Wed Dec 16 18:52:47 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS /export/apps/freesurfer/bin/recon-all -i /export/home/data/HRBA/PreprocessingS1/BrainExtractionMask/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS.nii -s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS -all subjid ID473151317_WFL_Y26_GDM_T1W_ROC_RAS setenv SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Actual FREESURFER_HOME /state/partition1/apps/freesurfer build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c Linux cluster.hpc.org 2.6.32-279.14.1.el6.x86_64 #1 SMP Tue Nov 6 23:43:09 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 10240 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked unlimited maxproc 1024 total used free shared buffers cached Mem: 132183520 25716976 106466544 0 330528 19197288 -/+ buffers/cache: 6189160 125994360 Swap: 1023992 19240 1004752 ######################################## program versions used $Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $ $Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $ mri_convert.bin -all-info ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 FLIRT version 5.5 $Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $ mri_convert.bin --version stable6 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ ProgramName: mri_robust_register.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2020/12/16-10:52:47-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $ User: pccui Machine: cluster.hpc.org Platform: Linux PlatformVersion: 2.6.32-279.14.1.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ####################################### GCADIR /export/apps/freesurfer/average GCA RB_all_2016-05-10.vc700.gca GCASkull RB_all_withskull_2016-05-10.vc700.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /export/apps/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS mri_convert /state/partition1/home/data/HRBA/PreprocessingS1/BrainExtractionMask/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS.nii /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig/001.mgz mri_convert.bin /state/partition1/home/data/HRBA/PreprocessingS1/BrainExtractionMask/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS.nii /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig/001.mgz $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from /state/partition1/home/data/HRBA/PreprocessingS1/BrainExtractionMask/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS.nii... TR=1000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (1, 0, 0) j_ras = (0, 1, 0) k_ras = (0, 0, 1) writing to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig/001.mgz... #-------------------------------------------- #@# MotionCor Wed Dec 16 18:52:55 CST 2020 Found 1 runs /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... WARNING: only one run found. This is OK, but motion correction cannot be performed on one run, so I'll copy the run to rawavg and continue. cp /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig/001.mgz /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS mri_convert /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz --conform mri_convert.bin /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz --conform $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz... TR=1000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (1, 0, 0) j_ras = (0, 1, 0) k_ras = (0, 0, 1) changing data type from float to uchar (noscale = 0)... MRIchangeType: Building histogram Reslicing using trilinear interpolation writing to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz... mri_add_xform_to_header -c /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/transforms/talairach.xfm /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz INFO: extension is mgz #-------------------------------------------- #@# Talairach Wed Dec 16 18:53:03 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --n 1 --proto-iters 1000 --distance 50 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri /export/apps/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --n 1 --proto-iters 1000 --distance 50 nIters 1 $Id: mri_nu_correct.mni,v 1.27 2016/02/26 16:19:49 mreuter Exp $ Linux cluster.hpc.org 2.6.32-279.14.1.el6.x86_64 #1 SMP Tue Nov 6 23:43:09 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux Wed Dec 16 18:53:03 CST 2020 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 /usr/bin/bc tmpdir is ./tmp.mri_nu_correct.mni.116556 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_convert orig.mgz ./tmp.mri_nu_correct.mni.116556/nu0.mnc -odt float mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.116556/nu0.mnc -odt float $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from orig.mgz... TR=1000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) changing data type from uchar to float (noscale = 0)... writing to ./tmp.mri_nu_correct.mni.116556/nu0.mnc... -------------------------------------------------------- Iteration 1 Wed Dec 16 18:53:04 CST 2020 nu_correct -clobber ./tmp.mri_nu_correct.mni.116556/nu0.mnc ./tmp.mri_nu_correct.mni.116556/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.116556/0/ -iterations 1000 -distance 50 [pccui@cluster.hpc.org:/state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/] [2020-12-16 18:53:04] running: /export/apps/freesurfer/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 1000 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 50 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.116556/0/ ./tmp.mri_nu_correct.mni.116556/nu0.mnc ./tmp.mri_nu_correct.mni.116556/nu1.imp 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Processing:.................................................................Done Number of iterations: 85 CV of field change: 0.000950182 mri_convert ./tmp.mri_nu_correct.mni.116556/nu1.mnc orig_nu.mgz --like orig.mgz --conform mri_convert.bin ./tmp.mri_nu_correct.mni.116556/nu1.mnc orig_nu.mgz --like orig.mgz --conform $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from ./tmp.mri_nu_correct.mni.116556/nu1.mnc... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) INFO: transform src into the like-volume: orig.mgz changing data type from float to uchar (noscale = 0)... MRIchangeType: Building histogram writing to orig_nu.mgz... Wed Dec 16 18:54:17 CST 2020 mri_nu_correct.mni done talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... Started at Wed Dec 16 18:54:17 CST 2020 Ended at Wed Dec 16 18:54:40 CST 2020 talairach_avi done cp transforms/talairach.auto.xfm transforms/talairach.xfm #-------------------------------------------- #@# Talairach Failure Detection Wed Dec 16 18:54:42 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.5295, pval=0.2115 >= threshold=0.0050) awk -f /export/apps/freesurfer/bin/extract_talairach_avi_QA.awk /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/transforms/talairach_avi.log tal_QC_AZS /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/transforms/talairach_avi.log TalAviQA: 0.96623 z-score: -2 #-------------------------------------------- #@# Nu Intensity Correction Wed Dec 16 18:54:42 CST 2020 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri /export/apps/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 1.27 2016/02/26 16:19:49 mreuter Exp $ Linux cluster.hpc.org 2.6.32-279.14.1.el6.x86_64 #1 SMP Tue Nov 6 23:43:09 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux Wed Dec 16 18:54:42 CST 2020 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 /usr/bin/bc tmpdir is ./tmp.mri_nu_correct.mni.117806 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_convert orig.mgz ./tmp.mri_nu_correct.mni.117806/nu0.mnc -odt float mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.117806/nu0.mnc -odt float $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from orig.mgz... TR=1000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) changing data type from uchar to float (noscale = 0)... writing to ./tmp.mri_nu_correct.mni.117806/nu0.mnc... -------------------------------------------------------- Iteration 1 Wed Dec 16 18:54:44 CST 2020 nu_correct -clobber ./tmp.mri_nu_correct.mni.117806/nu0.mnc ./tmp.mri_nu_correct.mni.117806/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.117806/0/ [pccui@cluster.hpc.org:/state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/] [2020-12-16 18:54:44] running: /export/apps/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 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.117806/0/ ./tmp.mri_nu_correct.mni.117806/nu0.mnc ./tmp.mri_nu_correct.mni.117806/nu1.imp 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Processing:.................................................................Done Processing:.................................................................Done Number of iterations: 50 CV of field change: 0.00184913 -------------------------------------------------------- Iteration 2 Wed Dec 16 18:55:21 CST 2020 nu_correct -clobber ./tmp.mri_nu_correct.mni.117806/nu1.mnc ./tmp.mri_nu_correct.mni.117806/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.117806/1/ [pccui@cluster.hpc.org:/state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/] [2020-12-16 18:55:21] running: /export/apps/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 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.117806/1/ ./tmp.mri_nu_correct.mni.117806/nu1.mnc ./tmp.mri_nu_correct.mni.117806/nu2.imp Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Number of iterations: 19 CV of field change: 0.000993707 mri_binarize --i ./tmp.mri_nu_correct.mni.117806/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.117806/ones.mgz $Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $ cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.117806/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.117806/ones.mgz sysname Linux hostname cluster.hpc.org machine x86_64 user pccui input ./tmp.mri_nu_correct.mni.117806/nu2.mnc frame 0 nErode3d 0 nErode2d 0 output ./tmp.mri_nu_correct.mni.117806/ones.mgz Binarizing based on threshold min -1 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 16777216 values in range Counting number of voxels in first frame Found 16777216 voxels in final mask Count: 16777216 16777216.000000 16777216 100.000000 mri_binarize done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.117806/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.117806/sum.junk --avgwf ./tmp.mri_nu_correct.mni.117806/input.mean.dat $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.117806/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.117806/sum.junk --avgwf ./tmp.mri_nu_correct.mni.117806/input.mean.dat sysname Linux hostname cluster.hpc.org machine x86_64 user pccui UseRobust 0 Loading ./tmp.mri_nu_correct.mni.117806/ones.mgz Loading orig.