 0.59 4104 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4596947.5, rms=3.45 012: dt: 0.5000, sse=4962251.0, rms=2.391 (0.000%) 013: dt: 0.5000, sse=5512555.0, rms=2.042 (0.000%) 014: dt: 0.5000, sse=5734952.0, rms=1.959 (0.000%) rms = 1.93, time step reduction 1 of 3 to 0.250... 015: dt: 0.5000, sse=6075804.0, rms=1.927 (0.000%) 016: dt: 0.2500, sse=4777831.0, rms=1.514 (0.000%) 017: dt: 0.2500, sse=4564640.0, rms=1.422 (0.000%) rms = 1.40, time step reduction 2 of 3 to 0.125... 018: dt: 0.2500, sse=4503173.5, rms=1.396 (0.000%) rms = 1.38, time step reduction 3 of 3 to 0.062... 019: dt: 0.1250, sse=4444436.0, rms=1.376 (0.000%) positioning took 1.0 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 64 points - only 0.00% unknown deleting segment 1 with 109 points - only 0.00% unknown deleting segment 2 with 62 points - only 0.00% unknown removing 4 vertex label from ripped group removing 3 vertex label from ripped group deleting segment 5 with 3 points - only 33.33% unknown deleting segment 7 with 80 points - only 22.50% unknown removing 4 vertex label from ripped group deleting segment 8 with 4 points - only 0.00% unknown deleting segment 9 with 27 points - only 0.00% unknown mean border=96.9, 143 (38) missing vertices, mean dist -0.4 [0.6 (%72.8)->0.3 (%27.2))] %79 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=jogad, 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 0.85 +- 0.26 (0.03-->8.12) (max @ vno 162326 --> 110615) face area 0.31 +- 0.16 (0.00-->8.25) mean absolute distance = 0.31 +- 0.41 6024 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4777334.0, rms=3.65 020: dt: 0.5000, sse=4845514.0, rms=2.184 (0.000%) 021: dt: 0.5000, sse=5469732.0, rms=1.775 (0.000%) 022: dt: 0.5000, sse=5554763.5, rms=1.702 (0.000%) rms = 1.76, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=4828990.0, rms=1.404 (0.000%) 024: dt: 0.2500, sse=4586417.5, rms=1.274 (0.000%) rms = 1.25, time step reduction 2 of 3 to 0.125... 025: dt: 0.2500, sse=4490691.5, rms=1.254 (0.000%) rms = 1.24, time step reduction 3 of 3 to 0.062... 026: dt: 0.1250, sse=4428778.0, rms=1.240 (0.000%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 62 points - only 0.00% unknown deleting segment 1 with 107 points - only 0.00% unknown deleting segment 2 with 56 points - only 0.00% unknown deleting segment 3 with 71 points - only 15.49% unknown removing 4 vertex label from ripped group deleting segment 4 with 4 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 6 with 3 points - only 0.00% unknown deleting segment 7 with 23 points - only 0.00% unknown mean border=97.8, 153 (18) missing vertices, mean dist -0.1 [0.4 (%62.8)->0.2 (%37.2))] %85 local maxima, %11 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=jogad, 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 repositioning cortical surface to gray/csf boundary. smoothing T1 volume with sigma = 2.000 averaging target values for 5 iterations... 000: dt: 0.0000, sse=4462024.5, rms=1.82 027: dt: 0.5000, sse=5419337.0, rms=1.213 (0.000%) rms = 1.47, time step reduction 1 of 3 to 0.250... 028: dt: 0.2500, sse=4952040.0, rms=1.053 (0.000%) rms = 1.05, time step reduction 2 of 3 to 0.125... 029: dt: 0.2500, sse=4740437.5, rms=1.047 (0.000%) rms = 1.01, time step reduction 3 of 3 to 0.062... 030: dt: 0.1250, sse=4738515.0, rms=1.013 (0.000%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... removing 1 vertex label from ripped group removing 2 vertex label from ripped group deleting segment 4 with 2 points - only 0.00% unknown smoothing surface for 5 iterations... mean border=71.6, 182 (182) missing vertices, mean dist 1.7 [0.3 (%0.0)->2.6 (%100.0))] %24 local maxima, %41 large gradients and %31 min vals, 1042 gradients ignored tol=1.0e-04, sigma=2.0, host=jogad, 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=25838648.0, rms=27.24 001: dt: 0.5000, sse=21488774.0, rms=24.570 (0.000%) 002: dt: 0.5000, sse=17853256.0, rms=22.099 (0.000%) 003: dt: 0.5000, sse=14948841.0, rms=19.842 (0.000%) 004: dt: 0.5000, sse=12706038.0, rms=17.751 (0.000%) 005: dt: 0.5000, sse=11046368.0, rms=15.783 (0.000%) 006: dt: 0.5000, sse=9838537.0, rms=13.852 (0.000%) 007: dt: 0.5000, sse=8940093.0, rms=11.917 (0.000%) 008: dt: 0.5000, sse=8404729.0, rms=10.067 (0.000%) 009: dt: 0.5000, sse=8102271.5, rms=8.434 (0.000%) 010: dt: 0.5000, sse=8075250.0, rms=7.217 (0.000%) 011: dt: 0.5000, sse=8074328.0, rms=6.368 (0.000%) 012: dt: 0.5000, sse=8135520.5, rms=5.850 (0.000%) 013: dt: 0.5000, sse=8233840.0, rms=5.522 (0.000%) 014: dt: 0.5000, sse=8357789.5, rms=5.357 (0.000%) 015: dt: 0.5000, sse=8377098.0, rms=5.208 (0.000%) 016: dt: 0.5000, sse=8393197.0, rms=5.131 (0.000%) 017: dt: 0.5000, sse=8411597.0, rms=5.037 (0.000%) rms = 5.01, time step reduction 1 of 3 to 0.250... 018: dt: 0.5000, sse=8445832.0, rms=5.012 (0.000%) 019: dt: 0.2500, sse=5345347.5, rms=3.865 (0.000%) 020: dt: 0.2500, sse=5140741.0, rms=3.581 (0.000%) rms = 3.56, time step reduction 2 of 3 to 0.125... 021: dt: 0.2500, sse=4929287.0, rms=3.560 (0.000%) 022: dt: 0.1250, sse=4402269.5, rms=3.153 (0.000%) 023: dt: 0.1250, sse=4339700.0, rms=3.089 (0.000%) rms = 3.08, time step reduction 3 of 3 to 0.062... 024: dt: 0.1250, sse=4302509.5, rms=3.082 (0.000%) positioning took 2.8 minutes mean border=70.3, 1580 (39) missing vertices, mean dist 0.1 [0.2 (%49.4)->0.5 (%50.6))] %43 local maxima, %27 large gradients and %26 min vals, 487 gradients ignored tol=1.0e-04, sigma=1.0, host=jogad, 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=4753449.5, rms=4.28 rms = 4.67, time step reduction 1 of 3 to 0.250... 025: dt: 0.2500, sse=4545202.5, rms=3.668 (0.000%) 026: dt: 0.2500, sse=4546398.5, rms=3.315 (0.000%) rms = 3.35, time step reduction 2 of 3 to 0.125... 027: dt: 0.1250, sse=4449790.5, rms=3.210 (0.000%) 028: dt: 0.1250, sse=4365022.5, rms=3.058 (0.000%) 029: dt: 0.1250, sse=4357262.0, rms=2.998 (0.000%) rms = 2.97, time step reduction 3 of 3 to 0.062... 030: dt: 0.1250, sse=4376420.5, rms=2.967 (0.000%) positioning took 0.9 minutes mean border=69.2, 2020 (32) missing vertices, mean dist 0.1 [0.2 (%43.9)->0.4 (%56.1))] %56 local maxima, %14 large gradients and %26 min vals, 508 gradients ignored tol=1.0e-04, sigma=0.5, host=jogad, 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=4512301.0, rms=3.61 rms = 4.56, time step reduction 1 of 3 to 0.250... 031: dt: 0.2500, sse=4389625.5, rms=3.116 (0.000%) 032: dt: 0.2500, sse=4589226.0, rms=3.040 (0.000%) rms = 3.12, time step reduction 2 of 3 to 0.125... 033: dt: 0.1250, sse=4520300.0, rms=2.964 (0.000%) 034: dt: 0.1250, sse=4483843.0, rms=2.870 (0.000%) rms = 2.83, time step reduction 3 of 3 to 0.062... 035: dt: 0.1250, sse=4490174.0, rms=2.830 (0.000%) positioning took 0.7 minutes mean border=68.5, 4182 (28) missing vertices, mean dist 0.0 [0.2 (%49.7)->0.3 (%50.3))] %57 local maxima, %12 large gradients and %25 min vals, 515 gradients ignored tol=1.0e-04, sigma=0.2, host=jogad, 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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial... writing smoothed curvature to rh.curv.pial 000: dt: 0.0000, sse=4524206.0, rms=3.02 rms = 3.93, time step reduction 1 of 3 to 0.250... 036: dt: 0.2500, sse=4462245.0, rms=2.798 (0.000%) rms = 2.76, time step reduction 2 of 3 to 0.125... 037: dt: 0.2500, sse=4762482.0, rms=2.756 (0.000%) 038: dt: 0.1250, sse=4626674.0, rms=2.654 (0.000%) 039: dt: 0.1250, sse=4669739.0, rms=2.600 (0.000%) rms = 2.58, time step reduction 3 of 3 to 0.062... 040: dt: 0.1250, sse=4695852.5, rms=2.584 (0.000%) positioning took 0.7 minutes writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.curv.pial writing smoothed area to rh.area.pial writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.area.pial vertex spacing 0.90 +- 0.35 (0.07-->10.26) (max @ vno 162229 --> 162276) face area 0.33 +- 0.23 (0.00-->8.54) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 163333 vertices processed 25000 of 163333 vertices processed 50000 of 163333 vertices processed 75000 of 163333 vertices processed 100000 of 163333 vertices processed 125000 of 163333 vertices processed 150000 of 163333 vertices processed 0 of 163333 vertices processed 25000 of 163333 vertices processed 50000 of 163333 vertices processed 75000 of 163333 vertices processed 100000 of 163333 vertices processed 125000 of 163333 vertices processed 150000 of 163333 vertices processed thickness calculation complete, 32:335 truncations. 55789 vertices at 0 distance 129597 vertices at 1 distance 84438 vertices at 2 distance 31044 vertices at 3 distance 9706 vertices at 4 distance 2750 vertices at 5 distance 781 vertices at 6 distance 210 vertices at 7 distance 58 vertices at 8 distance 18 vertices at 9 distance 13 vertices at 10 distance 17 vertices at 11 distance 7 vertices at 12 distance 5 vertices at 13 distance 6 vertices at 14 distance 4 vertices at 15 distance 4 vertices at 16 distance 7 vertices at 17 distance 5 vertices at 18 distance 5 vertices at 19 distance 4 vertices at 20 distance writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.thickness positioning took 11.7 minutes #-------------------------------------------- #@# Surf Volume rh Thu Aug 10 20:24:49 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf \n mris_calc -o rh.area.mid rh.area add rh.area.pial \n Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] \n mris_calc -o rh.area.mid rh.area.mid div 2 \n Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] \n mris_calc -o rh.volume rh.area.mid mul rh.thickness \n Saving result to 'rh.volume' (type = MRI_CURV_FILE) [ ok ] #----------------------------------------- #@# WM/GM Contrast rh Thu Aug 10 20:24:49 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n pctsurfcon --s recon0256 --rh-only \n Log file is /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts/pctsurfcon.log Thu Aug 10 20:24:49 BRT 2017 setenv SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores cd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts /Applications/freesurfer/bin/pctsurfcon $Id: pctsurfcon,v 1.11.2.1 2011/11/10 20:37:10 nicks Exp $ Darwin jogadores-02.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 FREESURFER_HOME /Applications/freesurfer mri_vol2surf --mov /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.48059/rh.wm.mgh --regheader recon0256 --cortex srcvol = /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz as target reference. Loading label /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.cortex.label Reading surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 = 84539 Masking with /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.cortex.label Writing to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.48059/rh.wm.mgh Dim: 163333 1 1 mri_vol2surf --mov /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.48059/rh.gm.mgh --projfrac 0.3 --regheader recon0256 --cortex srcvol = /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/orig.mgz as target reference. Loading label /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.cortex.label Reading surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Done reading source surface Reading thickness /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 = 100042 Masking with /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.cortex.label Writing to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.48059/rh.gm.mgh Dim: 163333 1 1 mri_concat /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.48059/rh.wm.mgh /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/tmp.pctsurfcon.48059/rh.gm.mgh --paired-diff-norm --mul 100 --o /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.w-g.pct.mgh mri_segstats --in /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.w-g.pct.mgh --annot recon0256 rh aparc --sum /Users/jogadores/Desktop/volumetria_jogadores/recon0256/stats/rh.w-g.pct.stats --snr $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ cwd cmdline mri_segstats --in /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.w-g.pct.mgh --annot recon0256 rh aparc --sum /Users/jogadores/Desktop/volumetria_jogadores/recon0256/stats/rh.w-g.pct.stats --snr sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores UseRobust 0 Constructing seg from annotation Reading annotation reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Seg base 2000 Loading /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.w-g.pct.mgh Vertex Area is 0.594828 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation 0 2000 unknown 0 0.000 1 2001 bankssts 1382 905.106 2 2002 caudalanteriorcingulate 1407 926.533 3 2003 caudalmiddlefrontal 2922 1605.014 4 2004 corpuscallosum 0 0.000 5 2005 cuneus 3006 1832.989 6 2006 entorhinal 777 491.971 7 2007 fusiform 5809 3437.507 8 2008 inferiorparietal 8982 5089.294 9 2009 inferiortemporal 6315 3650.634 10 2010 isthmuscingulate 1492 937.052 11 2011 lateraloccipital 8792 5197.432 12 2012 lateralorbitofrontal 4976 2963.549 13 2013 lingual 5020 3120.983 14 2014 medialorbitofrontal 3350 2093.604 15 2015 middletemporal 6226 3873.986 16 2016 parahippocampal 938 583.047 17 2017 paracentral 2577 1569.903 18 2018 parsopercularis 2724 1515.584 19 2019 parsorbitalis 1559 923.715 20 2020 parstriangularis 3609 2040.890 21 2021 pericalcarine 2111 1444.833 22 2022 postcentral 6263 3919.195 23 2023 posteriorcingulate 2234 1366.356 24 2024 precentral 9339 5798.737 25 2025 precuneus 6994 4165.068 26 2026 rostralanteriorcingulate 1445 928.631 27 2027 rostralmiddlefrontal 11327 6249.403 28 2028 superiorfrontal 11796 6841.894 29 2029 superiorparietal 10927 6422.985 30 2030 superiortemporal 6045 3658.610 31 2031 supramarginal 7612 4177.463 32 2032 frontalpole 579 248.639 33 2033 temporalpole 784 464.633 34 2034 transversetemporal 792 489.102 35 2035 insula 4302 2539.286 Reporting on 34 segmentations mri_segstats done Cleaning up #----------------------------------------- #@# Parcellation Stats rh Thu Aug 10 20:24:56 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_anatomical_stats -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab recon0256 rh white \n computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/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 1382 905 2151 2.473 0.297 0.114 0.055 20 3.5 bankssts 1407 927 1941 1.995 0.668 0.147 0.055 24 2.7 caudalanteriorcingulate 2922 1605 3820 2.313 0.537 0.133 0.145 144 25.2 caudalmiddlefrontal 3006 1833 2943 1.509 0.507 0.162 0.072 59 8.6 cuneus 777 492 1716 2.829 0.738 0.179 0.176 49 5.5 entorhinal 5809 3438 9197 2.396 0.592 0.144 0.096 356 21.6 fusiform 8982 5089 12356 2.345 0.442 0.133 0.130 559 26.0 inferiorparietal 6315 3651 10380 2.543 0.701 0.153 0.138 447 46.9 inferiortemporal 1492 937 2088 2.042 0.699 0.153 0.191 218 18.1 isthmuscingulate 8792 5197 10414 1.893 0.569 0.163 0.282 416 28.7 lateraloccipital 4976 2964 7233 2.329 0.717 0.153 0.133 284 20.0 lateralorbitofrontal 5020 3121 5391 1.618 0.542 0.170 0.089 126 18.2 lingual 3350 2094 4898 2.195 0.501 0.145 0.056 62 7.9 medialorbitofrontal 6226 3874 12469 2.693 0.615 0.134 0.062 125 17.9 middletemporal 938 583 1324 2.186 0.470 0.120 0.046 15 1.7 parahippocampal 2577 1570 3061 1.926 0.577 0.140 0.070 32 7.6 paracentral 2724 1516 3454 2.196 0.457 0.123 0.060 45 6.2 parsopercularis 1559 924 2585 2.467 0.561 0.170 0.147 52 13.1 parsorbitalis 3609 2041 4555 2.072 0.467 0.135 0.077 119 9.4 parstriangularis 2111 1445 1572 1.215 0.340 0.197 0.081 59 7.2 pericalcarine 6263 3919 6928 1.625 0.602 0.134 0.056 95 16.6 postcentral 2234 1366 3173 2.190 0.651 0.159 0.094 52 10.0 posteriorcingulate 9339 5799 11827 1.959 0.655 0.143 0.067 166 27.6 precentral 6994 4165 9734 2.194 0.491 0.138 0.071 261 23.8 precuneus 1445 929 2399 2.487 0.607 0.146 0.051 27 3.1 rostralanteriorcingulate 11327 6249 15194 2.229 0.465 0.143 0.129 1060 64.3 rostralmiddlefrontal 11796 6842 18539 2.547 0.504 0.148 0.096 2407 55.3 superiorfrontal 10927 6423 12699 1.902 0.555 0.142 0.067 178 31.2 superiorparietal 6045 3659 9288 2.332 0.609 0.127 0.199 277 23.2 superiortemporal 7612 4177 10346 2.313 0.471 0.126 0.059 150 21.0 supramarginal 579 249 698 2.139 0.375 0.155 0.127 60 3.9 frontalpole 784 465 1949 3.302 0.914 0.187 0.147 23 4.7 temporalpole 792 489 697 1.405 0.314 0.163 0.069 13 2.4 transversetemporal 4302 2539 6453 2.644 0.649 0.148 0.164 195 23.8 insula #----------------------------------------- #@# Cortical Parc 2 rh Thu Aug 10 20:25:16 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.mgz -seed 1234 recon0256 rh ../surf/rh.sphere.reg /Applications/freesurfer/average/rh.destrieux.simple.2009-07-29.gcs ../label/rh.aparc.a2009s.annot \n setting seed for random number generator to 1234 using ../mri/aseg.