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation Reporting on 1 segmentations Using PrintSegStat Computing spatial average of each frame 0 Writing to ./tmp.mri_nu_correct.mni.117806/input.mean.dat mri_segstats done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.117806/ones.mgz --i ./tmp.mri_nu_correct.mni.117806/nu2.mnc --sum ./tmp.mri_nu_correct.mni.117806/sum.junk --avgwf ./tmp.mri_nu_correct.mni.117806/output.mean.dat $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.117806/ones.mgz --i ./tmp.mri_nu_correct.mni.117806/nu2.mnc --sum ./tmp.mri_nu_correct.mni.117806/sum.junk --avgwf ./tmp.mri_nu_correct.mni.117806/output.mean.dat sysname Linux hostname cluster.hpc.org machine x86_64 user pccui UseRobust 0 Loading ./tmp.mri_nu_correct.mni.117806/ones.mgz Loading ./tmp.mri_nu_correct.mni.117806/nu2.mnc Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation Reporting on 1 segmentations Using PrintSegStat Computing spatial average of each frame 0 Writing to ./tmp.mri_nu_correct.mni.117806/output.mean.dat mri_segstats done mris_calc -o ./tmp.mri_nu_correct.mni.117806/nu2.mnc ./tmp.mri_nu_correct.mni.117806/nu2.mnc mul .73216360505048216077 Saving result to './tmp.mri_nu_correct.mni.117806/nu2.mnc' (type = MINC ) [ ok ] mri_convert ./tmp.mri_nu_correct.mni.117806/nu2.mnc nu.mgz --like orig.mgz mri_convert.bin ./tmp.mri_nu_correct.mni.117806/nu2.mnc nu.mgz --like orig.mgz $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from ./tmp.mri_nu_correct.mni.117806/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 6 seconds. mapping ( 7, 180) to ( 3, 110) Wed Dec 16 18:56:21 CST 2020 mri_nu_correct.mni done mri_add_xform_to_header -c /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/transforms/talairach.xfm nu.mgz nu.mgz INFO: extension is mgz #-------------------------------------------- #@# Intensity Normalization Wed Dec 16 18:56:21 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_normalize -g 1 -mprage nu.mgz T1.mgz using max gradient = 1.000 assuming input volume is MGH (Van der Kouwe) MP-RAGE reading from nu.mgz... normalizing image... talairach transform 0.92199 0.00777 -0.04347 1.61111; -0.04746 1.05278 -0.02008 -13.59802; 0.03736 0.05243 1.01424 -2.30294; 0.00000 0.00000 0.00000 1.00000; processing without aseg, no1d=0 MRInormInit(): INFO: Modifying talairach volume c_(r,a,s) based on average_305 MRInormalize(): MRIsplineNormalize(): npeaks = 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 110 white matter peak found at 110 gm peak at 88 (88), valley at 59 (59) csf peak at 48, setting threshold to 74 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 88 (88), valley at 55 (55) csf peak at 47, setting threshold to 74 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 1 minutes and 41 seconds. #-------------------------------------------- #@# Skull Stripping Wed Dec 16 18:58:03 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_em_register -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mri_em_register.skull.dat -skull nu.mgz /export/apps/freesurfer/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta aligning to atlas containing skull, setting unknown_nbr_spacing = 5 == Number of threads available to mri_em_register for OpenMP = 1 == reading 1 input volumes... logging results to talairach_with_skull.log reading '/export/apps/freesurfer/average/RB_all_withskull_2016-05-10.vc700.gca'... average std = 22.9 using min determinant for regularization = 52.6 0 singular and 9002 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 8.7 or > 569.1 total sample mean = 77.6 (1399 zeros) ************************************************ spacing=8, using 3243 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 3243, passno 0, spacing 8 resetting wm mean[0]: 100 --> 108 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=16.0 skull bounding box = (41, 42, 26) --> (215, 214, 223) using (99, 99, 125) as brain centroid... mean wm in atlas = 108, using box (78,78,101) --> (120, 120,149) to find MRI wm before smoothing, mri peak at 108 robust fit to distribution - 108 +- 3.1 after smoothing, mri peak at 108, scaling input intensities by 1.000 scaling channel 0 by 1 initial log_p = -4.535 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.417997 @ (-9.091, -9.091, -9.091) max log p = -4.342597 @ (4.545, 4.545, -4.545) max log p = -4.316340 @ (-2.273, 2.273, 2.273) max log p = -4.301105 @ (1.136, -1.136, -3.409) max log p = -4.296585 @ (-1.705, -0.568, 2.841) max log p = -4.296585 @ (0.000, 0.000, 0.000) Found translation: (-7.4, -4.0, -11.9): log p = -4.297 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.297, old_max_log_p =-4.297 (thresh=-4.3) 1.00000 0.00000 0.00000 -7.38637; 0.00000 1.00000 0.00000 -3.97727; 0.00000 0.00000 1.00000 -11.93182; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 **************************************** Nine parameter search. iteration 1 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.263, old_max_log_p =-4.297 (thresh=-4.3) 0.96250 0.00000 0.00000 -2.42655; 0.00000 0.99786 -0.06540 4.37075; 0.00000 0.06540 0.99786 -24.97754; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 2 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.263, old_max_log_p =-4.263 (thresh=-4.3) 0.96250 0.00000 0.00000 -2.42655; 0.00000 0.99786 -0.06540 4.37075; 0.00000 0.06540 0.99786 -24.97754; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 **************************************** Nine parameter search. iteration 3 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.232, old_max_log_p =-4.263 (thresh=-4.3) 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 4 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.232, old_max_log_p =-4.232 (thresh=-4.2) 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 3243 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; nsamples 3243 Quasinewton: input matrix 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 007: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -4.232 (old=-4.535) transform before final EM align: 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 364799 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; nsamples 364799 Quasinewton: input matrix 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 009: -log(p) = 4.6 tol 0.000000 final transform: 0.96224 -0.01582 0.01689 -2.21454; 0.01576 1.00051 -0.03249 -1.80176; -0.01577 0.03275 1.00050 -18.91568; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach_with_skull.lta... mri_em_register utimesec 727.007478 mri_em_register stimesec 0.719890 mri_em_register ru_maxrss 609780 mri_em_register ru_ixrss 0 mri_em_register ru_idrss 0 mri_em_register ru_isrss 0 mri_em_register ru_minflt 157292 mri_em_register ru_majflt 0 mri_em_register ru_nswap 0 mri_em_register ru_inblock 0 mri_em_register ru_oublock 24 mri_em_register ru_msgsnd 0 mri_em_register ru_msgrcv 0 mri_em_register ru_nsignals 0 mri_em_register ru_nvcsw 0 mri_em_register ru_nivcsw 880 registration took 12 minutes and 8 seconds. mri_watershed -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mri_watershed.dat -T1 -brain_atlas /export/apps/freesurfer/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=132 y=123 z=124 r=76 first estimation of the main basin volume: 1872779 voxels Looking for seedpoints 2 found in the cerebellum 18 found in the rest of the brain global maximum in x=99, y=108, z=87, Imax=255 CSF=12, 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=9747691045 voxels, voxel volume =1.000 = 9747691045 mmm3 = 9747691.520 cm3 done. PostAnalyze...Basin Prior 120 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=129,y=120, z=119, r=9451 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=17 , nb = 42507 RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=30 , nb = -1034256959 LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=26 , nb = -1053138901 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=4, CSF_MAX=16 , nb = -1080224615 LEFT_BRAIN CSF_MIN=0, CSF_intensity=4, CSF_MAX=16 , nb = 1077295846 OTHER CSF_MIN=0, CSF_intensity=24, CSF_MAX=31 , nb = 1074069392 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 17, 37, 70, 90 after analyzing : 17, 59, 70, 66 RIGHT_CER before analyzing : 30, 43, 58, 88 after analyzing : 30, 53, 58, 61 LEFT_CER before analyzing : 26, 43, 65, 94 after analyzing : 26, 57, 65, 66 RIGHT_BRAIN before analyzing : 16, 34, 68, 89 after analyzing : 16, 56, 68, 64 LEFT_BRAIN before analyzing : 16, 38, 72, 90 after analyzing : 16, 60, 72, 67 OTHER before analyzing : 31, 32, 35, 46 after analyzing : 31, 34, 35, 37 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...66 iterations *********************VALIDATION********************* curvature mean = -0.013, std = 0.010 curvature mean = 73.941, std = 6.205 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 7.10, sigma = 10.39 after rotation: sse = 7.10, sigma = 10.39 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 7.87, its var is 9.46 before Erosion-Dilatation 6.25% of inacurate vertices after Erosion-Dilatation 7.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...45 iterations mri_strip_skull: done peeling brain Brain Size = 2048422 voxels, voxel volume = 1.000 mm3 = 2048422 mmm3 = 2048.422 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed utimesec 17.393355 mri_watershed stimesec 0.328949 mri_watershed ru_maxrss 828348 mri_watershed ru_ixrss 0 mri_watershed ru_idrss 0 mri_watershed ru_isrss 0 mri_watershed ru_minflt 212378 mri_watershed ru_majflt 0 mri_watershed ru_nswap 0 mri_watershed ru_inblock 0 mri_watershed ru_oublock 2872 mri_watershed ru_msgsnd 0 mri_watershed ru_msgrcv 0 mri_watershed ru_nsignals 0 mri_watershed ru_nvcsw 0 mri_watershed ru_nivcsw 21 mri_watershed done cp brainmask.auto.mgz brainmask.mgz #------------------------------------- #@# EM Registration Wed Dec 16 19:10:30 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_em_register -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mri_em_register.dat -uns 3 -mask brainmask.mgz nu.mgz /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta setting unknown_nbr_spacing = 3 using MR volume brainmask.mgz to mask input volume... == Number of threads available to mri_em_register for OpenMP = 1 == reading 1 input volumes... logging results to talairach.log reading '/export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca'... average std = 7.3 using min determinant for regularization = 5.3 0 singular and 841 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 6.3 or > 503.7 total sample mean = 78.8 (1011 zeros) ************************************************ spacing=8, using 2830 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 2830, passno 0, spacing 8 resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=16.9 skull bounding box = (51, 47, 45) --> (205, 176, 210) using (102, 90, 128) as brain centroid... mean wm in atlas = 107, using box (83,74,108) --> (120, 105,148) to find MRI wm before smoothing, mri peak at 108 robust fit to distribution - 107 +- 3.3 after smoothing, mri peak at 108, scaling input intensities by 0.991 scaling channel 0 by 0.990741 initial log_p = -4.196 ************************************************ First Search limited to translation only. ************************************************ max log p = -3.969566 @ (-9.091, 9.091, -9.091) max log p = -3.781227 @ (4.545, -4.545, -4.545) max log p = -3.722684 @ (-2.273, -6.818, -2.273) max log p = -3.686591 @ (1.136, -1.136, 1.136) max log p = -3.659763 @ (0.568, 2.841, 1.705) max log p = -3.659763 @ (0.000, 0.000, 0.000) Found translation: (-5.1, -0.6, -13.1): log p = -3.660 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.641, old_max_log_p =-3.660 (thresh=-3.7) 0.92500 0.00000 0.00000 4.77516; 0.00000 1.00000 0.00000 -0.56818; 0.00000 0.00000 1.00000 -13.06818; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.641, old_max_log_p =-3.641 (thresh=-3.6) 0.92500 0.00000 0.00000 4.77516; 0.00000 1.00000 0.00000 -0.56818; 0.00000 0.00000 1.00000 -13.06818; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 **************************************** Nine parameter search. iteration 2 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.569, old_max_log_p =-3.641 (thresh=-3.6) 0.94119 0.00117 0.03329 0.31035; 0.00000 0.96215 -0.02904 7.28836; -0.03140 0.03638 1.03623 -19.45249; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.555, old_max_log_p =-3.569 (thresh=-3.6) 0.92147 0.06461 -0.03133 3.02684; -0.06361 0.96021 0.04097 5.49052; 0.02972 -0.02600 1.01645 -15.65259; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.555, old_max_log_p =-3.555 (thresh=-3.6) 0.92147 0.06461 -0.03133 3.02684; -0.06361 0.96021 0.04097 5.49052; 0.02972 -0.02600 1.01645 -15.65259; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.534, old_max_log_p =-3.555 (thresh=-3.6) 0.92060 0.06433 -0.02300 2.18868; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.532, old_max_log_p =-3.534 (thresh=-3.5) 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 2830 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; nsamples 2830 Quasinewton: input matrix 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.532 (old=-4.196) transform before final EM align: 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 315557 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; nsamples 315557 Quasinewton: input matrix 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 011: -log(p) = 4.1 tol 0.000000 final transform: 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... mri_em_register utimesec 827.877143 mri_em_register stimesec 0.681896 mri_em_register ru_maxrss 599000 mri_em_register ru_ixrss 0 mri_em_register ru_idrss 0 mri_em_register ru_isrss 0 mri_em_register ru_minflt 159055 mri_em_register ru_majflt 0 mri_em_register ru_nswap 0 mri_em_register ru_inblock 0 mri_em_register ru_oublock 16 mri_em_register ru_msgsnd 0 mri_em_register ru_msgrcv 0 mri_em_register ru_nsignals 0 mri_em_register ru_nvcsw 0 mri_em_register ru_nivcsw 989 registration took 13 minutes and 49 seconds. #-------------------------------------- #@# CA Normalize Wed Dec 16 19:24:20 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta norm.mgz writing control point volume to ctrl_pts.mgz using MR volume brainmask.mgz to mask input volume... reading 1 input volume reading atlas from '/export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca'... reading transform from 'transforms/talairach.lta'... reading input volume from nu.mgz... resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=16.9 skull bounding box = (51, 47, 45) --> (205, 176, 210) using (102, 90, 128) as brain centroid... mean wm in atlas = 107, using box (83,74,108) --> (120, 105,148) to find MRI wm before smoothing, mri peak at 108 robust fit to distribution - 107 +- 3.3 after smoothing, mri peak at 108, scaling input intensities by 0.991 scaling channel 0 by 0.990741 using 246344 sample points... INFO: compute sample coordinates transform 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35717; 0.02219 -0.02656 1.01786 -15.24320; 0.00000 0.00000 0.00000 1.00000; INFO: transform used finding control points in Left_Cerebral_White_Matter.... found 39915 control points for structure... bounding box (125, 53, 41) --> (202, 178, 206) Left_Cerebral_White_Matter: limiting intensities to 96.0 --> 132.0 21 of 8059 (0.3%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39557 control points for structure... bounding box (58, 52, 41) --> (133, 173, 206) Right_Cerebral_White_Matter: limiting intensities to 96.0 --> 132.0 10 of 9400 (0.1%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3059 control points for structure... bounding box (127, 143, 63) --> (179, 189, 117) Left_Cerebellum_White_Matter: limiting intensities to 99.0 --> 132.0 0 of 117 (0.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2705 control points for structure... bounding box (77, 142, 62) --> (127, 184, 119) Right_Cerebellum_White_Matter: limiting intensities to 102.0 --> 132.0 0 of 179 (0.0%) samples deleted finding control points in Brain_Stem.... found 3518 control points for structure... bounding box (108, 133, 98) --> (147, 206, 129) Brain_Stem: limiting intensities to 93.0 --> 132.0 0 of 502 (0.0%) samples deleted using 18257 total control points for intensity normalization... bias field = 0.978 +- 0.060 216 of 18226 control points discarded finding control points in Left_Cerebral_White_Matter.... found 39915 control points for structure... bounding box (125, 53, 41) --> (202, 178, 206) Left_Cerebral_White_Matter: limiting intensities to 89.0 --> 132.0 16 of 8173 (0.2%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39557 control points for structure... bounding box (58, 52, 41) --> (133, 173, 206) Right_Cerebral_White_Matter: limiting intensities to 89.0 --> 132.0 6 of 9566 (0.1%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3059 control points for structure... bounding box (127, 143, 63) --> (179, 189, 117) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 8 of 187 (4.3%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2705 control points for structure... bounding box (77, 142, 62) --> (127, 184, 119) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 2 of 238 (0.8%) samples deleted finding control points in Brain_Stem.... found 3518 control points for structure... bounding box (108, 133, 98) --> (147, 206, 129) Brain_Stem: limiting intensities to 88.0 --> 132.0 6 of 542 (1.1%) samples deleted using 18706 total control points for intensity normalization... bias field = 1.051 +- 0.053 173 of 18606 control points discarded finding control points in Left_Cerebral_White_Matter.... found 39915 control points for structure... bounding box (125, 53, 41) --> (202, 178, 206) Left_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0 16 of 8188 (0.2%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39557 control points for structure... bounding box (58, 52, 41) --> (133, 173, 206) Right_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0 7 of 9588 (0.1%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3059 control points for structure... bounding box (127, 143, 63) --> (179, 189, 117) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 40 of 190 (21.1%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2705 control points for structure... bounding box (77, 142, 62) --> (127, 184, 119) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 44 of 264 (16.7%) samples deleted finding control points in Brain_Stem.... found 3518 control points for structure... bounding box (108, 133, 98) --> (147, 206, 129) Brain_Stem: limiting intensities to 88.0 --> 132.0 9 of 533 (1.7%) samples deleted using 18763 total control points for intensity normalization... bias field = 1.040 +- 0.046 176 of 18537 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 1 minutes and 23 seconds. #-------------------------------------- #@# CA Reg Wed Dec 16 19:25:43 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_ca_register -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mri_ca_register.dat -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca transforms/talairach.m3z not handling expanded ventricles... using previously computed transform transforms/talairach.lta renormalizing sequences with structure alignment, equivalent to: -renormalize -regularize_mean 0.500 -regularize 0.500 using MR volume brainmask.mgz to mask input volume... == Number of threads available to mri_ca_register for OpenMP = 1 == reading 1 input volumes... logging results to talairach.log reading input volume 'norm.mgz'... reading GCA '/export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca'... label assignment complete, 0 changed (0.00%) det(m_affine) = 0.90 (predicted orig area = 8.8) label assignment complete, 0 changed (0.00%) freeing gibbs priors...done. average std[0] = 5.0 **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.039 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.987, neg=0, invalid=762 0001: dt=360.333535, rms=0.891 (9.702%), neg=0, invalid=762 0002: dt=239.165682, rms=0.854 (4.138%), neg=0, invalid=762 0003: dt=246.058252, rms=0.844 (1.214%), neg=0, invalid=762 0004: dt=443.904000, rms=0.833 (1.320%), neg=0, invalid=762 0005: dt=129.472000, rms=0.828 (0.548%), neg=0, invalid=762 0006: dt=1183.744000, rms=0.819 (1.024%), neg=0, invalid=762 0007: dt=295.936000, rms=0.812 (0.924%), neg=0, invalid=762 0008: dt=73.984000, rms=0.811 (0.095%), neg=0, invalid=762 