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading atlas from /Applications/freesurfer/average/rh.destrieux.simple.2009-07-29.gcs... reading color table from GCSA file.... average std = 1.9 0.2 using min determinant for regularization = 0.000 0 singular and 851 ill-conditioned covariance matrices regularized input 1: CURVATURE FILE, flags 0, avgs 0, name sulc input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 3 labels changed using aseg relabeling using gibbs priors... 000: 11049 changed, 163333 examined... 001: 2669 changed, 42605 examined... 002: 842 changed, 13731 examined... 003: 384 changed, 4633 examined... 004: 214 changed, 2170 examined... 005: 111 changed, 1164 examined... 006: 60 changed, 607 examined... 007: 23 changed, 296 examined... 008: 16 changed, 127 examined... 009: 11 changed, 90 examined... 010: 4 changed, 62 examined... 011: 1 changed, 18 examined... 012: 1 changed, 6 examined... 013: 0 changed, 7 examined... 1 labels changed using aseg 000: 362 total segments, 278 labels (4327 vertices) changed 001: 115 total segments, 31 labels (215 vertices) changed 002: 85 total segments, 2 labels (93 vertices) changed 003: 83 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 108 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1205 vertices marked for relabeling... 1205 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 1 minutes and 2 seconds. #----------------------------------------- #@# Parcellation Stats 2 rh Thu Aug 10 20:26:18 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_anatomical_stats -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 recon0256 rh white \n computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. reading colortable from annotation file... colortable with 76 entries read (originally /autofs/space/birn_044/users/christophe_atlas_rebuild//scripts_2008/Simple_surface_labels2009.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 1107 606 1356 2.094 0.526 0.166 0.114 82 5.8 G_and_S_frontomargin 2047 1143 3038 2.297 0.610 0.138 0.387 80 5.7 G_and_S_occipital_inf 1822 1132 2101 1.632 0.603 0.153 0.092 45 7.2 G_and_S_paracentral 1689 926 2046 2.121 0.419 0.128 0.060 27 4.5 G_and_S_subcentral 1262 742 2104 2.300 0.414 0.161 0.103 60 4.6 G_and_S_transv_frontopol 3298 2100 5209 2.430 0.431 0.141 0.048 59 6.7 G_and_S_cingul-Ant 1965 1257 3328 2.511 0.485 0.148 0.060 31 4.9 G_and_S_cingul-Mid-Ant 1717 1062 2412 2.321 0.477 0.149 0.072 27 5.5 G_and_S_cingul-Mid-Post 747 436 1290 2.396 0.479 0.168 0.068 14 2.1 G_cingul-Post-dorsal 392 228 743 2.441 0.804 0.151 0.059 7 1.0 G_cingul-Post-ventral 2871 1722 2721 1.467 0.490 0.158 0.068 54 7.8 G_cuneus 2076 983 2759 2.239 0.418 0.123 0.079 76 6.1 G_front_inf-Opercular 695 356 831 2.053 0.500 0.178 0.136 42 4.2 G_front_inf-Orbital 2249 1165 3025 2.188 0.439 0.138 0.097 85 6.4 G_front_inf-Triangul 4969 2270 6781 2.360 0.454 0.153 0.248 947 63.5 G_front_middle 8080 4328 12962 2.550 0.566 0.159 0.124 2373 49.7 G_front_sup 671 361 971 2.596 0.487 0.149 0.128 26 3.4 G_Ins_lg_and_S_cent_ins 988 501 1921 3.135 0.616 0.154 0.123 31 5.5 G_insular_short 2486 1299 3393 2.184 0.491 0.139 0.060 43 6.3 G_occipital_middle 1682 1007 1681 1.494 0.421 0.155 0.073 44 5.7 G_occipital_sup 2102 1143 3573 2.453 0.486 0.138 0.093 141 7.5 G_oc-temp_lat-fusifor 3383 2018 3965 1.700 0.594 0.177 0.105 102 14.0 G_oc-temp_med-Lingual 1623 917 2773 2.529 0.766 0.188 0.350 174 17.4 G_oc-temp_med-Parahip 3447 1887 5655 2.390 0.714 0.163 0.206 296 26.3 G_orbital 4172 2022 6087 2.456 0.465 0.142 0.234 528 18.8 G_pariet_inf-Angular 3741 1854 5472 2.431 0.468 0.121 0.057 64 9.1 G_pariet_inf-Supramar 3902 2133 5035 2.000 0.629 0.151 0.084 80 14.3 G_parietal_sup 2370 1423 2909 1.610 0.640 0.137 0.060 33 6.6 G_postcentral 3690 2156 5539 2.090 0.771 0.142 0.072 52 11.9 G_precentral 3249 1800 5079 2.257 0.494 0.151 0.100 210 16.4 G_precuneus 918 563 1528 2.210 0.518 0.167 0.078 23 3.0 G_rectus 599 375 845 2.245 0.884 0.133 0.062 10 1.3 G_subcallosal 645 386 614 1.422 0.321 0.169 0.075 12 2.1 G_temp_sup-G_T_transv 2044 1040 3835 2.660 0.520 0.139 0.522 248 17.6 G_temp_sup-Lateral 902 580 1834 2.953 0.623 0.127 0.062 10 2.3 G_temp_sup-Plan_polar 1090 675 1443 2.050 0.418 0.129 0.048 14 2.4 G_temp_sup-Plan_tempo 3308 1792 6516 2.759 0.791 0.164 0.209 398 39.0 G_temporal_inf 4115 2451 9222 2.802 0.624 0.141 0.072 100 13.9 G_temporal_middle 407 281 464 1.835 0.432 0.125 0.035 4 0.6 Lat_Fis-ant-Horizont 157 120 186 2.110 0.504 0.141 0.033 1 0.3 Lat_Fis-ant-Vertical 1653 1093 1763 1.913 0.532 0.134 0.051 22 3.8 Lat_Fis-post 3676 2290 4080 1.687 0.581 0.200 0.412 291 16.0 Pole_occipital 2387 1375 4909 2.869 0.768 0.172 0.138 152 12.7 Pole_temporal 2658 1764 2312 1.495 0.594 0.164 0.063 46 7.1 S_calcarine 2832 2003 2373 1.299 0.381 0.143 0.049 30 5.9 S_central 1431 938 1865 2.196 0.484 0.128 0.042 13 2.5 S_cingul-Marginalis 682 460 946 2.513 0.502 0.138 0.061 8 1.9 S_circular_insula_ant 1320 902 1717 2.245 0.713 0.112 0.033 8 1.9 S_circular_insula_inf 1632 1088 2249 2.517 0.345 0.117 0.035 10 2.5 S_circular_insula_sup 1696 1036 2649 2.380 0.610 0.145 0.109 106 7.7 S_collat_transv_ant 658 448 585 1.579 0.372 0.193 0.074 15 2.0 S_collat_transv_post 3064 1857 3572 1.996 0.401 0.120 0.051 50 5.6 S_front_inf 2711 1714 3351 2.097 0.374 0.130 0.049 35 5.1 S_front_middle 2567 1580 3580 2.440 0.428 0.122 0.063 77 7.9 S_front_sup 1038 583 1162 2.153 0.388 0.132 0.058 15 2.9 S_interm_prim-Jensen 4938 3001 5486 2.036 0.410 0.128 0.052 73 10.4 S_intrapariet_and_P_trans 1209 781 1174 1.702 0.399 0.148 0.050 15 2.7 S_oc_middle_and_Lunatus 1250 798 1266 1.777 0.442 0.136 0.045 16 2.2 S_oc_sup_and_transversal 1343 841 1485 2.033 0.393 0.147 0.053 17 3.0 S_occipital_ant 1077 696 1482 2.380 0.533 0.133 0.046 11 2.1 S_oc-temp_lat 1930 1347 2386 1.987 0.434 0.130 0.038 17 3.2 S_oc-temp_med_and_Lingual 664 422 867 2.022 0.471 0.141 0.046 9 1.3 S_orbital_lateral 1050 713 1236 1.949 0.572 0.122 0.035 9 1.3 S_orbital_med-olfact 1656 1056 2801 2.673 0.571 0.140 0.046 18 3.3 S_orbital-H_Shaped 2701 1679 2940 1.889 0.489 0.142 0.061 46 7.2 S_parieto_occipital 2001 1271 1585 1.590 0.608 0.154 0.187 243 22.4 S_pericallosal 2653 1695 2865 1.860 0.489 0.132 0.057 39 7.8 S_postcentral 1845 1158 2273 2.137 0.445 0.126 0.056 25 4.8 S_precentral-inf-part 1720 1188 2044 2.022 0.533 0.153 0.063 24 4.6 S_precentral-sup-part 361 237 417 2.192 0.548 0.142 0.038 4 0.6 S_suborbital 1226 842 1847 2.260 0.484 0.128 0.040 12 2.0 S_subparietal 1828 1187 2275 2.314 0.410 0.116 0.032 14 2.5 S_temporal_inf 5807 3883 8223 2.362 0.388 0.114 0.031 43 7.7 S_temporal_sup 472 306 459 1.872 0.504 0.160 0.059 7 1.2 S_temporal_transverse #----------------------------------------- #@# Cortical Parc 3 rh Thu Aug 10 20:26:38 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.mgz -seed 1234 recon0256 rh ../surf/rh.sphere.reg /Applications/freesurfer/average/rh.DKTatlas40.gcs ../label/rh.aparc.DKTatlas40.annot \n setting seed for random number generator to 1234 using ../mri/aseg.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading atlas from /Applications/freesurfer/average/rh.DKTatlas40.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.008 0 singular and 237 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1172 labels changed using aseg relabeling using gibbs priors... 000: 3176 changed, 163333 examined... 001: 741 changed, 13404 examined... 002: 182 changed, 3989 examined... 003: 65 changed, 1075 examined... 004: 36 changed, 380 examined... 005: 16 changed, 234 examined... 006: 6 changed, 97 examined... 007: 8 changed, 44 examined... 008: 7 changed, 33 examined... 009: 7 changed, 33 examined... 010: 9 changed, 42 examined... 011: 7 changed, 42 examined... 012: 5 changed, 36 examined... 013: 4 changed, 26 examined... 014: 5 changed, 23 examined... 015: 4 changed, 23 examined... 016: 5 changed, 19 examined... 017: 4 changed, 20 examined... 018: 4 changed, 22 examined... 019: 4 changed, 23 examined... 020: 4 changed, 22 examined... 021: 4 changed, 23 examined... 022: 3 changed, 23 examined... 023: 4 changed, 21 examined... 024: 2 changed, 18 examined... 025: 5 changed, 16 examined... 026: 6 changed, 25 examined... 027: 4 changed, 24 examined... 028: 5 changed, 23 examined... 029: 7 changed, 25 examined... 030: 3 changed, 30 examined... 031: 5 changed, 20 examined... 032: 4 changed, 29 examined... 033: 3 changed, 21 examined... 034: 0 changed, 17 examined... 244 labels changed using aseg 000: 82 total segments, 49 labels (332 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, 48 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1102 vertices marked for relabeling... 1102 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas40.annot... classification took 0 minutes and 47 seconds. #----------------------------------------- #@# Parcellation Stats 3 rh Thu Aug 10 20:27:26 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_anatomical_stats -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas40.stats -b -a ../label/rh.aparc.DKTatlas40.annot -c ../label/aparc.annot.DKTatlas40.ctab recon0256 rh white \n computing statistics for each annotation in ../label/rh.aparc.DKTatlas40.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. reading colortable from annotation file... colortable with 36 entries read (originally /Applications/freesurfer/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.DKTatlas40.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 1560 1010 2244 2.074 0.692 0.147 0.061 36 3.6 caudalanteriorcingulate 3045 1700 3998 2.318 0.532 0.135 0.142 145 25.4 caudalmiddlefrontal 3563 2178 3456 1.498 0.496 0.158 0.070 65 9.9 cuneus 751 484 1719 2.827 0.729 0.172 0.167 44 5.1 entorhinal 4904 2961 7614 2.351 0.560 0.139 0.084 256 16.4 fusiform 8371 4734 11430 2.335 0.447 0.132 0.135 550 24.5 inferiorparietal 7166 4109 11933 2.566 0.703 0.156 0.142 546 52.1 inferiortemporal 1491 937 2073 2.026 0.704 0.153 0.191 218 18.0 isthmuscingulate 9322 5479 10962 1.886 0.573 0.161 0.269 421 30.4 lateraloccipital 5076 3019 7740 2.350 0.716 0.151 0.088 142 20.6 lateralorbitofrontal 5002 3114 5350 1.615 0.539 0.171 0.089 127 18.2 lingual 2919 1796 4235 2.165 0.572 0.146 0.068 98 8.4 medialorbitofrontal 7355 4616 14228 2.662 0.586 0.133 0.058 136 19.6 middletemporal 923 572 1315 2.181 0.458 0.120 0.047 15 1.7 parahippocampal 2696 1628 3247 1.955 0.596 0.141 0.082 40 8.5 paracentral 2969 1630 3757 2.194 0.449 0.126 0.078 91 8.9 parsopercularis 1865 1043 2838 2.406 0.524 0.166 0.254 225 14.0 parsorbitalis 4110 2314 5246 2.084 0.456 0.134 0.079 124 10.8 parstriangularis 2152 1477 1606 1.212 0.338 0.196 0.081 61 7.3 pericalcarine 6785 4222 7489 1.645 0.601 0.137 0.062 106 18.5 postcentral 2289 1407 3252 2.193 0.639 0.159 0.094 53 10.2 posteriorcingulate 8952 5548 11386 1.953 0.663 0.141 0.061 119 24.5 precentral 7099 4236 9899 2.204 0.474 0.138 0.069 261 23.8 precuneus 1505 973 2446 2.491 0.568 0.152 0.053 29 3.3 rostralanteriorcingulate 7189 3962 9485 2.223 0.464 0.141 0.121 255 42.0 rostralmiddlefrontal 15682 9055 23552 2.448 0.509 0.148 0.104 3178 75.9 superiorfrontal 9616 5617 11356 1.938 0.546 0.142 0.066 159 27.7 superiorparietal 8228 4918 13193 2.457 0.686 0.140 0.218 462 41.8 superiortemporal 7227 3963 9896 2.326 0.466 0.124 0.059 119 19.6 supramarginal 750 464 667 1.381 0.299 0.160 0.067 11 2.2 transversetemporal 3851 2308 5862 2.666 0.626 0.137 0.083 82 14.2 insula #-------------------------------------------- #@# Cortical ribbon mask Thu Aug 10 20:27:46 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mris_volmask --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon recon0256 \n SUBJECTS_DIR is /Users/jogadores/Desktop/volumetria_jogadores 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 = 22 writing volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/ribbon.mgz writing ribbon files #-------------------------------------------- #@# ASeg Stats Thu Aug 10 20:36:45 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256 \n 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 /Applications/freesurfer/ASegStatsLUT.txt --subject recon0256 \n $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 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 /Applications/freesurfer/ASegStatsLUT.txt --subject recon0256 sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores UseRobust 0 atlas_icv (eTIV) = 1731799 mm^3 (det: 1.124903 ) Computing euler number orig.nofix lheno = -176, rheno = -184 