0009: dt=73.984000, rms=0.811 (0.024%), neg=0, invalid=762 0010: dt=73.984000, rms=0.811 (0.021%), neg=0, invalid=762 0011: dt=73.984000, rms=0.810 (0.076%), neg=0, invalid=762 0012: dt=73.984000, rms=0.809 (0.197%), neg=0, invalid=762 0013: dt=73.984000, rms=0.806 (0.310%), neg=0, invalid=762 0014: dt=73.984000, rms=0.803 (0.343%), neg=0, invalid=762 0015: dt=73.984000, rms=0.801 (0.282%), neg=0, invalid=762 0016: dt=73.984000, rms=0.799 (0.229%), neg=0, invalid=762 0017: dt=73.984000, rms=0.798 (0.170%), neg=0, invalid=762 0018: dt=73.984000, rms=0.797 (0.117%), neg=0, invalid=762 0019: dt=73.984000, rms=0.796 (0.165%), neg=0, invalid=762 0020: dt=73.984000, rms=0.794 (0.239%), neg=0, invalid=762 0021: dt=73.984000, rms=0.791 (0.288%), neg=0, invalid=762 0022: dt=73.984000, rms=0.789 (0.244%), neg=0, invalid=762 0023: dt=73.984000, rms=0.788 (0.164%), neg=0, invalid=762 0024: dt=73.984000, rms=0.787 (0.087%), neg=0, invalid=762 0025: dt=73.984000, rms=0.787 (0.078%), neg=0, invalid=762 0026: dt=517.888000, rms=0.784 (0.404%), neg=0, invalid=762 0027: dt=27.744000, rms=0.783 (0.045%), neg=0, invalid=762 0028: dt=27.744000, rms=0.783 (-0.011%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.784, neg=0, invalid=762 0029: dt=147.753086, rms=0.779 (0.596%), neg=0, invalid=762 0030: dt=73.984000, rms=0.779 (0.035%), neg=0, invalid=762 0031: dt=73.984000, rms=0.779 (0.037%), neg=0, invalid=762 0032: dt=73.984000, rms=0.778 (0.073%), neg=0, invalid=762 0033: dt=73.984000, rms=0.778 (0.083%), neg=0, invalid=762 0034: dt=73.984000, rms=0.777 (0.123%), neg=0, invalid=762 0035: dt=73.984000, rms=0.776 (0.129%), neg=0, invalid=762 0036: dt=73.984000, rms=0.775 (0.116%), neg=0, invalid=762 0037: dt=73.984000, rms=0.774 (0.109%), neg=0, invalid=762 0038: dt=517.888000, rms=0.773 (0.081%), neg=0, invalid=762 0039: dt=517.888000, rms=0.773 (0.058%), neg=0, invalid=762 0040: dt=517.888000, rms=0.773 (-1.280%), neg=0, invalid=762 setting smoothness coefficient to 0.154 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.787, neg=0, invalid=762 0041: dt=25.920000, rms=0.784 (0.379%), neg=0, invalid=762 0042: dt=157.491686, rms=0.775 (1.236%), neg=0, invalid=762 0043: dt=103.680000, rms=0.757 (2.304%), neg=0, invalid=762 0044: dt=24.320000, rms=0.754 (0.381%), neg=0, invalid=762 0045: dt=36.288000, rms=0.752 (0.193%), neg=0, invalid=762 0046: dt=36.288000, rms=0.750 (0.321%), neg=0, invalid=762 0047: dt=36.288000, rms=0.746 (0.580%), neg=0, invalid=762 0048: dt=36.288000, rms=0.740 (0.773%), neg=0, invalid=762 0049: dt=36.288000, rms=0.738 (0.232%), neg=0, invalid=762 0050: dt=36.288000, rms=0.735 (0.435%), neg=0, invalid=762 0051: dt=36.288000, rms=0.731 (0.597%), neg=0, invalid=762 0052: dt=36.288000, rms=0.730 (0.122%), neg=0, invalid=762 0053: dt=36.288000, rms=0.728 (0.166%), neg=0, invalid=762 0054: dt=36.288000, rms=0.728 (0.129%), neg=0, invalid=762 0055: dt=4.536000, rms=0.727 (0.025%), neg=0, invalid=762 0056: dt=0.567000, rms=0.727 (0.004%), neg=0, invalid=762 0057: dt=0.141750, rms=0.727 (0.001%), neg=0, invalid=762 0058: dt=0.141750, rms=0.727 (0.001%), neg=0, invalid=762 0059: dt=0.070875, rms=0.727 (0.000%), neg=0, invalid=762 0060: dt=0.035437, rms=0.727 (0.001%), neg=0, invalid=762 0061: dt=0.000554, rms=0.727 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.728, neg=0, invalid=762 0062: dt=77.645646, rms=0.722 (0.787%), neg=0, invalid=762 0063: dt=9.072000, rms=0.722 (0.038%), neg=0, invalid=762 0064: dt=9.072000, rms=0.722 (0.008%), neg=0, invalid=762 0065: dt=9.072000, rms=0.722 (-0.020%), neg=0, invalid=762 setting smoothness coefficient to 0.588 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.774, neg=0, invalid=762 0066: dt=31.155116, rms=0.764 (1.311%), neg=0, invalid=762 0067: dt=43.672334, rms=0.745 (2.507%), neg=0, invalid=762 0068: dt=9.369369, rms=0.741 (0.544%), neg=0, invalid=762 0069: dt=8.000000, rms=0.740 (0.069%), neg=0, invalid=762 0070: dt=8.000000, rms=0.740 (0.078%), neg=0, invalid=762 0071: dt=8.000000, rms=0.739 (0.151%), neg=0, invalid=762 0072: dt=8.000000, rms=0.737 (0.249%), neg=0, invalid=762 0073: dt=8.000000, rms=0.734 (0.372%), neg=0, invalid=762 0074: dt=8.000000, rms=0.731 (0.431%), neg=0, invalid=762 0075: dt=8.000000, rms=0.728 (0.381%), neg=0, invalid=762 0076: dt=8.000000, rms=0.726 (0.279%), neg=0, invalid=762 0077: dt=8.000000, rms=0.725 (0.174%), neg=0, invalid=762 0078: dt=8.000000, rms=0.724 (0.091%), neg=0, invalid=762 0079: dt=8.000000, rms=0.724 (0.035%), neg=0, invalid=762 0080: dt=44.800000, rms=0.723 (0.086%), neg=0, invalid=762 0081: dt=0.000000, rms=0.723 (0.001%), neg=0, invalid=762 0082: dt=0.250000, rms=0.723 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.724, neg=0, invalid=762 0083: dt=0.000000, rms=0.723 (0.110%), neg=0, invalid=762 0084: dt=0.000000, rms=0.723 (0.000%), neg=0, invalid=762 setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.808, neg=0, invalid=762 0085: dt=0.252000, rms=0.807 (0.097%), neg=0, invalid=762 0086: dt=0.180000, rms=0.807 (0.001%), neg=0, invalid=762 0087: dt=0.180000, rms=0.807 (-0.002%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.808, neg=0, invalid=762 0088: dt=0.252000, rms=0.807 (0.093%), neg=0, invalid=762 0089: dt=0.180000, rms=0.807 (0.003%), neg=0, invalid=762 0090: dt=0.180000, rms=0.807 (-0.001%), neg=0, invalid=762 setting smoothness coefficient to 5.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.951, neg=0, invalid=762 0091: dt=1.792000, rms=0.931 (2.176%), neg=0, invalid=762 0092: dt=1.919283, rms=0.917 (1.461%), neg=0, invalid=762 0093: dt=1.089802, rms=0.910 (0.713%), neg=0, invalid=762 0094: dt=1.830846, rms=0.904 (0.674%), neg=0, invalid=762 0095: dt=1.280000, rms=0.900 (0.520%), neg=0, invalid=762 0096: dt=1.280000, rms=0.896 (0.408%), neg=0, invalid=762 0097: dt=1.280000, rms=0.893 (0.337%), neg=0, invalid=762 0098: dt=1.280000, rms=0.890 (0.283%), neg=0, invalid=762 0099: dt=1.280000, rms=0.888 (0.233%), neg=0, invalid=762 0100: dt=1.280000, rms=0.887 (0.203%), neg=0, invalid=762 0101: dt=1.280000, rms=0.884 (0.314%), neg=0, invalid=762 0102: dt=1.280000, rms=0.881 (0.301%), neg=0, invalid=762 0103: dt=1.280000, rms=0.879 (0.252%), neg=0, invalid=762 0104: dt=1.280000, rms=0.878 (0.127%), neg=0, invalid=762 0105: dt=1.280000, rms=0.877 (0.078%), neg=0, invalid=762 0106: dt=1.280000, rms=0.877 (0.027%), neg=0, invalid=762 0107: dt=1.024000, rms=0.876 (0.092%), neg=0, invalid=762 0108: dt=1.536000, rms=0.875 (0.080%), neg=0, invalid=762 0109: dt=1.536000, rms=0.875 (0.042%), neg=0, invalid=762 0110: dt=1.536000, rms=0.874 (0.144%), neg=0, invalid=762 0111: dt=1.536000, rms=0.873 (0.070%), neg=0, invalid=762 0112: dt=1.536000, rms=0.872 (0.118%), neg=0, invalid=762 0113: dt=1.536000, rms=0.872 (0.039%), neg=0, invalid=762 0114: dt=0.448000, rms=0.872 (0.024%), neg=0, invalid=762 0115: dt=0.448000, rms=0.871 (0.003%), neg=0, invalid=762 0116: dt=0.448000, rms=0.871 (0.004%), neg=0, invalid=762 0117: dt=0.448000, rms=0.871 (0.001%), neg=0, invalid=762 0118: dt=0.448000, rms=0.871 (-0.001%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.872, neg=0, invalid=762 0119: dt=1.024000, rms=0.871 (0.137%), neg=0, invalid=762 0120: dt=0.000000, rms=0.871 (0.002%), neg=0, invalid=762 0121: dt=0.100000, rms=0.871 (-0.007%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 10.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.838, neg=0, invalid=762 0122: dt=0.792658, rms=0.823 (1.760%), neg=0, invalid=762 0123: dt=0.096000, rms=0.822 (0.108%), neg=0, invalid=762 0124: dt=0.096000, rms=0.822 (-0.052%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.823, neg=0, invalid=762 0125: dt=0.048000, rms=0.822 (0.109%), neg=0, invalid=762 0126: dt=0.007000, rms=0.822 (0.000%), neg=0, invalid=762 0127: dt=0.007000, rms=0.822 (-0.000%), neg=0, invalid=762 renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.10027 (20) mri peak = 0.35034 (43) Left_Lateral_Ventricle (4): linear fit = 2.46 x + 0.0 (2729 voxels, overlap=0.004) Left_Lateral_Ventricle (4): linear fit = 1.50 x + 0.0 (2729 voxels, peak = 49), gca=30.0 gca peak = 0.15565 (16) mri peak = 0.26197 (43) Right_Lateral_Ventricle (43): linear fit = 2.70 x + 0.0 (1431 voxels, overlap=0.001) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (1431 voxels, peak = 43), gca=24.0 gca peak = 0.26829 (96) mri peak = 0.13329 (99) Right_Pallidum (52): linear fit = 1.03 x + 0.0 (1366 voxels, overlap=0.983) Right_Pallidum (52): linear fit = 1.03 x + 0.0 (1366 voxels, peak = 99), gca=99.4 gca peak = 0.20183 (93) mri peak = 0.11077 (102) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (1012 voxels, overlap=0.957) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (1012 voxels, peak = 98), gca=98.1 gca peak = 0.21683 (55) mri peak = 0.09345 (81) Right_Hippocampus (53): linear fit = 1.46 x + 0.0 (1896 voxels, overlap=0.023) Right_Hippocampus (53): linear fit = 1.46 x + 0.0 (1896 voxels, peak = 80), gca=80.0 gca peak = 0.30730 (58) mri peak = 0.07981 (84) Left_Hippocampus (17): linear fit = 1.42 x + 0.0 (1715 voxels, overlap=0.019) Left_Hippocampus (17): linear fit = 1.42 x + 0.0 (1715 voxels, peak = 83), gca=82.6 gca peak = 0.11430 (101) mri peak = 0.17404 (103) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (110505 voxels, overlap=0.685) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (110505 voxels, peak = 102), gca=101.5 gca peak = 0.12076 (102) mri peak = 0.15676 (105) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (110500 voxels, overlap=0.719) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (110500 voxels, peak = 104), gca=103.5 gca peak = 0.14995 (59) mri peak = 0.06757 (90) Left_Cerebral_Cortex (3): linear fit = 1.51 x + 0.0 (50792 voxels, overlap=0.000) Left_Cerebral_Cortex (3): linear fit = 1.51 x + 0.0 (50792 voxels, peak = 89), gca=89.4 gca peak = 0.15082 (58) mri peak = 0.05929 (89) Right_Cerebral_Cortex (42): linear fit = 1.51 x + 0.0 (52268 voxels, overlap=0.000) Right_Cerebral_Cortex (42): linear fit = 1.51 x + 0.0 (52268 voxels, peak = 88), gca=87.9 gca peak = 0.14161 (67) mri peak = 0.17906 (93) Right_Caudate (50): linear fit = 1.39 x + 0.0 (1164 voxels, overlap=0.013) Right_Caudate (50): linear fit = 1.39 x + 0.0 (1164 voxels, peak = 93), gca=93.5 gca peak = 0.15243 (71) mri peak = 0.14523 (99) Left_Caudate (11): linear fit = 1.30 x + 0.0 (1680 voxels, overlap=0.016) Left_Caudate (11): linear fit = 1.30 x + 0.0 (1680 voxels, peak = 93), gca=92.7 gca peak = 0.13336 (57) mri peak = 0.05844 (94) Left_Cerebellum_Cortex (8): linear fit = 1.63 x + 0.0 (25811 voxels, overlap=0.001) Left_Cerebellum_Cortex (8): linear fit = 1.63 x + 0.0 (25811 voxels, peak = 93), gca=93.2 gca peak = 0.13252 (56) mri peak = 0.06904 (87) Right_Cerebellum_Cortex (47): linear fit = 1.55 x + 0.0 (28113 voxels, overlap=0.001) Right_Cerebellum_Cortex (47): linear fit = 1.55 x + 0.0 (28113 voxels, peak = 87), gca=87.1 gca peak = 0.18181 (84) mri peak = 0.08189 (88) Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (10209 voxels, overlap=0.526) Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (10209 voxels, peak = 89), gca=89.5 gca peak = 0.20573 (83) mri peak = 0.07441 (91) Right_Cerebellum_White_Matter (46): linear fit = 1.11 x + 0.0 (10730 voxels, overlap=0.738) Right_Cerebellum_White_Matter (46): linear fit = 1.11 x + 0.0 (10730 voxels, peak = 92), gca=91.7 gca peak = 0.21969 (57) mri peak = 0.10912 (84) Left_Amygdala (18): linear fit = 1.46 x + 0.0 (657 voxels, overlap=0.061) Left_Amygdala (18): linear fit = 1.46 x + 0.0 (657 voxels, peak = 83), gca=82.9 gca peak = 0.39313 (56) mri peak = 0.14941 (82) Right_Amygdala (54): linear fit = 1.46 x + 0.0 (804 voxels, overlap=0.039) Right_Amygdala (54): linear fit = 1.46 x + 0.0 (804 voxels, peak = 81), gca=81.5 gca peak = 0.14181 (85) mri peak = 0.12918 (99) Left_Thalamus_Proper (10): linear fit = 1.13 x + 0.0 (7549 voxels, overlap=0.029) Left_Thalamus_Proper (10): linear fit = 1.13 x + 0.0 (7549 voxels, peak = 96), gca=96.5 gca peak = 0.11978 (83) mri peak = 0.14977 (98) Right_Thalamus_Proper (49): linear fit = 1.15 x + 0.0 (6294 voxels, overlap=0.004) Right_Thalamus_Proper (49): linear fit = 1.15 x + 0.0 (6294 voxels, peak = 96), gca=95.9 gca peak = 0.13399 (79) mri peak = 0.12303 (102) Left_Putamen (12): linear fit = 1.26 x + 0.0 (3571 voxels, overlap=0.011) Left_Putamen (12): linear fit = 1.26 x + 0.0 (3571 voxels, peak = 100), gca=99.9 gca peak = 0.14159 (79) mri peak = 0.15957 (98) Right_Putamen (51): linear fit = 1.25 x + 0.0 (3833 voxels, overlap=0.010) Right_Putamen (51): linear fit = 1.25 x + 0.0 (3833 voxels, peak = 98), gca=98.4 gca peak = 0.10025 (80) mri peak = 0.15866 (93) Brain_Stem (16): linear fit = 1.16 x + 0.0 (14001 voxels, overlap=0.006) Brain_Stem (16): linear fit = 1.16 x + 0.0 (14001 voxels, peak = 93), gca=93.2 gca peak = 0.13281 (86) mri peak = 0.15376 (97) Right_VentralDC (60): linear fit = 1.11 x + 0.0 (1715 voxels, overlap=0.015) Right_VentralDC (60): linear fit = 1.11 x + 0.0 (1715 voxels, peak = 95), gca=95.0 gca peak = 0.12801 (89) mri peak = 0.18628 (98) Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1857 voxels, overlap=0.055) Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1857 voxels, peak = 97), gca=97.5 gca peak = 0.20494 (23) mri peak = 0.31429 (42) Third_Ventricle (14): linear fit = 1.77 x + 0.0 (95 voxels, overlap=0.014) Third_Ventricle (14): linear fit = 1.77 x + 0.0 (95 voxels, peak = 41), gca=40.8 gca peak = 0.15061 (21) mri peak = 0.27273 (37) Fourth_Ventricle (15): linear fit = 2.18 x + 0.0 (1135 voxels, overlap=0.008) Fourth_Ventricle (15): linear fit = 2.18 x + 0.0 (1135 voxels, peak = 46), gca=45.9 gca peak Unknown = 0.94835 ( 0) gca peak Left_Cerebral_Cortex = 0.14995 (59) gca peak Left_Inf_Lat_Vent = 0.18056 (32) gca peak Left_Cerebellum_Cortex = 0.13336 (57) gca peak Left_Thalamus = 0.64095 (94) gca peak Third_Ventricle = 0.20494 (23) gca peak Fourth_Ventricle = 0.15061 (21) gca peak CSF = 0.20999 (34) gca peak Left_Accumbens_area = 0.39030 (62) gca peak Left_undetermined = 0.95280 (25) gca peak Left_vessel = 0.67734 (53) gca peak Left_choroid_plexus = 0.09433 (44) gca peak Right_Cerebral_Cortex = 0.15082 (58) gca peak Right_Inf_Lat_Vent = 0.23544 (26) gca peak Right_Cerebellum_Cortex = 0.13252 (56) gca peak Right_Accumbens_area = 0.30312 (64) gca peak Right_vessel = 0.46315 (51) gca peak Right_choroid_plexus = 0.14086 (44) gca peak Fifth_Ventricle = 0.51669 (36) gca peak WM_hypointensities = 0.09722 (76) gca peak non_WM_hypointensities = 0.11899 (47) gca peak Optic_Chiasm = 0.39033 (72) label assignment complete, 0 changed (0.00%) not using caudate to estimate GM means estimating mean gm scale to be 1.45 x + 0.0 estimating mean wm scale to be 1.01 x + 0.0 estimating mean csf scale to be 1.50 x + 0.0 setting left cbm cortex = 1.45 x + 0.00 setting right cbm cortex = 1.45 x + 0.00 Left_Putamen too bright - rescaling by 0.923 (from 1.265) to 92.3 (was 99.9) Right_Putamen too bright - rescaling by 0.938 (from 1.245) to 92.3 (was 98.4) Right_Pallidum too bright - rescaling by 1.001 (from 1.035) to 99.4 (was 99.4) saving intensity scales to talairach.label_intensities.txt **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.796, neg=0, invalid=762 0128: dt=201.994521, rms=0.710 (10.806%), neg=0, invalid=762 0129: dt=257.464827, rms=0.686 (3.319%), neg=0, invalid=762 0130: dt=271.827462, rms=0.673 (1.898%), neg=0, invalid=762 0131: dt=189.538462, rms=0.666 (1.121%), neg=0, invalid=762 0132: dt=369.920000, rms=0.659 (0.978%), neg=0, invalid=762 0133: dt=131.612903, rms=0.655 (0.628%), neg=0, invalid=762 0134: dt=517.888000, rms=0.651 (0.655%), neg=0, invalid=762 0135: dt=129.472000, rms=0.649 (0.261%), neg=0, invalid=762 0136: dt=517.888000, rms=0.647 (0.329%), neg=0, invalid=762 0137: dt=129.472000, rms=0.646 (0.180%), neg=0, invalid=762 0138: dt=1183.744000, rms=0.643 (0.498%), neg=0, invalid=762 0139: dt=110.976000, rms=0.641 (0.264%), neg=0, invalid=762 0140: dt=517.888000, rms=0.640 (0.081%), neg=0, invalid=762 0141: dt=517.888000, rms=0.638 (0.343%), neg=0, invalid=762 0142: dt=55.488000, rms=0.638 (0.021%), neg=0, invalid=762 0143: dt=55.488000, rms=0.638 (0.003%), neg=0, invalid=762 0144: dt=55.488000, rms=0.638 (-0.010%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.638, neg=0, invalid=762 0145: dt=369.920000, rms=0.636 (0.359%), neg=0, invalid=762 0146: dt=129.472000, rms=0.635 (0.129%), neg=0, invalid=762 0147: dt=1183.744000, rms=0.633 (0.268%), neg=0, invalid=762 0148: dt=129.472000, rms=0.632 (0.186%), neg=0, invalid=762 0149: dt=517.888000, rms=0.631 (0.157%), neg=0, invalid=762 0150: dt=295.936000, rms=0.631 (0.074%), neg=0, invalid=762 0151: dt=129.472000, rms=0.631 (0.014%), neg=0, invalid=762 0152: dt=129.472000, rms=0.630 (0.059%), neg=0, invalid=762 0153: dt=129.472000, rms=0.630 (0.041%), neg=0, invalid=762 0154: dt=129.472000, rms=0.630 (0.067%), neg=0, invalid=762 0155: dt=129.472000, rms=0.629 (0.079%), neg=0, invalid=762 0156: dt=129.472000, rms=0.628 (0.105%), neg=0, invalid=762 0157: dt=129.472000, rms=0.628 (0.101%), neg=0, invalid=762 0158: dt=129.472000, rms=0.627 (0.134%), neg=0, invalid=762 0159: dt=129.472000, rms=0.626 (0.125%), neg=0, invalid=762 0160: dt=129.472000, rms=0.626 (0.107%), neg=0, invalid=762 0161: dt=129.472000, rms=0.625 (0.127%), neg=0, invalid=762 0162: dt=129.472000, rms=0.624 (0.100%), neg=0, invalid=762 0163: dt=129.472000, rms=0.623 (0.112%), neg=0, invalid=762 0164: dt=129.472000, rms=0.623 (0.094%), neg=0, invalid=762 0165: dt=129.472000, rms=0.622 (0.104%), neg=0, invalid=762 0166: dt=129.472000, rms=0.622 (0.099%), neg=0, invalid=762 0167: dt=129.472000, rms=0.621 (0.094%), neg=0, invalid=762 0168: dt=129.472000, rms=0.620 (0.089%), neg=0, invalid=762 0169: dt=129.472000, rms=0.620 (0.076%), neg=0, invalid=762 0170: dt=129.472000, rms=0.620 (0.068%), neg=0, invalid=762 0171: dt=129.472000, rms=0.619 (0.075%), neg=0, invalid=762 0172: dt=129.472000, rms=0.619 (0.057%), neg=0, invalid=762 0173: dt=129.472000, rms=0.618 (0.078%), neg=0, invalid=762 0174: dt=129.472000, rms=0.618 (0.070%), neg=0, invalid=762 0175: dt=129.472000, rms=0.617 (0.076%), neg=0, invalid=762 0176: dt=129.472000, rms=0.617 (0.080%), neg=0, invalid=762 0177: dt=129.472000, rms=0.616 (0.061%), neg=0, invalid=762 0178: dt=129.472000, rms=0.616 (0.049%), neg=0, invalid=762 0179: dt=129.472000, rms=0.616 (0.041%), neg=0, invalid=762 0180: dt=129.472000, rms=0.616 (0.051%), neg=0, invalid=762 0181: dt=129.472000, rms=0.615 (0.058%), neg=0, invalid=762 0182: dt=129.472000, rms=0.615 (0.054%), neg=0, invalid=762 0183: dt=129.472000, rms=0.615 (0.043%), neg=0, invalid=762 0184: dt=129.472000, rms=0.614 (0.046%), neg=0, invalid=762 0185: dt=129.472000, rms=0.614 (0.046%), neg=0, invalid=762 0186: dt=129.472000, rms=0.614 (0.050%), neg=0, invalid=762 0187: dt=129.472000, rms=0.613 (0.050%), neg=0, invalid=762 0188: dt=129.472000, rms=0.613 (0.025%), neg=0, invalid=762 0189: dt=129.472000, rms=0.613 (0.020%), neg=0, invalid=762 0190: dt=295.936000, rms=0.613 (0.060%), neg=0, invalid=762 0191: dt=23.120000, rms=0.613 (-0.015%), neg=0, invalid=762 0192: dt=23.120000, rms=0.613 (0.001%), neg=0, invalid=762 0193: dt=23.120000, rms=0.613 (-0.002%), neg=0, invalid=762 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.614, neg=0, invalid=762 0194: dt=36.288000, rms=0.613 (0.145%), neg=0, invalid=762 0195: dt=124.416000, rms=0.612 (0.236%), neg=0, invalid=762 0196: dt=331.776000, rms=0.606 (1.026%), neg=0, invalid=762 0197: dt=36.288000, rms=0.604 (0.267%), neg=0, invalid=762 0198: dt=82.944000, rms=0.603 (0.139%), neg=0, invalid=762 0199: dt=331.776000, rms=0.600 (0.553%), neg=0, invalid=762 0200: dt=36.288000, rms=0.599 (0.207%), neg=0, invalid=762 0201: dt=124.416000, rms=0.598 (0.108%), neg=0, invalid=762 0202: dt=124.416000, rms=0.597 (0.207%), neg=0, invalid=762 0203: dt=36.288000, rms=0.596 (0.095%), neg=0, invalid=762 0204: dt=145.152000, rms=0.595 (0.144%), neg=0, invalid=762 0205: dt=124.416000, rms=0.594 (0.151%), neg=0, invalid=762 0206: dt=62.208000, rms=0.594 (0.074%), neg=0, invalid=762 0207: dt=331.776000, rms=0.592 (0.286%), neg=0, invalid=762 0208: dt=36.288000, rms=0.592 (0.119%), neg=0, invalid=762 0209: dt=145.152000, rms=0.591 (0.120%), neg=0, invalid=762 0210: dt=82.944000, rms=0.590 (0.081%), neg=0, invalid=762 0211: dt=82.944000, rms=0.590 (0.085%), neg=0, invalid=762 0212: dt=36.288000, rms=0.590 (0.058%), neg=0, invalid=762 0213: dt=580.608000, rms=0.587 (0.417%), neg=0, invalid=762 0214: dt=36.288000, rms=0.587 (0.091%), neg=0, invalid=762 0215: dt=145.152000, rms=0.586 (0.112%), neg=0, invalid=762 0216: dt=36.288000, rms=0.586 (0.042%), neg=0, invalid=762 0217: dt=36.288000, rms=0.586 (0.029%), neg=0, invalid=762 0218: dt=36.288000, rms=0.585 (0.049%), neg=0, invalid=762 0219: dt=36.288000, rms=0.585 (0.070%), neg=0, invalid=762 