orig.nofix lhholes = 89, rhholes = 93 Loading mri/aseg.mgz Getting Brain Volume Statistics lhCtxGM: 208097.733 207229.000 diff= 868.7 pctdiff= 0.417 rhCtxGM: 210460.568 209651.000 diff= 809.6 pctdiff= 0.385 lhCtxWM: 305147.294 305818.000 diff= -670.7 pctdiff=-0.220 rhCtxWM: 306056.067 306325.000 diff= -268.9 pctdiff=-0.088 SubCortGMVol 58660.000 SupraTentVol 1118831.661 (1115882.000) diff=2949.661 pctdiff=0.264 SupraTentVolNotVent 1090709.661 (1087760.000) diff=2949.661 pctdiff=0.270 BrainSegVol 1273105.000 (1269072.000) diff=4033.000 pctdiff=0.317 BrainSegVolNotVent 1239216.000 (1239626.661) diff=-410.661 pctdiff=-0.033 BrainSegVolNotVent 1239216.000 CerebellumVol 151128.000 VentChorVol 28122.000 3rd4th5thCSF 5767.000 CSFVol 1761.000, OptChiasmVol 301.000 MaskVol 1803155.000 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 3 4 Left-Lateral-Ventricle 11750 11750.463 4 5 Left-Inf-Lat-Vent 607 606.884 5 7 Left-Cerebellum-White-Matter 16835 16834.574 6 8 Left-Cerebellum-Cortex 57834 57833.961 7 10 Left-Thalamus-Proper 8375 8374.739 8 11 Left-Caudate 3293 3292.921 9 12 Left-Putamen 5149 5149.297 10 13 Left-Pallidum 1513 1512.899 11 14 3rd-Ventricle 1701 1700.547 12 15 4th-Ventricle 2396 2396.293 13 16 Brain-Stem 28045 28044.885 14 17 Left-Hippocampus 4525 4525.456 15 18 Left-Amygdala 1564 1563.689 16 24 CSF 1669 1668.631 17 26 Left-Accumbens-area 446 445.973 18 28 Left-VentralDC 4586 4586.109 19 30 Left-vessel 40 40.447 20 31 Left-choroid-plexus 2499 2498.833 23 43 Right-Lateral-Ventricle 11329 11329.013 24 44 Right-Inf-Lat-Vent 424 424.174 25 46 Right-Cerebellum-White-Matter 17053 17053.480 26 47 Right-Cerebellum-Cortex 59810 59810.145 27 49 Right-Thalamus-Proper 8490 8490.058 28 50 Right-Caudate 3074 3074.178 29 51 Right-Putamen 4594 4594.385 30 52 Right-Pallidum 1395 1395.135 31 53 Right-Hippocampus 4365 4365.341 32 54 Right-Amygdala 1370 1370.149 33 58 Right-Accumbens-area 336 335.911 34 60 Right-VentralDC 4126 4125.825 35 62 Right-vessel 61 61.439 36 63 Right-choroid-plexus 1863 1862.844 37 72 5th-Ventricle 10 10.361 38 77 WM-hypointensities 6165 6165.178 39 78 Left-WM-hypointensities 0 0.000 40 79 Right-WM-hypointensities 0 0.000 41 80 non-WM-hypointensities 33 32.767 42 81 Left-non-WM-hypointensities 0 0.000 43 82 Right-non-WM-hypointensities 0 0.000 44 85 Optic-Chiasm 276 276.469 45 251 CC_Posterior 1115 1114.801 46 252 CC_Mid_Posterior 462 461.847 47 253 CC_Central 414 414.368 48 254 CC_Mid_Anterior 489 488.993 49 255 CC_Anterior 910 909.624 Reporting on 45 segmentations mri_segstats done #----------------------------------------- #@# AParc-to-ASeg Thu Aug 10 20:40:05 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256 \n mri_aparc2aseg --s recon0256 --volmask \n SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores subject recon0256 outvol /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aparc+aseg.mgz useribbon 0 baseoffset 0 RipUnknown 0 Reading lh white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading lh pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial Loading lh annotations from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Reading rh white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading rh pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial Loading rh annotations from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz ASeg Vox2RAS: ----------- -1.000 0.000 0.000 128.000; 0.000 0.000 1.000 -128.000; 0.000 -1.000 0.000 128.000; 0.000 0.000 0.000 1.000; ------------------------- 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 = 415007 Used brute-force search on 0 voxels Writing output aseg to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aparc+aseg.mgz /Users/jogadores/Desktop/volumetria_jogadores/recon0256 \n mri_aparc2aseg --s recon0256 --volmask --a2009s \n SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores subject recon0256 outvol /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aparc.a2009s+aseg.mgz useribbon 0 baseoffset 10100 RipUnknown 0 Reading lh white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading lh pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial Loading lh annotations from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally /autofs/space/birn_044/users/christophe_atlas_rebuild//scripts_2008/Simple_surface_labels2009.txt) Reading rh white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading rh pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial Loading rh annotations from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally /autofs/space/birn_044/users/christophe_atlas_rebuild//scripts_2008/Simple_surface_labels2009.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz ASeg Vox2RAS: ----------- -1.000 0.000 0.000 128.000; 0.000 0.000 1.000 -128.000; 0.000 -1.000 0.000 128.000; 0.000 0.000 0.000 1.000; ------------------------- 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 = 415007 Used brute-force search on 0 voxels Writing output aseg to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aparc.a2009s+aseg.mgz #----------------------------------------- #@# WMParc Thu Aug 10 20:42:28 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256 \n mri_aparc2aseg --s recon0256 --labelwm --hypo-as-wm --rip-unknown --volmask --o mri/wmparc.mgz --ctxseg aparc+aseg.mgz \n SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores subject recon0256 outvol mri/wmparc.mgz useribbon 0 baseoffset 0 labeling wm labeling hypo-intensities as wm dmaxctx 5.000000 RipUnknown 1 CtxSeg /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aparc+aseg.mgz Reading lh white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading lh pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial Loading lh annotations from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Reading rh white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading rh pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial Loading rh annotations from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/ribbon.mgz Loading filled from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/filled.mgz Ripping vertices labeled as unkown Ripped 10099 vertices from left hemi Ripped 8920 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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz Loading Ctx Seg File /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aparc+aseg.mgz ASeg Vox2RAS: ----------- -1.000 0.000 0.000 128.000; 0.000 0.000 1.000 -128.000; 0.000 -1.000 0.000 128.000; 0.000 0.000 0.000 1.000; ------------------------- 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 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mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 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 recon0256 --surf-wm-vol --ctab /Applications/freesurfer/WMParcStatsLUT.txt --etiv sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores UseRobust 0 atlas_icv (eTIV) = 1731799 mm^3 (det: 1.124903 ) Loading mri/wmparc.mgz Getting Brain Volume Statistics lhCtxGM: 208097.733 207229.000 diff= 868.7 pctdiff= 0.417 rhCtxGM: 210460.568 209651.000 diff= 809.6 pctdiff= 0.385 lhCtxWM: 305147.294 305818.000 diff= -670.7 pctdiff=-0.220 rhCtxWM: 306056.067 306325.000 diff= -268.9 pctdiff=-0.088 SubCortGMVol 58660.000 SupraTentVol 1118831.661 (1115882.000) diff=2949.661 pctdiff=0.264 SupraTentVolNotVent 1090709.661 (1087760.000) diff=2949.661 pctdiff=0.270 BrainSegVol 1273105.000 (1269072.000) diff=4033.000 pctdiff=0.317 BrainSegVolNotVent 1239216.000 (1239626.661) diff=-410.661 pctdiff=-0.033 BrainSegVolNotVent 1239216.000 CerebellumVol 151128.000 VentChorVol 28122.000 3rd4th5thCSF 5767.000 CSFVol 1761.000, OptChiasmVol 301.000 MaskVol 1803155.000 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 0 3000 wm-lh-unknown 0 0.000 1 3001 wm-lh-bankssts 2427 2427.336 2 3002 wm-lh-caudalanteriorcingulate 2726 2726.358 3 3003 wm-lh-caudalmiddlefrontal 8850 8850.416 4 3004 wm-lh-corpuscallosum 0 0.000 5 3005 wm-lh-cuneus 3750 3750.125 6 3006 wm-lh-entorhinal 1250 1250.390 7 3007 wm-lh-fusiform 9143 9142.830 8 3008 wm-lh-inferiorparietal 11279 11278.912 9 3009 wm-lh-inferiortemporal 9290 9289.868 10 3010 wm-lh-isthmuscingulate 4266 4265.851 11 3011 wm-lh-lateraloccipital 15056 15055.861 12 3012 wm-lh-lateralorbitofrontal 9474 9474.176 13 3013 wm-lh-lingual 7124 7124.227 14 3014 wm-lh-medialorbitofrontal 5936 5936.326 15 3015 wm-lh-middletemporal 7493 7493.022 16 3016 wm-lh-parahippocampal 1851 1851.483 17 3017 wm-lh-paracentral 5364 5363.504 18 3018 wm-lh-parsopercularis 3650 3649.723 19 3019 wm-lh-parsorbitalis 1254 1253.745 20 3020 wm-lh-parstriangularis 3920 3919.872 21 3021 wm-lh-pericalcarine 4736 4736.030 22 3022 wm-lh-postcentral 9793 9793.247 23 3023 wm-lh-posteriorcingulate 4025 4024.850 24 3024 wm-lh-precentral 20945 20944.920 25 3025 wm-lh-precuneus 10278 10278.038 26 3026 wm-lh-rostralanteriorcingulate 2897 2896.870 27 3027 wm-lh-rostralmiddlefrontal 16036 16035.682 28 3028 wm-lh-superiorfrontal 23496 23495.965 29 3029 wm-lh-superiorparietal 19004 19003.518 30 3030 wm-lh-superiortemporal 9678 9677.624 31 3031 wm-lh-supramarginal 9579 9578.930 32 3032 wm-lh-frontalpole 143 142.844 33 3033 wm-lh-temporalpole 722 721.879 34 3034 wm-lh-transversetemporal 1454 1454.092 35 3035 wm-lh-insula 9793 9792.542 36 3100 wm-lh-Unknown 0 0.000 37 3101 wm-lh-Corpus_callosum 0 0.000 38 3102 wm-lh-G_and_S_Insula_ONLY_AVERAGE 0 0.000 39 3103 wm-lh-G_cingulate-Isthmus 0 0.000 40 3104 wm-lh-G_cingulate-Main_part 0 0.000 41 3105 wm-lh-G_cuneus 0 0.000 42 3106 wm-lh-G_frontal_inf-Opercular_part 0 0.000 43 3107 wm-lh-G_frontal_inf-Orbital_part 0 0.000 44 3108 wm-lh-G_frontal_inf-Triangular_part 0 0.000 45 3109 wm-lh-G_frontal_middle 0 0.000 46 3110 wm-lh-G_frontal_superior 0 0.000 47 3111 wm-lh-G_frontomarginal 0 0.000 48 3112 wm-lh-G_insular_long 0 0.000 49 3113 wm-lh-G_insular_short 0 0.000 50 3114 wm-lh-G_and_S_occipital_inferior 0 0.000 51 3115 wm-lh-G_occipital_middle 0 0.000 52 3116 wm-lh-G_occipital_superior 0 0.000 53 3117 wm-lh-G_occipit-temp_lat-Or_fusiform 0 0.000 54 3118 wm-lh-G_occipit-temp_med-Lingual_part 0 0.000 55 3119 wm-lh-G_occipit-temp_med-Parahippocampal_part 0 0.000 56 3120 wm-lh-G_orbital 0 0.000 57 3121 wm-lh-G_paracentral 0 0.000 58 3122 wm-lh-G_parietal_inferior-Angular_part 0 0.000 59 3123 wm-lh-G_parietal_inferior-Supramarginal_part 0 0.000 60 3124 wm-lh-G_parietal_superior 0 0.000 61 3125 wm-lh-G_postcentral 0 0.000 62 3126 wm-lh-G_precentral 0 0.000 63 3127 wm-lh-G_precuneus 0 0.000 64 3128 wm-lh-G_rectus 0 0.000 65 3129 wm-lh-G_subcallosal 0 0.000 66 3130 wm-lh-G_subcentral 0 0.000 67 3131 wm-lh-G_temporal_inferior 0 0.000 68 3132 wm-lh-G_temporal_middle 0 0.000 69 3133 wm-lh-G_temp_sup-G_temp_transv_and_interm_S 0 0.000 70 3134 wm-lh-G_temp_sup-Lateral_aspect 0 0.000 71 3135 wm-lh-G_temp_sup-Planum_polare 0 0.000 72 3136 wm-lh-G_temp_sup-Planum_tempolare 0 0.000 73 3137 wm-lh-G_and_S_transverse_frontopolar 0 0.000 74 3138 wm-lh-Lat_Fissure-ant_sgt-ramus_horizontal 0 0.000 75 3139 wm-lh-Lat_Fissure-ant_sgt-ramus_vertical 0 0.000 76 3140 wm-lh-Lat_Fissure-post_sgt 0 0.000 77 3141 wm-lh-Medial_wall 0 0.000 78 3142 wm-lh-Pole_occipital 0 0.000 79 3143 wm-lh-Pole_temporal 0 0.000 80 3144 wm-lh-S_calcarine 0 0.000 81 3145 wm-lh-S_central 0 0.000 82 3146 wm-lh-S_central_insula 0 0.000 83 3147 wm-lh-S_cingulate-Main_part_and_Intracingulate 0 0.000 84 3148 wm-lh-S_cingulate-Marginalis_part 0 0.000 85 3149 wm-lh-S_circular_insula_anterior 0 0.000 86 3150 wm-lh-S_circular_insula_inferior 0 0.000 87 3151 wm-lh-S_circular_insula_superior 0 0.000 88 3152 wm-lh-S_collateral_transverse_ant 0 0.000 89 3153 wm-lh-S_collateral_transverse_post 0 0.000 90 3154 wm-lh-S_frontal_inferior 0 0.000 91 3155 wm-lh-S_frontal_middle 0 0.000 92 3156 wm-lh-S_frontal_superior 0 0.000 93 3157 wm-lh-S_frontomarginal 0 0.000 94 3158 wm-lh-S_intermedius_primus-Jensen 0 0.000 95 3159 wm-lh-S_intraparietal-and_Parietal_transverse 0 0.000 96 3160 wm-lh-S_occipital_anterior 0 0.000 97 3161 wm-lh-S_occipital_middle_and_Lunatus 0 0.000 98 3162 wm-lh-S_occipital_superior_and_transversalis 0 0.000 99 3163 wm-lh-S_occipito-temporal_lateral 0 0.000 100 3164 wm-lh-S_occipito-temporal_medial_and_S_Lingual 0 0.000 101 3165 wm-lh-S_orbital-H_shapped 0 0.000 102 3166 wm-lh-S_orbital_lateral 0 0.000 103 3167 wm-lh-S_orbital_medial-Or_olfactory 0 0.000 104 3168 wm-lh-S_paracentral 0 0.000 105 3169 wm-lh-S_parieto_occipital 0 0.000 106 3170 wm-lh-S_pericallosal 0 0.000 107 3171 wm-lh-S_postcentral 0 0.000 108 3172 wm-lh-S_precentral-Inferior-part 0 0.000 109 3173 wm-lh-S_precentral-Superior-part 0 0.000 110 3174 wm-lh-S_subcentral_ant 0 0.000 111 3175 wm-lh-S_subcentral_post 0 0.000 112 3176 wm-lh-S_suborbital 0 0.000 113 3177 wm-lh-S_subparietal 0 0.000 114 3178 wm-lh-S_supracingulate 0 0.000 115 3179 wm-lh-S_temporal_inferior 0 0.000 116 3180 wm-lh-S_temporal_superior 0 0.000 117 3181 wm-lh-S_temporal_transverse 0 0.000 118 4000 wm-rh-unknown 0 0.000 119 4001 wm-rh-bankssts 3134 3134.374 120 4002 wm-rh-caudalanteriorcingulate 4017 4016.994 121 4003 wm-rh-caudalmiddlefrontal 5695 5695.048 122 4004 wm-rh-corpuscallosum 0 0.000 123 4005 wm-rh-cuneus 4319 4318.626 124 4006 wm-rh-entorhinal 1412 1412.440 125 4007 wm-rh-fusiform 8102 8101.597 126 4008 wm-rh-inferiorparietal 13072 13071.912 127 4009 wm-rh-inferiortemporal 9010 9010.455 128 4010 wm-rh-isthmuscingulate 3549 3549.415 129 4011 wm-rh-lateraloccipital 13412 13412.239 130 4012 wm-rh-lateralorbitofrontal 8703 8703.478 131 4013 wm-rh-lingual 7305 7305.459 132 4014 wm-rh-medialorbitofrontal 4308 4308.176 133 4015 wm-rh-middletemporal 7885 7885.045 134 4016 wm-rh-parahippocampal 1828 1827.770 135 4017 wm-rh-paracentral 5867 5867.213 136 4018 wm-rh-parsopercularis 4451 4450.616 137 4019 wm-rh-parsorbitalis 1635 1634.584 138 4020 wm-rh-parstriangularis 5159 5159.297 139 4021 wm-rh-pericalcarine 4487 4487.207 140 4022 wm-rh-postcentral 9275 9275.275 141 4023 wm-rh-posteriorcingulate 5136 5135.876 142 4024 wm-rh-precentral 21668 21668.156 143 4025 wm-rh-precuneus 11513 11513.134 144 4026 wm-rh-rostralanteriorcingulate 3065 3064.668 145 4027 wm-rh-rostralmiddlefrontal 15548 15548.182 146 4028 wm-rh-superiorfrontal 21616 21616.234 147 4029 wm-rh-superiorparietal 17732 17731.688 148 4030 wm-rh-superiortemporal 8206 8206.385 149 4031 wm-rh-supramarginal 11775 11775.344 150 4032 wm-rh-frontalpole 262 261.511 151 4033 wm-rh-temporalpole 783 782.875 152 4034 wm-rh-transversetemporal 1101 1100.756 153 4035 wm-rh-insula 11506 11505.852 154 4100 wm-rh-Unknown 0 0.000 155 4101 wm-rh-Corpus_callosum 0 0.000 156 4102 wm-rh-G_and_S_Insula_ONLY_AVERAGE 0 0.000 157 4103 wm-rh-G_cingulate-Isthmus 0 0.000 158 4104 wm-rh-G_cingulate-Main_part 0 0.000 159 4105 wm-rh-G_cuneus 0 0.000 160 4106 wm-rh-G_frontal_inf-Opercular_part 0 0.000 161 4107 wm-rh-G_frontal_inf-Orbital_part 0 0.000 162 4108 wm-rh-G_frontal_inf-Triangular_part 0 0.000 163 4109 wm-rh-G_frontal_middle 0 0.000 164 4110 wm-rh-G_frontal_superior 0 0.000 165 4111 wm-rh-G_frontomarginal 0 0.000 166 4112 wm-rh-G_insular_long 0 0.000 167 4113 wm-rh-G_insular_short 0 0.000 168 4114 wm-rh-G_and_S_occipital_inferior 0 0.000 169 4115 wm-rh-G_occipital_middle 0 0.000 170 4116 wm-rh-G_occipital_superior 0 0.000 171 4117 wm-rh-G_occipit-temp_lat-Or_fusiform 0 0.000 172 4118 wm-rh-G_occipit-temp_med-Lingual_part 0 0.000 173 4119 wm-rh-G_occipit-temp_med-Parahippocampal_part 0 0.000 174 4120 wm-rh-G_orbital 0 0.000 175 4121 wm-rh-G_paracentral 0 0.000 176 4122 wm-rh-G_parietal_inferior-Angular_part 0 0.000 177 4123 wm-rh-G_parietal_inferior-Supramarginal_part 0 0.000 178 4124 wm-rh-G_parietal_superior 0 0.000 179 4125 wm-rh-G_postcentral 0 0.000 180 4126 wm-rh-G_precentral 0 0.000 181 4127 wm-rh-G_precuneus 0 0.000 182 4128 wm-rh-G_rectus 0 0.000 183 4129 wm-rh-G_subcallosal 0 0.000 184 4130 wm-rh-G_subcentral 0 0.000 185 4131 wm-rh-G_temporal_inferior 0 0.000 186 4132 wm-rh-G_temporal_middle 0 0.000 187 4133 wm-rh-G_temp_sup-G_temp_transv_and_interm_S 0 0.000 188 4134 wm-rh-G_temp_sup-Lateral_aspect 0 0.000 189 4135 wm-rh-G_temp_sup-Planum_polare 0 0.000 190 4136 wm-rh-G_temp_sup-Planum_tempolare 0 0.000 191 4137 wm-rh-G_and_S_transverse_frontopolar 0 0.000 192 4138 wm-rh-Lat_Fissure-ant_sgt-ramus_horizontal 0 0.000 193 4139 wm-rh-Lat_Fissure-ant_sgt-ramus_vertical 0 0.000 194 4140 wm-rh-Lat_Fissure-post_sgt 0 0.000 195 4141 wm-rh-Medial_wall 0 0.000 196 4142 wm-rh-Pole_occipital 0 0.000 197 4143 wm-rh-Pole_temporal 0 0.000 198 4144 wm-rh-S_calcarine 0 0.000 199 4145 wm-rh-S_central 0 0.000 200 4146 wm-rh-S_central_insula 0 0.000 201 4147 wm-rh-S_cingulate-Main_part_and_Intracingulate 0 0.000 202 4148 wm-rh-S_cingulate-Marginalis_part 0 0.000 203 4149 wm-rh-S_circular_insula_anterior 0 0.000 204 4150 wm-rh-S_circular_insula_inferior 0 0.000 205 4151 wm-rh-S_circular_insula_superior 0 0.000 206 4152 wm-rh-S_collateral_transverse_ant 0 0.000 207 4153 wm-rh-S_collateral_transverse_post 0 0.000 208 4154 wm-rh-S_frontal_inferior 0 0.000 209 4155 wm-rh-S_frontal_middle 0 0.000 210 4156 wm-rh-S_frontal_superior 0 0.000 211 4157 wm-rh-S_frontomarginal 0 0.000 212 4158 wm-rh-S_intermedius_primus-Jensen 0 0.000 213 4159 wm-rh-S_intraparietal-and_Parietal_transverse 0 0.000 214 4160 wm-rh-S_occipital_anterior 0 0.000 215 4161 wm-rh-S_occipital_middle_and_Lunatus 0 0.000 216 4162 wm-rh-S_occipital_superior_and_transversalis 0 0.000 217 4163 wm-rh-S_occipito-temporal_lateral 0 0.000 218 4164 wm-rh-S_occipito-temporal_medial_and_S_Lingual 0 0.000 219 4165 wm-rh-S_orbital-H_shapped 0 0.000 220 4166 wm-rh-S_orbital_lateral 0 0.000 221 4167 wm-rh-S_orbital_medial-Or_olfactory 0 0.000 222 4168 wm-rh-S_paracentral 0 0.000 223 4169 wm-rh-S_parieto_occipital 0 0.000 224 4170 wm-rh-S_pericallosal 0 0.000 225 4171 wm-rh-S_postcentral 0 0.000 226 4172 wm-rh-S_precentral-Inferior-part 0 0.000 227 4173 wm-rh-S_precentral-Superior-part 0 0.000 228 4174 wm-rh-S_subcentral_ant 0 0.000 229 4175 wm-rh-S_subcentral_post 0 0.000 230 4176 wm-rh-S_suborbital 0 0.000 231 4177 wm-rh-S_subparietal 0 0.000 232 4178 wm-rh-S_supracingulate 0 0.000 233 4179 wm-rh-S_temporal_inferior 0 0.000 234 4180 wm-rh-S_temporal_superior 0 0.000 235 4181 wm-rh-S_temporal_transverse 0 0.000 236 5001 Left-UnsegmentedWhiteMatter 49295 49294.898 237 5002 Right-UnsegmentedWhiteMatter 51763 51762.691 238 13100 wm_lh_Unknown 0 0.000 239 13101 wm_lh_G_and_S_frontomargin 0 0.000 240 13102 wm_lh_G_and_S_occipital_inf 0 0.000 241 13103 wm_lh_G_and_S_paracentral 0 0.000 242 13104 wm_lh_G_and_S_subcentral 0 0.000 243 13105 wm_lh_G_and_S_transv_frontopol 0 0.000 244 13106 wm_lh_G_and_S_cingul-Ant 0 0.000 245 13107 wm_lh_G_and_S_cingul-Mid-Ant 0 0.000 246 13108 wm_lh_G_and_S_cingul-Mid-Post 0 0.000 247 13109 wm_lh_G_cingul-Post-dorsal 0 0.000 248 13110 wm_lh_G_cingul-Post-ventral 0 0.000 249 13111 wm_lh_G_cuneus 0 0.000 250 13112 wm_lh_G_front_inf-Opercular 0 0.000 251 13113 wm_lh_G_front_inf-Orbital 0 0.000 252 13114 wm_lh_G_front_inf-Triangul 0 0.000 253 13115 wm_lh_G_front_middle 0 0.000 254 13116 wm_lh_G_front_sup 0 0.000 255 13117 wm_lh_G_Ins_lg_and_S_cent_ins 0 0.000 256 13118 wm_lh_G_insular_short 0 0.000 257 13119 wm_lh_G_occipital_middle 0 0.000 258 13120 wm_lh_G_occipital_sup 0 0.000 259 13121 wm_lh_G_oc-temp_lat-fusifor 0 0.000 260 13122 wm_lh_G_oc-temp_med-Lingual 0 0.000 261 13123 wm_lh_G_oc-temp_med-Parahip 0 0.000 262 13124 wm_lh_G_orbital 0 0.000 263 13125 wm_lh_G_pariet_inf-Angular 0 0.000 264 13126 wm_lh_G_pariet_inf-Supramar 0 0.000 265 13127 wm_lh_G_parietal_sup 0 0.000 266 13128 wm_lh_G_postcentral 0 0.000 267 13129 wm_lh_G_precentral 0 0.000 268 13130 wm_lh_G_precuneus 0 0.000 269 13131 wm_lh_G_rectus 0 0.000 270 13132 wm_lh_G_subcallosal 0 0.000 271 13133 wm_lh_G_temp_sup-G_T_transv 0 0.000 272 13134 wm_lh_G_temp_sup-Lateral 0 0.000 273 13135 wm_lh_G_temp_sup-Plan_polar 0 0.000 274 13136 wm_lh_G_temp_sup-Plan_tempo 0 0.000 275 13137 wm_lh_G_temporal_inf 0 0.000 276 13138 wm_lh_G_temporal_middle 0 0.000 277 13139 wm_lh_Lat_Fis-ant-Horizont 0 0.000 278 13140 wm_lh_Lat_Fis-ant-Vertical 0 0.000 279 13141 wm_lh_Lat_Fis-post 0 0.000 280 13142 wm_lh_Medial_wall 0 0.000 281 13143 wm_lh_Pole_occipital 0 0.000 282 13144 wm_lh_Pole_temporal 0 0.000 283 13145 wm_lh_S_calcarine 0 0.000 284 13146 wm_lh_S_central 0 0.000 285 13147 wm_lh_S_cingul-Marginalis 0 0.000 286 13148 wm_lh_S_circular_insula_ant 0 0.000 287 13149 wm_lh_S_circular_insula_inf 0 0.000 288 13150 wm_lh_S_circular_insula_sup 0 0.000 289 13151 wm_lh_S_collat_transv_ant 0 0.000 290 13152 wm_lh_S_collat_transv_post 0 0.000 291 13153 wm_lh_S_front_inf 0 0.000 292 13154 wm_lh_S_front_middle 0 0.000 293 13155 wm_lh_S_front_sup 0 0.000 294 13156 wm_lh_S_interm_prim-Jensen 0 0.000 295 13157 wm_lh_S_intrapariet_and_P_trans 0 0.000 296 13158 wm_lh_S_oc_middle_and_Lunatus 0 0.000 297 13159 wm_lh_S_oc_sup_and_transversal 0 0.000 298 13160 wm_lh_S_occipital_ant 0 0.000 299 13161 wm_lh_S_oc-temp_lat 0 0.000 300 13162 wm_lh_S_oc-temp_med_and_Lingual 0 0.000 301 13163 wm_lh_S_orbital_lateral 0 0.000 302 13164 wm_lh_S_orbital_med-olfact 0 0.000 303 13165 wm_lh_S_orbital-H_Shaped 0 0.000 304 13166 wm_lh_S_parieto_occipital 0 0.000 305 13167 wm_lh_S_pericallosal 0 0.000 306 13168 wm_lh_S_postcentral 0 0.000 307 13169 wm_lh_S_precentral-inf-part 0 0.000 308 13170 wm_lh_S_precentral-sup-part 0 0.000 309 13171 wm_lh_S_suborbital 0 0.000 310 13172 wm_lh_S_subparietal 0 0.000 311 13173 wm_lh_S_temporal_inf 0 0.000 312 13174 wm_lh_S_temporal_sup 0 0.000 313 13175 wm_lh_S_temporal_transverse 0 0.000 314 14100 wm_rh_Unknown 0 0.000 315 14101 wm_rh_G_and_S_frontomargin 0 0.000 316 14102 wm_rh_G_and_S_occipital_inf 0 0.000 317 14103 wm_rh_G_and_S_paracentral 0 0.000 318 14104 wm_rh_G_and_S_subcentral 0 0.000 319 14105 wm_rh_G_and_S_transv_frontopol 0 0.000 320 14106 wm_rh_G_and_S_cingul-Ant 0 0.000 321 14107 wm_rh_G_and_S_cingul-Mid-Ant 0 0.000 322 14108 wm_rh_G_and_S_cingul-Mid-Post 0 0.000 323 14109 wm_rh_G_cingul-Post-dorsal 0 0.000 324 14110 wm_rh_G_cingul-Post-ventral 0 0.000 325 14111 wm_rh_G_cuneus 0 0.000 326 14112 wm_rh_G_front_inf-Opercular 0 0.000 327 14113 wm_rh_G_front_inf-Orbital 0 0.000 328 14114 wm_rh_G_front_inf-Triangul 0 0.000 329 14115 wm_rh_G_front_middle 0 0.000 330 14116 wm_rh_G_front_sup 0 0.000 331 14117 wm_rh_G_Ins_lg_and_S_cent_ins 0 0.000 332 14118 wm_rh_G_insular_short 0 0.000 333 14119 wm_rh_G_occipital_middle 0 0.000 334 14120 wm_rh_G_occipital_sup 0 0.000 335 14121 wm_rh_G_oc-temp_lat-fusifor 0 0.000 336 14122 wm_rh_G_oc-temp_med-Lingual 0 0.000 337 14123 wm_rh_G_oc-temp_med-Parahip 0 0.000 338 14124 wm_rh_G_orbital 0 0.000 339 14125 wm_rh_G_pariet_inf-Angular 0 0.000 340 14126 wm_rh_G_pariet_inf-Supramar 0 0.000 341 14127 wm_rh_G_parietal_sup 0 0.000 342 14128 wm_rh_G_postcentral 0 0.000 343 14129 wm_rh_G_precentral 0 0.000 344 14130 wm_rh_G_precuneus 0 0.000 345 14131 wm_rh_G_rectus 0 0.000 346 14132 wm_rh_G_subcallosal 0 0.000 347 14133 wm_rh_G_temp_sup-G_T_transv 0 0.000 348 14134 wm_rh_G_temp_sup-Lateral 0 0.000 349 14135 wm_rh_G_temp_sup-Plan_polar 0 0.000 350 14136 wm_rh_G_temp_sup-Plan_tempo 0 0.000 351 14137 wm_rh_G_temporal_inf 0 0.000 352 14138 wm_rh_G_temporal_middle 0 0.000 353 14139 wm_rh_Lat_Fis-ant-Horizont 0 0.000 354 14140 wm_rh_Lat_Fis-ant-Vertical 0 0.000 355 14141 wm_rh_Lat_Fis-post 0 0.000 356 14142 wm_rh_Medial_wall 0 0.000 357 14143 wm_rh_Pole_occipital 0 0.000 358 14144 wm_rh_Pole_temporal 0 0.000 359 14145 wm_rh_S_calcarine 0 0.000 360 14146 wm_rh_S_central 0 0.000 361 14147 wm_rh_S_cingul-Marginalis 0 0.000 362 14148 wm_rh_S_circular_insula_ant 0 0.000 363 14149 wm_rh_S_circular_insula_inf 0 0.000 364 14150 wm_rh_S_circular_insula_sup 0 0.000 365 14151 wm_rh_S_collat_transv_ant 0 0.000 366 14152 wm_rh_S_collat_transv_post 0 0.000 367 14153 wm_rh_S_front_inf 0 0.000 368 14154 wm_rh_S_front_middle 0 0.000 369 14155 wm_rh_S_front_sup 0 0.000 370 14156 wm_rh_S_interm_prim-Jensen 0 0.000 371 14157 wm_rh_S_intrapariet_and_P_trans 0 0.000 372 14158 wm_rh_S_oc_middle_and_Lunatus 0 0.000 373 14159 wm_rh_S_oc_sup_and_transversal 0 0.000 374 14160 wm_rh_S_occipital_ant 0 0.000 375 14161 wm_rh_S_oc-temp_lat 0 0.000 376 14162 wm_rh_S_oc-temp_med_and_Lingual 0 0.000 377 14163 wm_rh_S_orbital_lateral 0 0.000 378 14164 wm_rh_S_orbital_med-olfact 0 0.000 379 14165 wm_rh_S_orbital-H_Shaped 0 0.000 380 14166 wm_rh_S_parieto_occipital 0 0.000 381 14167 wm_rh_S_pericallosal 0 0.000 382 14168 wm_rh_S_postcentral 0 0.000 383 14169 wm_rh_S_precentral-inf-part 0 0.000 384 14170 wm_rh_S_precentral-sup-part 0 0.000 385 14171 wm_rh_S_suborbital 0 0.000 386 14172 wm_rh_S_subparietal 0 0.000 387 14173 wm_rh_S_temporal_inf 0 0.000 388 14174 wm_rh_S_temporal_sup 0 0.000 389 14175 wm_rh_S_temporal_transverse 0 0.000 Reporting on 70 segmentations mri_segstats done /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label #-------------------------------------------- #@# BA Labels lh Thu Aug 10 20:52:44 BRT 2017 \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA1.label --trgsubject recon0256 --trglabel ./lh.BA1.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA1.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 347 Checking for and removing duplicates Writing label file ./lh.BA1.label 4476 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA2.label --trgsubject recon0256 --trglabel ./lh.BA2.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA2.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 671 Checking for and removing duplicates Writing label file ./lh.BA2.label 8580 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3a.label --trgsubject recon0256 --trglabel ./lh.BA3a.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3a.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA3a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 122 Checking for and removing duplicates Writing label file ./lh.BA3a.label 4199 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3b.label --trgsubject recon0256 --trglabel ./lh.BA3b.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3b.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA3b.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 294 Checking for and removing duplicates Writing label file ./lh.BA3b.label 6277 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4a.label --trgsubject recon0256 --trglabel ./lh.BA4a.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4a.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA4a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 925 Checking for and removing duplicates Writing label file ./lh.BA4a.label 6709 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4p.label --trgsubject recon0256 --trglabel ./lh.BA4p.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4p.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA4p.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 315 Checking for and removing duplicates Writing label file ./lh.BA4p.label 4385 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA6.label --trgsubject recon0256 --trglabel ./lh.BA6.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA6.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA6.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 3192 Checking for and removing duplicates Writing label file ./lh.BA6.label 16781 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA44.label --trgsubject recon0256 --trglabel ./lh.BA44.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA44.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA44.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 814 Checking for and removing duplicates Writing label file ./lh.BA44.label 4995 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA45.label --trgsubject recon0256 --trglabel ./lh.BA45.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA45.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA45.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 1394 Checking for and removing duplicates Writing label file ./lh.BA45.label 4816 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V1.label --trgsubject recon0256 --trglabel ./lh.V1.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V1.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.V1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 1366 Checking for and removing duplicates Writing label file ./lh.V1.label 6007 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V2.label --trgsubject recon0256 --trglabel ./lh.V2.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V2.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.V2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 3882 Checking for and removing duplicates Writing label file ./lh.V2.label 11996 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.MT.label --trgsubject recon0256 --trglabel ./lh.MT.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.MT.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.MT.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 1060 Checking for and removing duplicates Writing label file ./lh.MT.label 3078 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.perirhinal.label --trgsubject recon0256 --trglabel ./lh.perirhinal.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.perirhinal.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.perirhinal.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 179 Checking for and removing duplicates Writing label file ./lh.perirhinal.label 1378 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA1.thresh.label --trgsubject recon0256 --trglabel ./lh.BA1.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA1.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 57 Checking for and removing duplicates Writing label file ./lh.BA1.thresh.label 1071 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA2.thresh.label --trgsubject recon0256 --trglabel ./lh.BA2.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA2.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 331 Checking for and removing duplicates Writing label file ./lh.BA2.thresh.label 2423 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3a.thresh.label --trgsubject recon0256 --trglabel ./lh.BA3a.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3a.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA3a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 32 Checking for and removing duplicates Writing label file ./lh.BA3a.thresh.label 1536 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3b.thresh.label --trgsubject recon0256 --trglabel ./lh.BA3b.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA3b.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA3b.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 83 Checking for and removing duplicates Writing label file ./lh.BA3b.thresh.label 2079 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4a.thresh.label --trgsubject recon0256 --trglabel ./lh.BA4a.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4a.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA4a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 350 Checking for and removing duplicates Writing label file ./lh.BA4a.thresh.label 2669 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4p.thresh.label --trgsubject recon0256 --trglabel ./lh.BA4p.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA4p.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA4p.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 86 Checking for and removing duplicates Writing label file ./lh.BA4p.thresh.label 1635 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA6.thresh.label --trgsubject recon0256 --trglabel ./lh.BA6.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA6.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA6.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 1748 Checking for and removing duplicates Writing label file ./lh.BA6.thresh.label 8783 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA44.thresh.label --trgsubject recon0256 --trglabel ./lh.BA44.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA44.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA44.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 345 Checking for and removing duplicates Writing label file ./lh.BA44.thresh.label 2257 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA45.thresh.label --trgsubject recon0256 --trglabel ./lh.BA45.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.BA45.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.BA45.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 617 Checking for and removing duplicates Writing label file ./lh.BA45.thresh.label 1768 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V1.thresh.label --trgsubject recon0256 --trglabel ./lh.V1.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V1.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.V1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 957 Checking for and removing duplicates Writing label file ./lh.V1.thresh.label 4362 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V2.thresh.label --trgsubject recon0256 --trglabel ./lh.V2.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.V2.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.V2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 1741 Checking for and removing duplicates Writing label file ./lh.V2.thresh.label 5075 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.MT.thresh.label --trgsubject recon0256 --trglabel ./lh.MT.thresh.label --hemi lh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/lh.MT.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./lh.MT.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 164658 Number of reverse mapping hits = 191 Checking for and removing duplicates Writing label file ./lh.MT.thresh.label 704 mri_label2label: Done \n mris_label2annot --s recon0256 --hemi lh --ctab /Applications/freesurfer/average/colortable_BA.txt --l lh.BA1.label --l lh.BA2.label --l lh.BA3a.label --l lh.BA3b.label --l lh.BA4a.label --l lh.BA4p.label --l lh.BA6.label --l lh.BA44.label --l lh.BA45.label --l lh.V1.label --l lh.V2.label --l lh.MT.label --l lh.perirhinal.label --a BA --maxstatwinner --noverbose \n Reading ctab /Applications/freesurfer/average/colortable_BA.txt Number of ctab entries 14 $Id: mris_label2annot.c,v 1.17 2011/03/02 00:04:32 nicks Exp $ cwd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label cmdline mris_label2annot --s recon0256 --hemi lh --ctab /Applications/freesurfer/average/colortable_BA.txt --l lh.BA1.label --l lh.BA2.label --l lh.BA3a.label --l lh.BA3b.label --l lh.BA4a.label --l lh.BA4p.label --l lh.BA6.label --l lh.BA44.label --l lh.BA45.label --l lh.V1.label --l lh.V2.label --l lh.MT.label --l lh.perirhinal.label --a BA --maxstatwinner --noverbose sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores subject recon0256 hemi lh SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores ColorTable /Applications/freesurfer/average/colortable_BA.txt AnnotName BA nlables 13 LabelThresh 0 0.000000 Loading /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.orig 1 1530880 BA1 2 16749699 BA2 3 16711680 BA3a 4 3368703 BA3b 5 1376196 BA4a 6 13382655 BA4p 7 10036737 BA6 8 2490521 BA44 9 39283 BA45 10 3993 V1 11 8508928 V2 12 10027163 MT 13 16422433 perirhinal Mapping unhit to unknown Found 120025 unhit vertices Writing annot to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.BA.annot \n mris_label2annot --s recon0256 --hemi lh --ctab /Applications/freesurfer/average/colortable_BA.txt --l lh.BA1.thresh.label --l lh.BA2.thresh.label --l lh.BA3a.thresh.label --l lh.BA3b.thresh.label --l lh.BA4a.thresh.label --l lh.BA4p.thresh.label --l lh.BA6.thresh.label --l lh.BA44.thresh.label --l lh.BA45.thresh.label --l lh.V1.thresh.label --l lh.V2.thresh.label --l lh.MT.thresh.label --a BA.thresh --maxstatwinner --noverbose \n Reading ctab /Applications/freesurfer/average/colortable_BA.txt Number of ctab entries 14 $Id: mris_label2annot.c,v 1.17 2011/03/02 00:04:32 nicks Exp $ cwd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label cmdline mris_label2annot --s recon0256 --hemi lh --ctab /Applications/freesurfer/average/colortable_BA.txt --l lh.BA1.thresh.label --l lh.BA2.thresh.label --l lh.BA3a.thresh.label --l lh.BA3b.thresh.label --l lh.BA4a.thresh.label --l lh.BA4p.thresh.label --l lh.BA6.thresh.label --l lh.BA44.thresh.label --l lh.BA45.thresh.label --l lh.V1.thresh.label --l lh.V2.thresh.label --l lh.MT.thresh.label --a BA.thresh --maxstatwinner --noverbose sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores subject recon0256 hemi lh SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores ColorTable /Applications/freesurfer/average/colortable_BA.txt AnnotName BA.thresh nlables 12 LabelThresh 0 0.000000 Loading /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.orig 1 1530880 BA1 2 16749699 BA2 3 16711680 BA3a 4 3368703 BA3b 5 1376196 BA4a 6 13382655 BA4p 7 10036737 BA6 8 2490521 BA44 9 39283 BA45 10 3993 V1 11 8508928 V2 12 10027163 MT Mapping unhit to unknown Found 140070 unhit vertices Writing annot to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.BA.thresh.annot \n mris_anatomical_stats -mgz -f ../stats/lh.BA.stats -b -a ./lh.BA.annot -c ./BA.ctab recon0256 lh white \n computing statistics for each annotation in ./lh.BA.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... INFO: assuming MGZ format for volumes. reading colortable from annotation file... colortable with 14 entries read (originally /Applications/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA.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 954 590 1391 1.814 0.722 0.153 0.059 14 2.5 BA1 4175 2564 4845 1.823 0.580 0.146 0.063 69 10.9 BA2 970 677 655 1.260 0.255 0.182 0.066 17 2.6 BA3a 2225 1433 2147 1.438 0.601 0.131 0.045 23 4.4 BA3b 2240 1415 3160 1.936 0.749 0.148 0.089 75 8.0 BA4a 1319 969 1329 1.386 0.555 0.140 0.046 13 2.8 BA4p 12285 7306 18423 2.325 0.633 0.156 0.135 1212 92.0 BA6 2205 1292 3156 2.335 0.396 0.116 0.051 29 5.4 BA44 2670 1550 3958 2.325 0.434 0.130 0.056 58 5.7 BA45 2849 2168 2736 1.266 0.315 0.214 0.090 108 10.0 V1 9754 6005 9439 1.541 0.496 0.173 0.093 240 44.5 V2 1920 1267 2576 2.029 0.444 0.142 0.053 26 3.7 MT 1067 681 2495 3.126 0.676 0.151 0.093 40 3.5 perirhinal \n mris_anatomical_stats -mgz -f ../stats/lh.BA.thresh.stats -b -a ./lh.BA.thresh.annot -c ./BA.thresh.ctab recon0256 lh white \n computing statistics for each annotation in ./lh.BA.thresh.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... INFO: assuming MGZ format for volumes. reading colortable from annotation file... colortable with 14 entries read (originally /Applications/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA.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 664 388 1025 1.879 0.787 0.161 0.076 15 2.4 BA1 1844 1122 2131 1.703 0.555 0.156 0.073 34 5.7 BA2 798 553 508 1.249 0.244 0.187 0.069 15 2.1 BA3a 1356 964 1127 1.106 0.181 0.123 0.038 10 2.4 BA3b 1886 1257 2623 1.783 0.731 0.139 0.059 20 5.1 BA4a 1103 829 1081 1.365 0.501 0.149 0.051 12 2.7 BA4p 7273 4388 11035 2.302 0.675 0.165 0.170 1095 74.4 BA6 1716 888 2357 2.361 0.437 0.116 0.081 33 5.4 BA44 1609 724 2232 2.462 0.400 0.143 0.240 75 21.6 BA45 2712 2138 2798 1.301 0.350 0.216 0.088 100 8.6 V1 3083 2189 3196 1.441 0.449 0.187 0.077 64 9.1 V2 544 368 641 1.738 0.415 0.144 0.055 6 1.3 MT #-------------------------------------------- #@# BA Labels rh Thu Aug 10 20:56:29 BRT 2017 \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA1.label --trgsubject recon0256 --trglabel ./rh.BA1.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA1.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 315 Checking for and removing duplicates Writing label file ./rh.BA1.label 4277 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA2.label --trgsubject recon0256 --trglabel ./rh.BA2.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA2.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 497 Checking for and removing duplicates Writing label file ./rh.BA2.label 7184 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3a.label --trgsubject recon0256 --trglabel ./rh.BA3a.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3a.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA3a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 118 Checking for and removing duplicates Writing label file ./rh.BA3a.label 4098 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3b.label --trgsubject recon0256 --trglabel ./rh.BA3b.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3b.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA3b.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 241 Checking for and removing duplicates Writing label file ./rh.BA3b.label 4763 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4a.label --trgsubject recon0256 --trglabel ./rh.BA4a.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4a.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA4a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 702 Checking for and removing duplicates Writing label file ./rh.BA4a.label 6449 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4p.label --trgsubject recon0256 --trglabel ./rh.BA4p.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4p.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA4p.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 353 Checking for and removing duplicates Writing label file ./rh.BA4p.label 4826 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA6.label --trgsubject recon0256 --trglabel ./rh.BA6.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA6.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA6.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 2314 Checking for and removing duplicates Writing label file ./rh.BA6.label 14570 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA44.label --trgsubject recon0256 --trglabel ./rh.BA44.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA44.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA44.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 2805 Checking for and removing duplicates Writing label file ./rh.BA44.label 9717 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA45.label --trgsubject recon0256 --trglabel ./rh.BA45.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA45.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA45.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 3485 Checking for and removing duplicates Writing label file ./rh.BA45.label 8840 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V1.label --trgsubject recon0256 --trglabel ./rh.V1.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V1.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.V1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 1920 Checking for and removing duplicates Writing label file ./rh.V1.label 6647 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V2.label --trgsubject recon0256 --trglabel ./rh.V2.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V2.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.V2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 4171 Checking for and removing duplicates Writing label file ./rh.V2.label 12187 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.MT.label --trgsubject recon0256 --trglabel ./rh.MT.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.MT.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.MT.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 996 Checking for and removing duplicates Writing label file ./rh.MT.label 2928 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.perirhinal.label --trgsubject recon0256 --trglabel ./rh.perirhinal.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.perirhinal.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.perirhinal.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 110 Checking for and removing duplicates Writing label file ./rh.perirhinal.label 862 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA1.thresh.label --trgsubject recon0256 --trglabel ./rh.BA1.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA1.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 46 Checking for and removing duplicates Writing label file ./rh.BA1.thresh.label 922 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA2.thresh.label --trgsubject recon0256 --trglabel ./rh.BA2.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA2.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 139 Checking for and removing duplicates Writing label file ./rh.BA2.thresh.label 2827 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3a.thresh.label --trgsubject recon0256 --trglabel ./rh.BA3a.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3a.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA3a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 25 Checking for and removing duplicates Writing label file ./rh.BA3a.thresh.label 1723 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3b.thresh.label --trgsubject recon0256 --trglabel ./rh.BA3b.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA3b.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA3b.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 139 Checking for and removing duplicates Writing label file ./rh.BA3b.thresh.label 2322 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4a.thresh.label --trgsubject recon0256 --trglabel ./rh.BA4a.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4a.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA4a.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 151 Checking for and removing duplicates Writing label file ./rh.BA4a.thresh.label 1539 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4p.thresh.label --trgsubject recon0256 --trglabel ./rh.BA4p.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA4p.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA4p.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 104 Checking for and removing duplicates Writing label file ./rh.BA4p.thresh.label 1593 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA6.thresh.label --trgsubject recon0256 --trglabel ./rh.BA6.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA6.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA6.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 1264 Checking for and removing duplicates Writing label file ./rh.BA6.thresh.label 8223 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA44.thresh.label --trgsubject recon0256 --trglabel ./rh.BA44.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA44.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA44.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 334 Checking for and removing duplicates Writing label file ./rh.BA44.thresh.label 1346 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA45.thresh.label --trgsubject recon0256 --trglabel ./rh.BA45.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.BA45.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.BA45.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 996 Checking for and removing duplicates Writing label file ./rh.BA45.thresh.label 2174 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V1.thresh.label --trgsubject recon0256 --trglabel ./rh.V1.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V1.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.V1.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 1097 Checking for and removing duplicates Writing label file ./rh.V1.thresh.label 4329 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V2.thresh.label --trgsubject recon0256 --trglabel ./rh.V2.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.V2.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.V2.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 2055 Checking for and removing duplicates Writing label file ./rh.V2.thresh.label 5492 mri_label2label: Done \n mri_label2label --srcsubject fsaverage --srclabel /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.MT.thresh.label --trgsubject recon0256 --trglabel ./rh.MT.thresh.label --hemi rh --regmethod surface \n srclabel = /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/label/rh.MT.thresh.label srcsubject = fsaverage trgsubject = recon0256 trglabel = ./rh.MT.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 /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /Users/jogadores/Desktop/volumetria_jogadores/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white Reading target registration /Users/jogadores/Desktop/volumetria_jogadores/recon0256/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 163333 Number of reverse mapping hits = 215 Checking for and removing duplicates Writing label file ./rh.MT.thresh.label 483 mri_label2label: Done \n mris_label2annot --s recon0256 --hemi rh --ctab /Applications/freesurfer/average/colortable_BA.txt --l rh.BA1.label --l rh.BA2.label --l rh.BA3a.label --l rh.BA3b.label --l rh.BA4a.label --l rh.BA4p.label --l rh.BA6.label --l rh.BA44.label --l rh.BA45.label --l rh.V1.label --l rh.V2.label --l rh.MT.label --l rh.perirhinal.label --a BA --maxstatwinner --noverbose \n Reading ctab /Applications/freesurfer/average/colortable_BA.txt Number of ctab entries 14 $Id: mris_label2annot.c,v 1.17 2011/03/02 00:04:32 nicks Exp $ cwd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label cmdline mris_label2annot --s recon0256 --hemi rh --ctab /Applications/freesurfer/average/colortable_BA.txt --l rh.BA1.label --l rh.BA2.label --l rh.BA3a.label --l rh.BA3b.label --l rh.BA4a.label --l rh.BA4p.label --l rh.BA6.label --l rh.BA44.label --l rh.BA45.label --l rh.V1.label --l rh.V2.label --l rh.MT.label --l rh.perirhinal.label --a BA --maxstatwinner --noverbose sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores subject recon0256 hemi rh SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores ColorTable /Applications/freesurfer/average/colortable_BA.txt AnnotName BA nlables 13 LabelThresh 0 0.000000 Loading /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.orig 1 1530880 BA1 2 16749699 BA2 3 16711680 BA3a 4 3368703 BA3b 5 1376196 BA4a 6 13382655 BA4p 7 10036737 BA6 8 2490521 BA44 9 39283 BA45 10 3993 V1 11 8508928 V2 12 10027163 MT 13 16422433 perirhinal Mapping unhit to unknown Found 114448 unhit vertices Writing annot to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.BA.annot \n mris_label2annot --s recon0256 --hemi rh --ctab /Applications/freesurfer/average/colortable_BA.txt --l rh.BA1.thresh.label --l rh.BA2.thresh.label --l rh.BA3a.thresh.label --l rh.BA3b.thresh.label --l rh.BA4a.thresh.label --l rh.BA4p.thresh.label --l rh.BA6.thresh.label --l rh.BA44.thresh.label --l rh.BA45.thresh.label --l rh.V1.thresh.label --l rh.V2.thresh.label --l rh.MT.thresh.label --a BA.thresh --maxstatwinner --noverbose \n Reading ctab /Applications/freesurfer/average/colortable_BA.txt Number of ctab entries 14 $Id: mris_label2annot.c,v 1.17 2011/03/02 00:04:32 nicks Exp $ cwd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label cmdline mris_label2annot --s recon0256 --hemi rh --ctab /Applications/freesurfer/average/colortable_BA.txt --l rh.BA1.thresh.label --l rh.BA2.thresh.label --l rh.BA3a.thresh.label --l rh.BA3b.thresh.label --l rh.BA4a.thresh.label --l rh.BA4p.thresh.label --l rh.BA6.thresh.label --l rh.BA44.thresh.label --l rh.BA45.thresh.label --l rh.V1.thresh.label --l rh.V2.thresh.label --l rh.MT.thresh.label --a BA.thresh --maxstatwinner --noverbose sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores subject recon0256 hemi rh SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores ColorTable /Applications/freesurfer/average/colortable_BA.txt AnnotName BA.thresh nlables 12 LabelThresh 0 0.000000 Loading /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.orig 1 1530880 BA1 2 16749699 BA2 3 16711680 BA3a 4 3368703 BA3b 5 1376196 BA4a 6 13382655 BA4p 7 10036737 BA6 8 2490521 BA44 9 39283 BA45 10 3993 V1 11 8508928 V2 12 10027163 MT Mapping unhit to unknown Found 138994 unhit vertices Writing annot to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/rh.BA.thresh.annot \n mris_anatomical_stats -mgz -f ../stats/rh.BA.stats -b -a ./rh.BA.annot -c ./BA.ctab recon0256 rh white \n computing statistics for each annotation in ./rh.BA.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... INFO: assuming MGZ format for volumes. reading colortable from annotation file... colortable with 14 entries read (originally /Applications/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA.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 965 546 1334 1.799 0.719 0.161 0.085 20 4.0 BA1 3447 2156 3795 1.731 0.508 0.131 0.057 46 9.8 BA2 939 634 607 1.208 0.257 0.181 0.063 18 2.2 BA3a 1894 1259 1794 1.285 0.434 0.130 0.056 37 5.5 BA3b 1948 1247 2606 1.821 0.702 0.132 0.053 19 4.7 BA4a 1391 997 1362 1.410 0.441 0.133 0.049 10 3.1 BA4p 10196 5985 15013 2.340 0.642 0.155 0.093 242 41.1 BA6 4649 2662 5833 2.191 0.424 0.124 0.065 113 12.4 BA44 7113 3969 9405 2.142 0.483 0.141 0.123 369 27.5 BA45 4126 2668 3985 1.432 0.550 0.184 0.081 102 14.5 V1 9804 6098 9895 1.580 0.509 0.174 0.197 403 32.8 V2 1790 1178 2325 2.097 0.420 0.149 0.052 24 3.7 MT 623 401 1234 2.615 0.588 0.145 0.103 22 2.4 perirhinal \n mris_anatomical_stats -mgz -f ../stats/rh.BA.thresh.stats -b -a ./rh.BA.thresh.annot -c ./BA.thresh.ctab recon0256 rh white \n computing statistics for each annotation in ./rh.BA.thresh.annot. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... INFO: assuming MGZ format for volumes. reading colortable from annotation file... colortable with 14 entries read (originally /Applications/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA.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 589 326 879 1.849 0.799 0.162 0.090 13 2.5 BA1 1817 1182 1942 1.598 0.451 0.124 0.039 17 3.2 BA2 835 567 521 1.215 0.224 0.193 0.070 17 2.4 BA3a 1551 1075 1306 1.147 0.264 0.119 0.037 12 2.6 BA3b 1138 752 1415 1.610 0.578 0.140 0.053 11 2.8 BA4a 1062 791 1031 1.359 0.424 0.130 0.044 8 2.0 BA4p 6528 3899 9461 2.268 0.662 0.158 0.095 142 26.1 BA6 1163 670 1435 2.063 0.392 0.129 0.061 18 2.8 BA44 1208 727 1766 2.143 0.445 0.133 0.063 19 2.6 BA45 2900 2073 2882 1.383 0.515 0.193 0.080 77 9.1 V1 5207 3217 5482 1.630 0.544 0.189 0.308 301 19.5 V2 341 209 437 2.043 0.407 0.161 0.062 6 0.8 MT /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label #-------------------------------------------- #@# Ex-vivo Entorhinal Cortex Label lh Thu Aug 10 21:00:11 BRT 2017 \n mris_spherical_average -erode 1 -orig white -t 0.4 -o recon0256 label lh.entorhinal lh sphere.reg lh.EC_average lh.entorhinal_exvivo.label \n painting output onto subject recon0256. processing subject lh.EC_average... reading output surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.sphere.reg... eroding label 1 times before writing thresholding label stat at 0.400 before writing only 1 subject - copying statistics... writing label with 1008 points to lh.entorhinal_exvivo.label... \n mris_anatomical_stats -mgz -f ../stats/lh.entorhinal_exvivo.stats -b -l ./lh.entorhinal_exvivo.label recon0256 lh white \n limiting computations to label ./lh.entorhinal_exvivo.label. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... INFO: assuming MGZ format for volumes. 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 341 207 936 2.885 0.678 0.144 0.155 30 1.7 ./lh.entorhinal_exvivo.label #-------------------------------------------- #@# Ex-vivo Entorhinal Cortex Label rh Thu Aug 10 21:00:24 BRT 2017 \n mris_spherical_average -erode 1 -orig white -t 0.4 -o recon0256 label rh.entorhinal rh sphere.reg rh.EC_average rh.entorhinal_exvivo.label \n painting output onto subject recon0256. processing subject rh.EC_average... reading output surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.sphere.reg... eroding label 1 times before writing thresholding label stat at 0.400 before writing only 1 subject - copying statistics... writing label with 789 points to rh.entorhinal_exvivo.label... \n mris_anatomical_stats -mgz -f ../stats/rh.entorhinal_exvivo.stats -b -l ./rh.entorhinal_exvivo.label recon0256 rh white \n limiting computations to label ./rh.entorhinal_exvivo.label. reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... reading input surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... reading input pial surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.pial... reading input white surface /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/rh.white... INFO: assuming MGZ format for volumes. 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 289 164 735 2.945 0.623 0.162 0.152 17 2.0 ./rh.entorhinal_exvivo.label #------------------------------------------ Started at Thu Aug 10 12:55:39 BRT 2017 Ended at Thu Aug 10 21:00:38 BRT 2017 #@#%# recon-all-run-time-hours 8.083 recon-all -s recon0256 finished without error at Thu Aug 10 21:00:38 BRT 2017 \n\n New invocation of recon-all \n\n Fri Aug 11 10:12:37 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256 /Applications/freesurfer/bin/recon-all -skullstrip -clean-bm -gcut -subjid recon0256 subjid recon0256 setenv SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Actual FREESURFER_HOME /Applications/freesurfer build-stamp.txt: freesurfer-Darwin-lion-stable-pub-v5.3.0 Darwin jogadores-02.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited descriptors 256 memorylocked unlimited maxproc 709 PhysMem: 11G used (2465M wired), 21G unused. ######################################## program versions used $Id: recon-all,v 1.379.2.73 2013/05/12 23:15:37 nicks Exp $ $Id: mri_motion_correct.fsl,v 1.14 2011/03/02 20:16:39 nicks Exp $ mri_convert -all-info ProgramName: mri_convert ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 FLIRT version 5.5 $Id: talairach_avi,v 1.9 2011/03/02 18:38:06 nicks Exp $ mri_convert --version stable5 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 Program nu_correct, built from: Package MNI N3, version 1.10, compiled by nicks@aspasia.local (i686-apple-darwin10.2.0) on 2010-02-26 at 14:19:30 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize.c,v 1.73.2.1 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_watershed.cpp,v 1.96.2.1 2011/11/08 22:18:44 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segment.c,v 1.40 2011/03/02 00:04:24 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_label2label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_label2label.c,v 1.40.2.2 2013/04/02 16:26:15 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_em_register.c,v 1.84.2.3 2013/02/09 00:49:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_normalize.c,v 1.52.2.2 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_register.c,v 1.78.2.3 2013/02/09 00:42:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_label.c,v 1.96.2.1 2012/08/28 22:11:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_pretess.c,v 1.20 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fill.c,v 1.118 2011/03/16 21:23:49 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_tessellate.c,v 1.36 2011/03/02 00:04:25 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_concatenate_lta ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_concatenate_lta.c,v 1.10 2011/03/16 21:23:48 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:37-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_smooth.c,v 1.28 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_inflate.c,v 1.43 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_euler_number.c,v 1.8.2.2 2013/01/14 22:40:07 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_make_surfaces.c,v 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_volmask.cpp,v 1.25 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_anatomical_stats.c,v 1.72 2011/03/02 00:04:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mrisp_paint.c,v 1.11 2011/03/02 00:04:35 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature_stats.c,v 1.64 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_calc.c,v 1.37.2.8 2013/01/28 17:05:17 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ ProgramName: mri_robust_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_or.c,v 1.3 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:12:38-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ####################################### GCADIR /Applications/freesurfer/average GCA RB_all_2008-03-26.gca GCASkull RB_all_withskull_2008-03-26.gca AvgCurvTif average.curvature.filled.buckner40.tif GCSDIR /Applications/freesurfer/average GCS curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs ####################################### \n mv -f /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/brainmask.mgz /Users/jogadores/Desktop/volumetria_jogadores/recon0256/trash \n #-------------------------------------------- #@# Skull Stripping Fri Aug 11 10:12:38 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_watershed -T1 -brain_atlas /Applications/freesurfer/average/RB_all_withskull_2008-03-26.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz \n 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=128 y=106 z=107 r=93 first estimation of the main basin volume: 3445855 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=169, y=98, z=82, 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=2531617112983536 voxels, voxel volume =1.000 = 2531617112983536 mmm3 = 2531617201455.104 cm3 done. PostAnalyze...Basin Prior 42 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=127,y=111, z=102, r=9857 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=6, CSF_MAX=59 , nb = 41418 RIGHT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=79 , nb = 3690 LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=39 , nb = 2988 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=57 , nb = 17478 LEFT_BRAIN CSF_MIN=0, CSF_intensity=7, CSF_MAX=61 , nb = 16794 OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=9 , nb = 468 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 59, 54, 51, 86 after analyzing : 39, 54, 54, 62 RIGHT_CER before analyzing : 79, 62, 56, 87 after analyzing : 35, 62, 62, 68 LEFT_CER before analyzing : 39, 50, 59, 83 after analyzing : 39, 56, 59, 62 RIGHT_BRAIN before analyzing : 57, 53, 51, 86 after analyzing : 37, 53, 53, 61 LEFT_BRAIN before analyzing : 61, 54, 50, 86 after analyzing : 41, 54, 54, 62 OTHER before analyzing : 9, 13, 24, 40 after analyzing : 9, 21, 25, 25 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...74 iterations *********************VALIDATION********************* curvature mean = -0.013, std = 0.010 curvature mean = 71.713, std = 6.874 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 3.43, sigma = 5.07 after rotation: sse = 3.43, sigma = 5.07 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 3.64, its var is 4.91 before Erosion-Dilatation 0.63% 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...47 iterations mri_strip_skull: done peeling brain Brain Size = 1805454 voxels, voxel volume = 1.000 mm3 = 1805454 mmm3 = 1805.454 cm3 ****************************** Saving brainmask.auto.mgz done \n rm -f brainmask.gcuts.mgz \n \n mri_gcut -110 -mult brainmask.auto.mgz T1.mgz brainmask.auto.mgz brainmask.gcuts.mgz \n INFO: Care must be taken to thoroughly inspect your data when using mri_gcut. In particular, inspect the edges of gm and cerebellum for over-aggressive cutting. Add -segmentation brainmask.gcuts.mgz to the tkmedit command string to view the voxels which gcut has removed. reading mask... use voxels with intensity 110 as WM mask threshold set to: 110.000000*0.400000=44.000000 calculating weights... doing mincut... now doing maxflow, be patient... g-cut done! post-processing... post-processing done! masking... \n mri_binarize --i brainmask.gcuts.mgz --o brainmask.gcuts.mgz --binval 999 --min 1 \n $Id: mri_binarize.c,v 1.26.2.1 2011/04/08 15:40:50 greve Exp $ cwd /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri cmdline mri_binarize --i brainmask.gcuts.mgz --o brainmask.gcuts.mgz --binval 999 --min 1 sysname Darwin hostname jogadores-02.local machine x86_64 user jogadores input brainmask.gcuts.mgz frame 0 nErode3d 0 nErode2d 0 output brainmask.gcuts.mgz Binarizing based on threshold min 1 max +infinity binval 999 binvalnot 0 Found 117111 values in range Counting number of voxels Found 117111 voxels in final mask mri_binarize done \n cp brainmask.auto.mgz brainmask.mgz \n #------------------------------------------ Started at Fri Aug 11 10:12:37 BRT 2017 Ended at Fri Aug 11 10:13:20 BRT 2017 #@#%# recon-all-run-time-hours 0.012 recon-all -s recon0256 finished without error at Fri Aug 11 10:13:20 BRT 2017 \n\n New invocation of recon-all \n\n Fri Aug 11 10:17:39 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256 /Applications/freesurfer/bin/recon-all -skullstrip -wsthresh 50 -clean-bm -subjid recon0256 subjid recon0256 setenv SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Actual FREESURFER_HOME /Applications/freesurfer build-stamp.txt: freesurfer-Darwin-lion-stable-pub-v5.3.0 Darwin jogadores-02.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited descriptors 256 memorylocked unlimited maxproc 709 PhysMem: 11G used (2466M wired), 21G unused. ######################################## program versions used $Id: recon-all,v 1.379.2.73 2013/05/12 23:15:37 nicks Exp $ $Id: mri_motion_correct.fsl,v 1.14 2011/03/02 20:16:39 nicks Exp $ mri_convert -all-info ProgramName: mri_convert ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:39-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 FLIRT version 5.5 $Id: talairach_avi,v 1.9 2011/03/02 18:38:06 nicks Exp $ mri_convert --version stable5 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:39-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 Program nu_correct, built from: Package MNI N3, version 1.10, compiled by nicks@aspasia.local (i686-apple-darwin10.2.0) on 2010-02-26 at 14:19:30 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:39-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:39-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize.c,v 1.73.2.1 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_watershed.cpp,v 1.96.2.1 2011/11/08 22:18:44 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segment.c,v 1.40 2011/03/02 00:04:24 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_label2label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_label2label.c,v 1.40.2.2 2013/04/02 16:26:15 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_em_register.c,v 1.84.2.3 2013/02/09 00:49:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_normalize.c,v 1.52.2.2 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_register.c,v 1.78.2.3 2013/02/09 00:42:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_label.c,v 1.96.2.1 2012/08/28 22:11:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_pretess.c,v 1.20 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fill.c,v 1.118 2011/03/16 21:23:49 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_tessellate.c,v 1.36 2011/03/02 00:04:25 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_concatenate_lta ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_concatenate_lta.c,v 1.10 2011/03/16 21:23:48 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_smooth.c,v 1.28 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_inflate.c,v 1.43 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_euler_number.c,v 1.8.2.2 2013/01/14 22:40:07 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_make_surfaces.c,v 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_volmask.cpp,v 1.25 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_anatomical_stats.c,v 1.72 2011/03/02 00:04:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mrisp_paint.c,v 1.11 2011/03/02 00:04:35 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature_stats.c,v 1.64 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_calc.c,v 1.37.2.8 2013/01/28 17:05:17 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ ProgramName: mri_robust_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_or.c,v 1.3 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:17:40-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ####################################### GCADIR /Applications/freesurfer/average GCA RB_all_2008-03-26.gca GCASkull RB_all_withskull_2008-03-26.gca AvgCurvTif average.curvature.filled.buckner40.tif GCSDIR /Applications/freesurfer/average GCS curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs ####################################### \n mv -f /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/brainmask.mgz /Users/jogadores/Desktop/volumetria_jogadores/recon0256/trash \n #-------------------------------------------- #@# Skull Stripping Fri Aug 11 10:17:40 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_watershed -T1 -brain_atlas /Applications/freesurfer/average/RB_all_withskull_2008-03-26.gca transforms/talairach_with_skull.lta -h 50 T1.mgz brainmask.auto.mgz \n Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) Mode: Preflooding height manually specified ********************************************************* 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=128 y=106 z=107 r=93 first estimation of the main basin volume: 3445855 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=169, y=98, z=82, 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 50 percent done. Analyze... main basin size=2524834726110456 voxels, voxel volume =1.000 = 2524834726110456 mmm3 = 2524834642788.352 cm3 done. PostAnalyze...Basin Prior 0 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=127,y=145, z=117, r=13058 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 44580 RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 180 LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 234 RIGHT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 7956 LEFT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 8514 OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 27696 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 3, 3, 22, 73 after analyzing : 3, 17, 25, 31 RIGHT_CER before analyzing : 3, 3, 22, 73 after analyzing : 3, 17, 25, 31 LEFT_CER before analyzing : 3, 3, 22, 73 after analyzing : 3, 17, 25, 31 RIGHT_BRAIN before analyzing : 3, 3, 22, 64 after analyzing : 3, 17, 25, 28 LEFT_BRAIN before analyzing : 3, 3, 21, 77 after analyzing : 3, 17, 25, 32 OTHER before analyzing : 3, 4, 35, 64 after analyzing : 3, 24, 35, 34 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...92 iterations *********************VALIDATION********************* curvature mean = -0.009, std = 0.005 curvature mean = 102.277, std = 10.767 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 30.04, sigma = 65.75 after rotation: sse = 30.04, sigma = 65.75 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 39.77, its var is 64.39 before Erosion-Dilatation 43.77% of inacurate vertices after Erosion-Dilatation 65.25% of inacurate vertices 40.04% of 'positive' inacurate vertices 59.96% of 'negative' inacurate vertices The surface validation has detected a possible Error If the final segmentation is not valid, try using the option '-atlas' Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...25 iterations mri_strip_skull: done peeling brain Brain Size = 5628734 voxels, voxel volume = 1.000 mm3 = 5628734 mmm3 = 5628.734 cm3 ****************************** Saving brainmask.auto.mgz done \n cp brainmask.auto.mgz brainmask.mgz \n #------------------------------------------ Started at Fri Aug 11 10:17:39 BRT 2017 Ended at Fri Aug 11 10:18:02 BRT 2017 #@#%# recon-all-run-time-hours 0.006 recon-all -s recon0256 finished without error at Fri Aug 11 10:18:02 BRT 2017 \n\n New invocation of recon-all \n\n Fri Aug 11 10:23:25 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256 /Applications/freesurfer/bin/recon-all -autorecon-pial -subjid recon0256 subjid recon0256 setenv SUBJECTS_DIR /Users/jogadores/Desktop/volumetria_jogadores FREESURFER_HOME /Applications/freesurfer Actual FREESURFER_HOME /Applications/freesurfer build-stamp.txt: freesurfer-Darwin-lion-stable-pub-v5.3.0 Darwin jogadores-02.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited descriptors 256 memorylocked unlimited maxproc 709 PhysMem: 11G used (2466M wired), 21G unused. ######################################## program versions used $Id: recon-all,v 1.379.2.73 2013/05/12 23:15:37 nicks Exp $ $Id: mri_motion_correct.fsl,v 1.14 2011/03/02 20:16:39 nicks Exp $ mri_convert -all-info ProgramName: mri_convert ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 FLIRT version 5.5 $Id: talairach_avi,v 1.9 2011/03/02 18:38:06 nicks Exp $ mri_convert --version stable5 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 Program nu_correct, built from: Package MNI N3, version 1.10, compiled by nicks@aspasia.local (i686-apple-darwin10.2.0) on 2010-02-26 at 14:19:30 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize.c,v 1.73.2.1 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_watershed.cpp,v 1.96.2.1 2011/11/08 22:18:44 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segment.c,v 1.40 2011/03/02 00:04:24 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_label2label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_label2label.c,v 1.40.2.2 2013/04/02 16:26:15 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_em_register.c,v 1.84.2.3 2013/02/09 00:49:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_normalize.c,v 1.52.2.2 2012/10/17 19:11:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_register.c,v 1.78.2.3 2013/02/09 00:42:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_ca_label.c,v 1.96.2.1 2012/08/28 22:11:20 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_pretess.c,v 1.20 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fill.c,v 1.118 2011/03/16 21:23:49 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_tessellate.c,v 1.36 2011/03/02 00:04:25 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_concatenate_lta ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_concatenate_lta.c,v 1.10 2011/03/16 21:23:48 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_smooth.c,v 1.28 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_inflate.c,v 1.43 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_euler_number.c,v 1.8.2.2 2013/01/14 22:40:07 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_make_surfaces.c,v 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_volmask.cpp,v 1.25 2011/03/02 00:04:34 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_anatomical_stats.c,v 1.72 2011/03/02 00:04:26 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mrisp_paint.c,v 1.11 2011/03/02 00:04:35 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_curvature_stats.c,v 1.64 2011/03/02 00:04:30 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mris_calc.c,v 1.37.2.8 2013/01/28 17:05:17 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ ProgramName: mri_robust_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_or.c,v 1.3 2011/03/02 00:04:13 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2017/08/11-13:23:25-GMT BuildTimeStamp: May 14 2013 09:12:01 CVS: $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ User: jogadores Machine: jogadores-02.local Platform: Darwin PlatformVersion: 15.6.0 CompilerName: GCC CompilerVersion: 40200 ####################################### GCADIR /Applications/freesurfer/average GCA RB_all_2008-03-26.gca GCASkull RB_all_withskull_2008-03-26.gca AvgCurvTif average.curvature.filled.buckner40.tif GCSDIR /Applications/freesurfer/average GCS curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs ####################################### #-------------------------------------------- #@# Mask BFS Fri Aug 11 10:23:26 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri \n mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz \n threshold mask volume at 5 DoAbs = 0 Found 4660697 voxels in mask (pct= 27.78) Writing masked volume to brain.finalsurfs.mgz...done. #-------------------------------------------- #@# Make White Surf lh Fri Aug 11 10:23:27 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_make_surfaces -noaparc -whiteonly -mgz -T1 brain.finalsurfs recon0256 lh \n only generating white matter surface 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 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/filled.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/brain.finalsurfs.mgz... reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/wm.mgz... 19800 bright wm thresholded. 2836 bright non-wm voxels segmented. reading original surface position from /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.orig... computing class statistics... border white: 360750 voxels (2.15%) border gray 374950 voxels (2.23%) WM (99.0): 99.6 +- 7.0 [70.0 --> 110.0] GM (88.0) : 84.1 +- 14.4 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 68.6 (was 70) setting MAX_BORDER_WHITE to 114.0 (was 105) setting MIN_BORDER_WHITE to 83.0 (was 85) setting MAX_CSF to 54.3 (was 40) setting MAX_GRAY to 100.0 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 75.8 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 39.9 (was 40) repositioning cortical surface to gray/white boundary reading volume /Users/jogadores/Desktop/volumetria_jogadores/recon0256/mri/aseg.mgz... smoothing T1 volume with sigma = 2.000 vertex spacing 0.81 +- 0.23 (0.01-->6.33) (max @ vno 33958 --> 162120) face area 0.28 +- 0.14 (0.00-->10.13) mean absolute distance = 0.75 +- 1.16 4556 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... smoothing contralateral hemisphere... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=107, GM=83 mean inside = 98.6, mean outside = 84.2 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group mean border=92.7, 568 (568) missing vertices, mean dist -0.1 [0.9 (%46.5)->0.7 (%53.5))] %52 local maxima, %43 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=jogad, 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 0.87 +- 0.26 (0.07-->6.49) (max @ vno 33958 --> 162120) face area 0.28 +- 0.14 (0.00-->9.49) mean absolute distance = 0.59 +- 0.90 4513 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4471902.0, rms=7.05 001: dt: 0.5000, sse=6065506.5, rms=4.943 (0.000%) 002: dt: 0.5000, sse=6281360.0, rms=3.834 (0.000%) 003: dt: 0.5000, sse=6606753.5, rms=3.303 (0.000%) 004: dt: 0.5000, sse=6618739.0, rms=3.029 (0.000%) 005: dt: 0.5000, sse=6734526.0, rms=2.845 (0.000%) 006: dt: 0.5000, sse=6660962.0, rms=2.728 (0.000%) 007: dt: 0.5000, sse=6747730.0, rms=2.625 (0.000%) rms = 2.58, time step reduction 1 of 3 to 0.250... 008: dt: 0.5000, sse=6661097.5, rms=2.583 (0.000%) 009: dt: 0.2500, sse=4761051.5, rms=2.174 (0.000%) 010: dt: 0.2500, sse=4540437.0, rms=2.061 (0.000%) rms = 2.03, time step reduction 2 of 3 to 0.125... 011: dt: 0.2500, sse=4452940.5, rms=2.031 (0.000%) rms = 2.00, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=4394987.5, rms=1.996 (0.000%) positioning took 1.4 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 2 vertex label from ripped group removing 1 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 4 vertex label from ripped group mean border=94.0, 627 (353) missing vertices, mean dist -0.3 [0.8 (%54.9)->0.3 (%45.1))] %60 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=jogad, 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 0.86 +- 0.26 (0.06-->6.53) (max @ vno 69708 --> 162282) face area 0.32 +- 0.17 (0.00-->11.55) mean absolute distance = 0.52 +- 0.60 4652 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4807975.0, rms=3.82 013: dt: 0.5000, sse=5251097.0, rms=2.854 (0.000%) 014: dt: 0.5000, sse=5878726.0, rms=2.541 (0.000%) 015: dt: 0.5000, sse=6057345.0, rms=2.435 (0.000%) 016: dt: 0.5000, sse=6448857.0, rms=2.371 (0.000%) rms = 2.36, time step reduction 1 of 3 to 0.250... 017: dt: 0.5000, sse=6516072.5, rms=2.360 (0.000%) 018: dt: 0.2500, sse=5023394.5, rms=1.948 (0.000%) 019: dt: 0.2500, sse=4786944.5, rms=1.854 (0.000%) rms = 1.84, time step reduction 2 of 3 to 0.125... 020: dt: 0.2500, sse=4693482.0, rms=1.835 (0.000%) rms = 1.82, time step reduction 3 of 3 to 0.062... 021: dt: 0.1250, sse=4663680.0, rms=1.820 (0.000%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 3 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group removing 1 vertex label from ripped group mean border=96.7, 704 (285) missing vertices, mean dist -0.4 [0.6 (%72.7)->0.3 (%27.3))] %79 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=jogad, 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 0.84 +- 0.27 (0.05-->6.76) (max @ vno 69708 --> 162282) face area 0.31 +- 0.17 (0.00-->11.58) mean absolute distance = 0.33 +- 0.43 5494 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=5033530.5, rms=4.01 022: dt: 0.5000, sse=5107955.0, rms=2.653 (0.000%) 023: dt: 0.5000, sse=5765968.5, rms=2.240 (0.000%) 024: dt: 0.5000, sse=5898706.5, rms=2.140 (0.000%) rms = 2.16, time step reduction 1 of 3 to 0.250... 025: dt: 0.2500, sse=5079154.5, rms=1.867 (0.000%) 026: dt: 0.2500, sse=4791530.5, rms=1.734 (0.000%) rms = 1.71, time step reduction 2 of 3 to 0.125... 027: dt: 0.2500, sse=4667642.0, rms=1.710 (0.000%) rms = 1.69, time step reduction 3 of 3 to 0.062... 028: dt: 0.1250, sse=4605974.0, rms=1.687 (0.000%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 4 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 removing 1 vertex label from ripped group mean border=97.6, 693 (228) missing vertices, mean dist -0.1 [0.4 (%63.1)->0.3 (%36.9))] %85 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=jogad, 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 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.white... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=4645192.5, rms=2.21 029: dt: 0.5000, sse=5644042.0, rms=1.723 (0.000%) rms = 1.90, time step reduction 1 of 3 to 0.250... 030: dt: 0.2500, sse=5161994.0, rms=1.580 (0.000%) rms = 1.56, time step reduction 2 of 3 to 0.125... 031: dt: 0.2500, sse=4958982.5, rms=1.556 (0.000%) rms = 1.52, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=4940041.5, rms=1.522 (0.000%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 3 vertex label from ripped group removing 1 vertex label from ripped group generating cortex label... 13 non-cortical segments detected only using segment with 2677 vertices erasing segment 1 (vno[0] = 64799) erasing segment 2 (vno[0] = 66104) erasing segment 3 (vno[0] = 72195) erasing segment 4 (vno[0] = 82489) erasing segment 5 (vno[0] = 113582) erasing segment 6 (vno[0] = 114662) erasing segment 7 (vno[0] = 115730) erasing segment 8 (vno[0] = 115778) erasing segment 9 (vno[0] = 115809) erasing segment 10 (vno[0] = 119147) erasing segment 11 (vno[0] = 121345) erasing segment 12 (vno[0] = 164450) writing cortex label to /Users/jogadores/Desktop/volumetria_jogadores/recon0256/label/lh.cortex.label... writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.curv writing smoothed area to lh.area writing curvature file /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf/lh.area vertex spacing 0.84 +- 0.27 (0.04-->6.79) (max @ vno 69708 --> 162282) face area 0.30 +- 0.17 (0.00-->10.87) refinement took 6.3 minutes #-------------------------------------------- #@# Smooth2 lh Fri Aug 11 10:29:47 BRT 2017 \n mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white ../surf/lh.smoothwm \n /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts 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... #-------------------------------------------- #@# Inflation2 lh Fri Aug 11 10:29:53 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated \n avg radius = 49.7 mm, total surface area = 89122 mm^2 writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc step 000: RMS=0.110 (target=0.015) step 005: RMS=0.079 (target=0.015) step 010: RMS=0.059 (target=0.015) step 015: RMS=0.048 (target=0.015) step 020: RMS=0.040 (target=0.015) step 025: RMS=0.033 (target=0.015) step 030: RMS=0.027 (target=0.015) step 035: RMS=0.024 (target=0.015) step 040: RMS=0.022 (target=0.015) step 045: RMS=0.019 (target=0.015) step 050: RMS=0.017 (target=0.015) step 055: RMS=0.016 (target=0.015) inflation complete. inflation took 0.4 minutes \n mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 ../surf/lh.inflated \n normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 214 vertices thresholded to be in k1 ~ [-0.22 1.84], k2 ~ [-0.15 0.06] total integrated curvature = 0.422*4pi (5.299) --> 1 handles ICI = 1.6, FI = 10.6, variation=182.987 159 vertices thresholded to be in [-0.02 0.02] writing Gaussian curvature to ../surf/lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 149 vertices thresholded to be in [-0.15 0.46] done. writing mean curvature to ../surf/lh.inflated.H...curvature mean = -0.015, std = 0.025 done. \n#----------------------------------------- #@# Curvature Stats lh Fri Aug 11 10:31:24 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/surf \n mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm recon0256 lh curv sulc \n Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ recon0256/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 [ 299 ] Gb_filter = 0 WARN: S lookup min: -0.053984 WARN: S explicit min: 0.000000 vertex = 1604 #-------------------------------------------- #@# Sphere lh Fri Aug 11 10:31:31 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere \n setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... scaling brain by 0.304... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=jogad, 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 %19.18 pass 1: epoch 2 of 3 starting distance error %19.10 unfolding complete - removing small folds... starting distance error %19.06 removing remaining folds... final distance error %19.06 MRISunfold() return, current seed 1234 writing spherical brain to ../surf/lh.sphere spherical transformation took 0.49 hours #-------------------------------------------- #@# Surf Reg lh Fri Aug 11 11:00:39 BRT 2017 /Users/jogadores/Desktop/volumetria_jogadores/recon0256/scripts \n mris_register -curv ../surf/lh.sphere /Applications/freesurfer/average/lh.average.curvature.filled.buckner40.tif ../surf/lh.sphere.reg \n using smoothwm curvature for final alignment $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ $Id: mrisurf.c,v 1.693.2.7 2013/05/12 22:28:01 nicks Exp $ reading surface from ../surf/lh.sphere... reading template parameterization from /Applications/freesurfer/average/lh.average.curvature.filled.buckner40.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=jogad, 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=jogad, 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 = 0.562 curvature mean = 0.004, std = 0.931 curvature mean = 0.034, std = 0.843 Starting MRISrigidBodyAlignGlobal() d=32.00 min @ (0.00, -8.00, 0.00) sse = 291743.3, tmin=1.3980 d=16.00 min @ (0.00, 0.00, -4.00) sse = 266203.0, tmin=2.1176 d=4.00 min @ (0.00, 0.00, 1.00) sse = 265817.3, tmin=3.5237 d=2.00 min @ (0.50, 0.00, -0.50) sse = 264905.9, tmin=4.2198 d=1.00 min @ (-0.25, -0.25, 0.00) sse = 264693.5, tmin=4.9135 d=0.50 min @ (0.12, 0.00, 0.00) sse = 264676.4, tmin=5.6209 tol=1.0e+00, sigma=0.5, host=jogad, 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