0220: dt=36.288000, rms=0.584 (0.085%), neg=0, invalid=762 0221: dt=36.288000, rms=0.584 (0.108%), neg=0, invalid=762 0222: dt=36.288000, rms=0.583 (0.117%), neg=0, invalid=762 0223: dt=36.288000, rms=0.582 (0.118%), neg=0, invalid=762 0224: dt=36.288000, rms=0.582 (0.123%), neg=0, invalid=762 0225: dt=36.288000, rms=0.581 (0.113%), neg=0, invalid=762 0226: dt=36.288000, rms=0.580 (0.116%), neg=0, invalid=762 0227: dt=36.288000, rms=0.580 (0.122%), neg=0, invalid=762 0228: dt=36.288000, rms=0.579 (0.109%), neg=0, invalid=762 0229: dt=36.288000, rms=0.578 (0.129%), neg=0, invalid=762 0230: dt=36.288000, rms=0.578 (0.120%), neg=0, invalid=762 0231: dt=36.288000, rms=0.577 (0.023%), neg=0, invalid=762 0232: dt=36.288000, rms=0.577 (0.025%), neg=0, invalid=762 0233: dt=36.288000, rms=0.577 (0.026%), neg=0, invalid=762 0234: dt=36.288000, rms=0.577 (0.056%), neg=0, invalid=762 0235: dt=36.288000, rms=0.576 (0.051%), neg=0, invalid=762 0236: dt=36.288000, rms=0.576 (0.062%), neg=0, invalid=762 0237: dt=36.288000, rms=0.576 (0.062%), neg=0, invalid=762 0238: dt=36.288000, rms=0.575 (0.066%), neg=0, invalid=762 0239: dt=36.288000, rms=0.575 (0.077%), neg=0, invalid=762 0240: dt=36.288000, rms=0.574 (0.076%), neg=0, invalid=762 0241: dt=36.288000, rms=0.574 (0.077%), neg=0, invalid=762 0242: dt=18.144000, rms=0.574 (0.007%), neg=0, invalid=762 0243: dt=2.268000, rms=0.574 (0.001%), neg=0, invalid=762 0244: dt=1.620000, rms=0.574 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.574, neg=0, invalid=762 0245: dt=145.152000, rms=0.571 (0.519%), neg=0, invalid=762 0246: dt=36.288000, rms=0.570 (0.197%), neg=0, invalid=762 0247: dt=145.152000, rms=0.569 (0.158%), neg=0, invalid=762 0248: dt=124.416000, rms=0.568 (0.135%), neg=0, invalid=762 0249: dt=36.288000, rms=0.568 (0.076%), neg=0, invalid=762 0250: dt=248.832000, rms=0.567 (0.117%), neg=0, invalid=762 0251: dt=82.944000, rms=0.567 (0.101%), neg=0, invalid=762 0252: dt=36.288000, rms=0.566 (0.045%), neg=0, invalid=762 0253: dt=36.288000, rms=0.566 (0.018%), neg=0, invalid=762 0254: dt=36.288000, rms=0.566 (0.039%), neg=0, invalid=762 0255: dt=36.288000, rms=0.566 (0.044%), neg=0, invalid=762 0256: dt=36.288000, rms=0.566 (0.059%), neg=0, invalid=762 0257: dt=36.288000, rms=0.565 (0.070%), neg=0, invalid=762 0258: dt=36.288000, rms=0.565 (0.077%), neg=0, invalid=762 0259: dt=36.288000, rms=0.564 (0.081%), neg=0, invalid=762 0260: dt=36.288000, rms=0.564 (0.081%), neg=0, invalid=762 0261: dt=36.288000, rms=0.563 (0.080%), neg=0, invalid=762 0262: dt=36.288000, rms=0.563 (0.075%), neg=0, invalid=762 0263: dt=36.288000, rms=0.563 (0.075%), neg=0, invalid=762 0264: dt=36.288000, rms=0.562 (0.077%), neg=0, invalid=762 0265: dt=36.288000, rms=0.562 (0.079%), neg=0, invalid=762 0266: dt=36.288000, rms=0.561 (0.077%), neg=0, invalid=762 0267: dt=36.288000, rms=0.561 (0.075%), neg=0, invalid=762 0268: dt=36.288000, rms=0.560 (0.068%), neg=0, invalid=762 0269: dt=36.288000, rms=0.560 (0.067%), neg=0, invalid=762 0270: dt=36.288000, rms=0.560 (0.076%), neg=0, invalid=762 0271: dt=36.288000, rms=0.559 (0.069%), neg=0, invalid=762 0272: dt=36.288000, rms=0.559 (0.068%), neg=0, invalid=762 0273: dt=36.288000, rms=0.559 (0.058%), neg=0, invalid=762 0274: dt=36.288000, rms=0.558 (0.063%), neg=0, invalid=762 0275: dt=36.288000, rms=0.558 (0.052%), neg=0, invalid=762 0276: dt=36.288000, rms=0.558 (0.051%), neg=0, invalid=762 0277: dt=36.288000, rms=0.557 (0.050%), neg=0, invalid=762 0278: dt=36.288000, rms=0.557 (0.056%), neg=0, invalid=762 0279: dt=36.288000, rms=0.557 (0.049%), neg=0, invalid=762 0280: dt=36.288000, rms=0.556 (0.046%), neg=0, invalid=762 0281: dt=36.288000, rms=0.556 (0.050%), neg=0, invalid=762 0282: dt=36.288000, rms=0.556 (0.041%), neg=0, invalid=762 0283: dt=36.288000, rms=0.556 (0.036%), neg=0, invalid=762 0284: dt=36.288000, rms=0.556 (0.035%), neg=0, invalid=762 0285: dt=36.288000, rms=0.555 (0.044%), neg=0, invalid=762 0286: dt=36.288000, rms=0.555 (0.043%), neg=0, invalid=762 0287: dt=36.288000, rms=0.555 (0.041%), neg=0, invalid=762 0288: dt=36.288000, rms=0.555 (0.038%), neg=0, invalid=762 0289: dt=36.288000, rms=0.554 (0.027%), neg=0, invalid=762 0290: dt=36.288000, rms=0.554 (0.036%), neg=0, invalid=762 0291: dt=36.288000, rms=0.554 (0.044%), neg=0, invalid=762 0292: dt=36.288000, rms=0.554 (0.038%), neg=0, invalid=762 0293: dt=36.288000, rms=0.554 (0.032%), neg=0, invalid=762 0294: dt=36.288000, rms=0.553 (0.038%), neg=0, invalid=762 0295: dt=36.288000, rms=0.553 (0.031%), neg=0, invalid=762 0296: dt=36.288000, rms=0.553 (0.029%), neg=0, invalid=762 0297: dt=36.288000, rms=0.553 (0.032%), neg=0, invalid=762 0298: dt=36.288000, rms=0.553 (0.040%), neg=0, invalid=762 0299: dt=36.288000, rms=0.553 (0.032%), neg=0, invalid=762 0300: dt=36.288000, rms=0.552 (0.028%), neg=0, invalid=762 0301: dt=36.288000, rms=0.552 (0.028%), neg=0, invalid=762 0302: dt=36.288000, rms=0.552 (0.024%), neg=0, invalid=762 0303: dt=36.288000, rms=0.552 (0.021%), neg=0, invalid=762 0304: dt=82.944000, rms=0.552 (0.024%), neg=0, invalid=762 0305: dt=31.104000, rms=0.552 (-0.001%), neg=0, invalid=762 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.561, neg=0, invalid=762 0306: dt=11.200000, rms=0.561 (0.108%), neg=0, invalid=762 0307: dt=11.200000, rms=0.560 (0.059%), neg=0, invalid=762 0308: dt=25.600000, rms=0.560 (0.082%), neg=0, invalid=762 0309: dt=44.800000, rms=0.558 (0.285%), neg=0, invalid=762 0310: dt=44.800000, rms=0.556 (0.351%), neg=0, invalid=762 0311: dt=44.800000, rms=0.555 (0.320%), neg=0, invalid=762 0312: dt=0.175000, rms=0.555 (0.001%), neg=0, invalid=762 0313: dt=0.087500, rms=0.555 (0.002%), neg=0, invalid=762 0314: dt=0.021875, rms=0.555 (0.001%), neg=0, invalid=762 0315: dt=0.010937, rms=0.555 (0.000%), neg=0, invalid=762 0316: dt=0.002734, rms=0.555 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.555, neg=0, invalid=762 0317: dt=84.235294, rms=0.548 (1.125%), neg=0, invalid=762 0318: dt=8.000000, rms=0.547 (0.214%), neg=0, invalid=762 0319: dt=0.700000, rms=0.547 (0.015%), neg=0, invalid=762 0320: dt=0.021875, rms=0.547 (-0.000%), neg=0, invalid=762 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.569, neg=0, invalid=762 0321: dt=9.323741, rms=0.565 (0.734%), neg=0, invalid=762 0322: dt=11.520000, rms=0.562 (0.604%), neg=0, invalid=762 0323: dt=16.128000, rms=0.559 (0.533%), neg=0, invalid=762 0324: dt=16.128000, rms=0.557 (0.317%), neg=0, invalid=762 0325: dt=16.128000, rms=0.556 (0.164%), neg=0, invalid=762 0326: dt=16.128000, rms=0.555 (0.164%), neg=0, invalid=762 0327: dt=4.032000, rms=0.555 (0.032%), neg=0, invalid=762 0328: dt=4.032000, rms=0.555 (0.028%), neg=0, invalid=762 0329: dt=4.032000, rms=0.554 (0.043%), neg=0, invalid=762 0330: dt=4.032000, rms=0.554 (0.058%), neg=0, invalid=762 0331: dt=4.032000, rms=0.554 (0.069%), neg=0, invalid=762 0332: dt=4.032000, rms=0.553 (0.082%), neg=0, invalid=762 0333: dt=4.032000, rms=0.553 (0.081%), neg=0, invalid=762 0334: dt=4.032000, rms=0.553 (0.005%), neg=0, invalid=762 0335: dt=0.252000, rms=0.553 (-0.001%), neg=0, invalid=762 0336: dt=0.252000, rms=0.553 (0.000%), neg=0, invalid=762 0337: dt=0.063000, rms=0.553 (0.001%), neg=0, invalid=762 0338: dt=0.063000, rms=0.553 (0.001%), neg=0, invalid=762 0339: dt=0.011250, rms=0.553 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.553, neg=0, invalid=762 0340: dt=11.156757, rms=0.552 (0.254%), neg=0, invalid=762 0341: dt=29.142857, rms=0.550 (0.233%), neg=0, invalid=762 0342: dt=8.470588, rms=0.550 (0.025%), neg=0, invalid=762 0343: dt=8.470588, rms=0.550 (0.084%), neg=0, invalid=762 0344: dt=8.470588, rms=0.549 (0.109%), neg=0, invalid=762 0345: dt=8.470588, rms=0.548 (0.130%), neg=0, invalid=762 0346: dt=8.470588, rms=0.548 (0.135%), neg=0, invalid=762 0347: dt=8.470588, rms=0.547 (0.125%), neg=0, invalid=762 0348: dt=8.470588, rms=0.546 (0.122%), neg=0, invalid=762 0349: dt=8.470588, rms=0.546 (0.111%), neg=0, invalid=762 0350: dt=8.470588, rms=0.546 (0.017%), neg=0, invalid=762 0351: dt=8.470588, rms=0.545 (0.016%), neg=0, invalid=762 0352: dt=24.000000, rms=0.545 (0.033%), neg=0, invalid=762 0353: dt=9.216000, rms=0.545 (0.009%), neg=0, invalid=762 0354: dt=9.216000, rms=0.545 (0.024%), neg=0, invalid=762 0355: dt=9.216000, rms=0.545 (0.021%), neg=0, invalid=762 0356: dt=9.216000, rms=0.545 (0.033%), neg=0, invalid=762 0357: dt=9.216000, rms=0.545 (0.040%), neg=0, invalid=762 0358: dt=9.216000, rms=0.544 (0.047%), neg=0, invalid=762 0359: dt=9.216000, rms=0.544 (0.050%), neg=0, invalid=762 0360: dt=9.216000, rms=0.544 (0.067%), neg=0, invalid=762 0361: dt=9.216000, rms=0.543 (0.064%), neg=0, invalid=762 0362: dt=9.216000, rms=0.543 (0.055%), neg=0, invalid=762 0363: dt=9.216000, rms=0.543 (0.061%), neg=0, invalid=762 0364: dt=9.216000, rms=0.542 (0.062%), neg=0, invalid=762 0365: dt=9.216000, rms=0.542 (0.055%), neg=0, invalid=762 0366: dt=9.216000, rms=0.542 (0.060%), neg=0, invalid=762 0367: dt=9.216000, rms=0.541 (0.046%), neg=0, invalid=762 0368: dt=9.216000, rms=0.541 (0.047%), neg=0, invalid=762 0369: dt=9.216000, rms=0.541 (0.043%), neg=0, invalid=762 0370: dt=9.216000, rms=0.541 (0.040%), neg=0, invalid=762 0371: dt=9.216000, rms=0.541 (0.038%), neg=0, invalid=762 0372: dt=9.216000, rms=0.540 (0.031%), neg=0, invalid=762 0373: dt=9.216000, rms=0.540 (0.029%), neg=0, invalid=762 0374: dt=9.216000, rms=0.540 (0.035%), neg=0, invalid=762 0375: dt=9.216000, rms=0.540 (0.038%), neg=0, invalid=762 0376: dt=9.216000, rms=0.540 (0.025%), neg=0, invalid=762 0377: dt=9.216000, rms=0.540 (0.017%), neg=0, invalid=762 0378: dt=9.216000, rms=0.540 (0.021%), neg=0, invalid=762 0379: dt=9.216000, rms=0.539 (0.025%), neg=0, invalid=762 0380: dt=9.216000, rms=0.540 (-0.005%), neg=0, invalid=762 0381: dt=13.824000, rms=0.539 (0.016%), neg=0, invalid=762 0382: dt=3.456000, rms=0.539 (0.029%), neg=0, invalid=762 0383: dt=9.216000, rms=0.539 (0.006%), neg=0, invalid=762 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.559, neg=0, invalid=762 0384: dt=0.000000, rms=0.558 (0.037%), neg=0, invalid=762 0385: dt=0.000000, rms=0.558 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.559, neg=0, invalid=762 0386: dt=0.000000, rms=0.558 (0.037%), neg=0, invalid=762 0387: dt=0.000000, rms=0.558 (0.000%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.526, neg=0, invalid=762 0388: dt=0.448000, rms=0.514 (2.404%), neg=0, invalid=762 0389: dt=0.448000, rms=0.511 (0.562%), neg=0, invalid=762 0390: dt=0.448000, rms=0.509 (0.320%), neg=0, invalid=762 0391: dt=0.448000, rms=0.508 (0.196%), neg=0, invalid=762 0392: dt=0.448000, rms=0.507 (0.140%), neg=0, invalid=762 0393: dt=0.384000, rms=0.507 (0.094%), neg=0, invalid=762 0394: dt=0.448000, rms=0.507 (0.087%), neg=0, invalid=762 0395: dt=0.448000, rms=0.506 (0.063%), neg=0, invalid=762 0396: dt=0.448000, rms=0.506 (0.057%), neg=0, invalid=762 0397: dt=0.448000, rms=0.506 (0.047%), neg=0, invalid=762 0398: dt=0.448000, rms=0.505 (0.040%), neg=0, invalid=762 0399: dt=0.448000, rms=0.505 (0.067%), neg=0, invalid=762 0400: dt=0.224000, rms=0.505 (0.019%), neg=0, invalid=762 0401: dt=0.224000, rms=0.505 (0.028%), neg=0, invalid=762 0402: dt=0.224000, rms=0.505 (0.043%), neg=0, invalid=762 0403: dt=0.224000, rms=0.505 (0.009%), neg=0, invalid=762 0404: dt=0.224000, rms=0.505 (0.013%), neg=0, invalid=762 0405: dt=0.224000, rms=0.504 (0.011%), neg=0, invalid=762 0406: dt=0.112000, rms=0.504 (0.006%), neg=0, invalid=762 0407: dt=0.112000, rms=0.504 (0.004%), neg=0, invalid=762 0408: dt=0.112000, rms=0.504 (0.009%), neg=0, invalid=762 0409: dt=0.112000, rms=0.504 (0.011%), neg=0, invalid=762 0410: dt=0.112000, rms=0.504 (0.013%), neg=0, invalid=762 0411: dt=0.112000, rms=0.504 (0.014%), neg=0, invalid=762 0412: dt=0.112000, rms=0.504 (0.013%), neg=0, invalid=762 0413: dt=0.112000, rms=0.504 (0.015%), neg=0, invalid=762 0414: dt=0.112000, rms=0.504 (0.014%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.504, neg=0, invalid=762 0415: dt=0.216667, rms=0.502 (0.449%), neg=0, invalid=762 0416: dt=0.384000, rms=0.500 (0.411%), neg=0, invalid=762 0417: dt=0.448000, rms=0.499 (0.131%), neg=0, invalid=762 0418: dt=0.448000, rms=0.499 (0.031%), neg=0, invalid=762 0419: dt=0.448000, rms=0.499 (0.006%), neg=0, invalid=762 0420: dt=0.448000, rms=0.499 (0.007%), neg=0, invalid=762 0421: dt=0.224000, rms=0.499 (0.007%), neg=0, invalid=762 0422: dt=0.224000, rms=0.499 (0.005%), neg=0, invalid=762 0423: dt=0.112000, rms=0.499 (0.003%), neg=0, invalid=762 label assignment complete, 0 changed (0.00%) ********************* ALLOWING NEGATIVE NODES IN DEFORMATION******************************** **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.497, neg=0, invalid=762 0424: dt=27.744000, rms=0.497 (0.064%), neg=0, invalid=762 0425: dt=13.872000, rms=0.497 (0.003%), neg=0, invalid=762 0426: dt=13.872000, rms=0.497 (0.000%), neg=0, invalid=762 0427: dt=13.872000, rms=0.497 (-0.004%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.497, neg=0, invalid=762 0428: dt=129.472000, rms=0.496 (0.169%), neg=0, invalid=762 0429: dt=73.984000, rms=0.496 (0.042%), neg=0, invalid=762 0430: dt=73.984000, rms=0.496 (0.030%), neg=0, invalid=762 0431: dt=73.984000, rms=0.496 (0.031%), neg=0, invalid=762 0432: dt=73.984000, rms=0.495 (0.030%), neg=0, invalid=762 0433: dt=73.984000, rms=0.495 (0.028%), neg=0, invalid=762 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.496, neg=0, invalid=762 0434: dt=9.072000, rms=0.495 (0.060%), neg=0, invalid=762 0435: dt=2.268000, rms=0.495 (0.000%), neg=0, invalid=762 0436: dt=2.268000, rms=0.495 (0.001%), neg=0, invalid=762 0437: dt=2.268000, rms=0.495 (-0.002%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.496, neg=0, invalid=762 0438: dt=145.152000, rms=0.494 (0.388%), neg=0, invalid=762 0439: dt=31.104000, rms=0.493 (0.081%), neg=0, invalid=762 0440: dt=31.104000, rms=0.493 (0.040%), neg=0, invalid=762 0441: dt=31.104000, rms=0.493 (0.047%), neg=0, invalid=762 0442: dt=31.104000, rms=0.492 (0.061%), neg=0, invalid=762 0443: dt=31.104000, rms=0.492 (0.083%), neg=0, invalid=762 0444: dt=31.104000, rms=0.492 (0.092%), neg=0, invalid=762 0445: dt=31.104000, rms=0.491 (0.080%), neg=0, invalid=762 0446: dt=31.104000, rms=0.491 (0.067%), neg=0, invalid=762 0447: dt=36.288000, rms=0.491 (0.016%), neg=0, invalid=762 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.491, neg=0, invalid=762 0448: dt=9.600000, rms=0.491 (0.121%), neg=0, invalid=762 0449: dt=4.800000, rms=0.491 (0.012%), neg=0, invalid=762 0450: dt=4.800000, rms=0.491 (0.003%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0451: dt=4.800000, rms=0.491 (-0.024%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.491, neg=0, invalid=762 0452: dt=60.545455, rms=0.486 (0.925%), neg=0, invalid=762 0453: dt=22.235052, rms=0.485 (0.357%), neg=0, invalid=762 0454: dt=44.800000, rms=0.484 (0.213%), neg=0, invalid=762 0455: dt=44.800000, rms=0.483 (0.094%), neg=0, invalid=762 0456: dt=44.800000, rms=0.481 (0.473%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 0457: dt=44.800000, rms=0.480 (0.253%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0458: dt=44.800000, rms=0.478 (0.319%), neg=0, invalid=762 iter 0, gcam->neg = 4 after 8 iterations, nbhd size=1, neg = 0 0459: dt=44.800000, rms=0.477 (0.287%), neg=0, invalid=762 iter 0, gcam->neg = 4 after 8 iterations, nbhd size=1, neg = 0 0460: dt=44.800000, rms=0.475 (0.284%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 0461: dt=44.800000, rms=0.475 (0.152%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0462: dt=44.800000, rms=0.474 (0.178%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 2 iterations, nbhd size=0, neg = 0 0463: dt=44.800000, rms=0.473 (0.090%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0464: dt=44.800000, rms=0.473 (0.084%), neg=0, invalid=762 0465: dt=22.923077, rms=0.472 (0.155%), neg=0, invalid=762 0466: dt=19.200000, rms=0.472 (0.033%), neg=0, invalid=762 0467: dt=19.200000, rms=0.472 (-0.001%), neg=0, invalid=762 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.478, neg=0, invalid=762 0468: dt=0.864000, rms=0.478 (0.044%), neg=0, invalid=762 0469: dt=0.216000, rms=0.478 (0.005%), neg=0, invalid=762 0470: dt=0.216000, rms=0.478 (-0.001%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.478, neg=0, invalid=762 0471: dt=5.866667, rms=0.478 (0.141%), neg=0, invalid=762 0472: dt=4.032000, rms=0.477 (0.038%), neg=0, invalid=762 0473: dt=4.032000, rms=0.477 (0.032%), neg=0, invalid=762 0474: dt=4.032000, rms=0.477 (0.012%), neg=0, invalid=762 0475: dt=4.032000, rms=0.477 (-0.043%), neg=0, invalid=762 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.484, neg=0, invalid=762 0476: dt=0.000000, rms=0.483 (0.048%), neg=0, invalid=762 0477: dt=0.000000, rms=0.483 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.484, neg=0, invalid=762 0478: dt=0.448000, rms=0.483 (0.064%), neg=0, invalid=762 0479: dt=0.448000, rms=0.483 (0.009%), neg=0, invalid=762 0480: dt=0.448000, rms=0.483 (0.011%), neg=0, invalid=762 0481: dt=0.448000, rms=0.483 (-0.007%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.475, neg=0, invalid=762 iter 0, gcam->neg = 478 after 14 iterations, nbhd size=1, neg = 0 0482: dt=1.778026, rms=0.456 (3.926%), neg=0, invalid=762 0483: dt=0.028000, rms=0.456 (0.015%), neg=0, invalid=762 0484: dt=0.028000, rms=0.456 (-0.003%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.456, neg=0, invalid=762 0485: dt=0.096000, rms=0.456 (0.113%), neg=0, invalid=762 0486: dt=0.004000, rms=0.456 (0.003%), neg=0, invalid=762 0487: dt=0.004000, rms=0.456 (-0.001%), neg=0, invalid=762 label assignment complete, 0 changed (0.00%) label assignment complete, 0 changed (0.00%) ***************** morphing with label term set to 0 ******************************* **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.446, neg=0, invalid=762 0488: dt=0.000000, rms=0.446 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.446, neg=0, invalid=762 0489: dt=18.496000, rms=0.446 (0.000%), neg=0, invalid=762 0490: dt=0.027094, rms=0.446 (0.000%), neg=0, invalid=762 0491: dt=0.027094, rms=0.446 (-0.000%), neg=0, invalid=762 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.446, neg=0, invalid=762 0492: dt=0.000000, rms=0.446 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.446, neg=0, invalid=762 0493: dt=36.288000, rms=0.446 (0.018%), neg=0, invalid=762 0494: dt=82.944000, rms=0.446 (0.020%), neg=0, invalid=762 0495: dt=145.152000, rms=0.446 (0.044%), neg=0, invalid=762 0496: dt=36.288000, rms=0.446 (0.002%), neg=0, invalid=762 0497: dt=36.288000, rms=0.446 (0.005%), neg=0, invalid=762 0498: dt=36.288000, rms=0.445 (0.010%), neg=0, invalid=762 0499: dt=36.288000, rms=0.445 (0.013%), neg=0, invalid=762 0500: dt=36.288000, rms=0.445 (0.014%), neg=0, invalid=762 0501: dt=36.288000, rms=0.445 (0.013%), neg=0, invalid=762 0502: dt=36.288000, rms=0.445 (0.010%), neg=0, invalid=762 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.446, neg=0, invalid=762 0503: dt=-0.000621, rms=0.446 (0.000%), neg=0, invalid=762 0504: dt=0.000000, rms=0.446 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.446, neg=0, invalid=762 iter 0, gcam->neg = 12 after 9 iterations, nbhd size=1, neg = 0 0505: dt=128.000000, rms=0.443 (0.610%), neg=0, invalid=762 0506: dt=25.600000, rms=0.443 (0.096%), neg=0, invalid=762 0507: dt=25.600000, rms=0.442 (0.066%), neg=0, invalid=762 iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 0508: dt=25.600000, rms=0.442 (0.080%), neg=0, invalid=762 iter 0, gcam->neg = 6 after 0 iterations, nbhd size=0, neg = 0 0509: dt=25.600000, rms=0.442 (0.082%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 3 iterations, nbhd size=0, neg = 0 0510: dt=25.600000, rms=0.441 (0.093%), neg=0, invalid=762 iter 0, gcam->neg = 6 after 8 iterations, nbhd size=1, neg = 0 0511: dt=25.600000, rms=0.441 (0.104%), neg=0, invalid=762 iter 0, gcam->neg = 9 after 1 iterations, nbhd size=0, neg = 0 0512: dt=25.600000, rms=0.440 (0.112%), neg=0, invalid=762 iter 0, gcam->neg = 7 after 9 iterations, nbhd size=1, neg = 0 0513: dt=25.600000, rms=0.440 (0.082%), neg=0, invalid=762 iter 0, gcam->neg = 11 after 1 iterations, nbhd size=0, neg = 0 0514: dt=25.600000, rms=0.440 (0.071%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 6 iterations, nbhd size=1, neg = 0 0515: dt=44.800000, rms=0.440 (0.004%), neg=0, invalid=762 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.443, neg=0, invalid=762 0516: dt=0.216000, rms=0.443 (0.000%), neg=0, invalid=762 0517: dt=0.011719, rms=0.443 (0.000%), neg=0, invalid=762 0518: dt=0.011719, rms=0.443 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.443, neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0519: dt=13.409524, rms=0.442 (0.242%), neg=0, invalid=762 iter 0, gcam->neg = 15 after 3 iterations, nbhd size=0, neg = 0 0520: dt=30.364008, rms=0.440 (0.381%), neg=0, invalid=762 0521: dt=6.500000, rms=0.440 (0.069%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0522: dt=6.500000, rms=0.440 (0.037%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 0 iterations, nbhd size=0, neg = 0 0523: dt=6.500000, rms=0.440 (0.058%), neg=0, invalid=762 iter 0, gcam->neg = 4 after 1 iterations, nbhd size=0, neg = 0 0524: dt=6.500000, rms=0.439 (0.080%), neg=0, invalid=762 iter 0, gcam->neg = 4 after 2 iterations, nbhd size=0, neg = 0 0525: dt=6.500000, rms=0.439 (0.100%), neg=0, invalid=762 iter 0, gcam->neg = 9 after 2 iterations, nbhd size=0, neg = 0 0526: dt=6.500000, rms=0.439 (0.094%), neg=0, invalid=762 iter 0, gcam->neg = 10 after 16 iterations, nbhd size=1, neg = 0 0527: dt=6.500000, rms=0.438 (0.078%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 3 iterations, nbhd size=0, neg = 0 0528: dt=6.912000, rms=0.438 (0.003%), neg=0, invalid=762 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.443, neg=0, invalid=762 0529: dt=0.000050, rms=0.443 (0.000%), neg=0, invalid=762 0530: dt=0.000000, rms=0.443 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.443, neg=0, invalid=762 0531: dt=0.000000, rms=0.443 (0.000%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.435, neg=0, invalid=762 iter 0, gcam->neg = 260 after 16 iterations, nbhd size=1, neg = 0 0532: dt=1.064839, rms=0.429 (1.224%), neg=0, invalid=762 0533: dt=0.000027, rms=0.429 (0.000%), neg=0, invalid=762 0534: dt=0.000027, rms=0.429 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.429, neg=0, invalid=762 0535: dt=0.256000, rms=0.429 (0.154%), neg=0, invalid=762 0536: dt=0.448000, rms=0.428 (0.204%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 0 iterations, nbhd size=0, neg = 0 0537: dt=0.488372, rms=0.427 (0.255%), neg=0, invalid=762 0538: dt=0.384000, rms=0.426 (0.081%), neg=0, invalid=762 0539: dt=0.384000, rms=0.426 (0.062%), neg=0, invalid=762 iter 0, gcam->neg = 5 after 1 iterations, nbhd size=0, neg = 0 0540: dt=0.384000, rms=0.426 (0.082%), neg=0, invalid=762 iter 0, gcam->neg = 7 after 3 iterations, nbhd size=0, neg = 0 0541: dt=0.384000, rms=0.426 (0.062%), neg=0, invalid=762 iter 0, gcam->neg = 17 after 3 iterations, nbhd size=0, neg = 0 0542: dt=0.384000, rms=0.425 (0.030%), neg=0, invalid=762 0543: dt=0.256000, rms=0.425 (0.036%), neg=0, invalid=762 iter 0, gcam->neg = 5 after 10 iterations, nbhd size=1, neg = 0 0544: dt=0.448000, rms=0.425 (-0.019%), neg=0, invalid=762 writing output transformation to transforms/talairach.m3z... GCAMwrite mri_ca_register took 2 hours, 12 minutes and 56 seconds. mri_ca_register utimesec 7958.129180 mri_ca_register stimesec 9.984482 mri_ca_register ru_maxrss 1345992 mri_ca_register ru_ixrss 0 mri_ca_register ru_idrss 0 mri_ca_register ru_isrss 0 mri_ca_register ru_minflt 8016037 mri_ca_register ru_majflt 0 mri_ca_register ru_nswap 0 mri_ca_register ru_inblock 0 mri_ca_register ru_oublock 64680 mri_ca_register ru_msgsnd 0 mri_ca_register ru_msgrcv 0 mri_ca_register ru_nsignals 0 mri_ca_register ru_nvcsw 76 mri_ca_register ru_nivcsw 9295 FSRUNTIME@ mri_ca_register 2.2155 hours 1 threads #-------------------------------------- #@# SubCort Seg Wed Dec 16 21:38:38 CST 2020 mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz sysname Linux hostname cluster.hpc.org machine x86_64 setenv SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer cd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz == Number of threads available to mri_ca_label for OpenMP = 1 == relabeling unlikely voxels with window_size = 9 and prior threshold 0.30 using Gibbs prior factor = 0.500 renormalizing sequences with structure alignment, equivalent to: -renormalize -renormalize_mean 0.500 -regularize 0.500 reading 1 input volumes reading classifier array from /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca reading input volume from norm.mgz average std[0] = 7.3 reading transform from transforms/talairach.m3z setting orig areas to linear transform determinant scaled 8.85 Atlas used for the 3D morph was /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca average std = 7.3 using min determinant for regularization = 5.3 0 singular and 0 ill-conditioned covariance matrices regularized labeling volume... renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.16259 (20) mri peak = 0.25210 (43) Left_Lateral_Ventricle (4): linear fit = 2.33 x + 0.0 (1038 voxels, overlap=0.004) Left_Lateral_Ventricle (4): linear fit = 1.50 x + 0.0 (1038 voxels, peak = 46), gca=30.0 gca peak = 0.17677 (13) mri peak = 0.27195 (42) Right_Lateral_Ventricle (43): linear fit = 3.11 x + 0.0 (1308 voxels, overlap=0.003) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (1308 voxels, peak = 40), gca=19.5 gca peak = 0.28129 (95) mri peak = 0.18326 (100) Right_Pallidum (52): linear fit = 1.04 x + 0.0 (1193 voxels, overlap=0.548) Right_Pallidum (52): linear fit = 1.04 x + 0.0 (1193 voxels, peak = 99), gca=99.3 gca peak = 0.16930 (96) mri peak = 0.20909 (102) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (1161 voxels, overlap=0.355) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (1161 voxels, peak = 101), gca=101.3 gca peak = 0.24553 (55) mri peak = 0.12121 (84) Right_Hippocampus (53): linear fit = 1.46 x + 0.0 (1652 voxels, overlap=0.019) Right_Hippocampus (53): linear fit = 1.46 x + 0.0 (1652 voxels, peak = 80), gca=80.0 gca peak = 0.30264 (59) mri peak = 0.13559 (88) Left_Hippocampus (17): linear fit = 1.48 x + 0.0 (1423 voxels, overlap=0.015) Left_Hippocampus (17): linear fit = 1.48 x + 0.0 (1423 voxels, peak = 87), gca=87.0 gca peak = 0.07580 (103) mri peak = 0.19079 (103) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (91876 voxels, overlap=0.609) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (91876 voxels, peak = 102), gca=102.5 gca peak = 0.07714 (104) mri peak = 0.19526 (105) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (95711 voxels, overlap=0.554) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (95711 voxels, peak = 103), gca=103.5 gca peak = 0.09712 (58) mri peak = 0.06590 (90) Left_Cerebral_Cortex (3): linear fit = 1.50 x + 0.0 (47435 voxels, overlap=0.000) Left_Cerebral_Cortex (3): linear fit = 1.50 x + 0.0 (47435 voxels, peak = 87), gca=86.7 gca peak = 0.11620 (58) mri peak = 0.06148 (89) Right_Cerebral_Cortex (42): linear fit = 1.49 x + 0.0 (47729 voxels, overlap=0.000) Right_Cerebral_Cortex (42): linear fit = 1.49 x + 0.0 (47729 voxels, peak = 86), gca=86.1 gca peak = 0.30970 (66) mri peak = 0.20921 (94) Right_Caudate (50): linear fit = 1.38 x + 0.0 (1019 voxels, overlap=0.013) Right_Caudate (50): linear fit = 1.38 x + 0.0 (1019 voxels, peak = 91), gca=91.4 gca peak = 0.15280 (69) mri peak = 0.20140 (97) Left_Caudate (11): linear fit = 1.26 x + 0.0 (1002 voxels, overlap=0.013) Left_Caudate (11): linear fit = 1.26 x + 0.0 (1002 voxels, peak = 87), gca=87.3 gca peak = 0.13902 (56) mri peak = 0.09105 (88) Left_Cerebellum_Cortex (8): linear fit = 1.57 x + 0.0 (27873 voxels, overlap=0.001) Left_Cerebellum_Cortex (8): linear fit = 1.57 x + 0.0 (27873 voxels, peak = 88), gca=87.6 gca peak = 0.14777 (55) mri peak = 0.09494 (85) Right_Cerebellum_Cortex (47): linear fit = 1.52 x + 0.0 (32915 voxels, overlap=0.001) Right_Cerebellum_Cortex (47): linear fit = 1.52 x + 0.0 (32915 voxels, peak = 84), gca=83.9 gca peak = 0.16765 (84) mri peak = 0.11845 (95) Left_Cerebellum_White_Matter (7): linear fit = 1.12 x + 0.0 (14113 voxels, overlap=0.010) Left_Cerebellum_White_Matter (7): linear fit = 1.12 x + 0.0 (14113 voxels, peak = 94), gca=94.5 gca peak = 0.18739 (84) mri peak = 0.17596 (93) Right_Cerebellum_White_Matter (46): linear fit = 1.10 x + 0.0 (10055 voxels, overlap=0.002) Right_Cerebellum_White_Matter (46): linear fit = 1.10 x + 0.0 (10055 voxels, peak = 92), gca=92.0 gca peak = 0.29869 (57) mri peak = 0.16878 (87) Left_Amygdala (18): linear fit = 1.48 x + 0.0 (562 voxels, overlap=0.036) Left_Amygdala (18): linear fit = 1.48 x + 0.0 (562 voxels, peak = 84), gca=84.1 gca peak = 0.33601 (57) mri peak = 0.14605 (84) Right_Amygdala (54): linear fit = 1.46 x + 0.0 (775 voxels, overlap=0.039) Right_Amygdala (54): linear fit = 1.46 x + 0.0 (775 voxels, peak = 83), gca=82.9 gca peak = 0.11131 (90) mri peak = 0.13588 (99) Left_Thalamus_Proper (10): linear fit = 1.11 x + 0.0 (6798 voxels, overlap=0.090) Left_Thalamus_Proper (10): linear fit = 1.11 x + 0.0 (6798 voxels, peak = 99), gca=99.5 gca peak = 0.11793 (83) mri peak = 0.14569 (98) Right_Thalamus_Proper (49): linear fit = 1.17 x + 0.0 (5902 voxels, overlap=0.010) Right_Thalamus_Proper (49): linear fit = 1.17 x + 0.0 (5902 voxels, peak = 98), gca=97.5 gca peak = 0.08324 (81) mri peak = 0.14967 (100) Left_Putamen (12): linear fit = 1.24 x + 0.0 (2214 voxels, overlap=0.011) Left_Putamen (12): linear fit = 1.24 x + 0.0 (2214 voxels, peak = 100), gca=100.0 gca peak = 0.10360 (77) mri peak = 0.18587 (98) Right_Putamen (51): linear fit = 1.26 x + 0.0 (2269 voxels, overlap=0.009) Right_Putamen (51): linear fit = 1.26 x + 0.0 (2269 voxels, peak = 97), gca=97.4 gca peak = 0.08424 (78) mri peak = 0.13932 (93) Brain_Stem (16): linear fit = 1.13 x + 0.0 (15803 voxels, overlap=0.007) Brain_Stem (16): linear fit = 1.13 x + 0.0 (15803 voxels, peak = 89), gca=88.5 gca peak = 0.12631 (89) mri peak = 0.17911 (98) Right_VentralDC (60): linear fit = 1.11 x + 0.0 (1943 voxels, overlap=0.010) Right_VentralDC (60): linear fit = 1.11 x + 0.0 (1943 voxels, peak = 98), gca=98.3 gca peak = 0.14500 (87) mri peak = 0.17142 (98) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (2141 voxels, overlap=0.021) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (2141 voxels, peak = 97), gca=97.0 gca peak = 0.14975 (24) mri peak = 0.26990 (42) Third_Ventricle (14): linear fit = 1.59 x + 0.0 (142 voxels, overlap=0.030) Third_Ventricle (14): linear fit = 1.59 x + 0.0 (142 voxels, peak = 38), gca=38.0 gca peak = 0.19357 (14) mri peak = 0.23233 (38) Fourth_Ventricle (15): linear fit = 2.57 x + 0.0 (338 voxels, overlap=0.010) Fourth_Ventricle (15): linear fit = 2.57 x + 0.0 (338 voxels, peak = 36), gca=35.9 gca peak Unknown = 0.94835 ( 0) gca peak Left_Inf_Lat_Vent = 0.16825 (27) gca peak Left_Cerebellum_Cortex = 0.13902 (56) gca peak Left_Thalamus = 1.00000 (94) gca peak Third_Ventricle = 0.14975 (24) gca peak Fourth_Ventricle = 0.19357 (14) gca peak CSF = 0.23379 (36) gca peak Left_Accumbens_area = 0.70037 (62) gca peak Left_undetermined = 1.00000 (26) gca peak Left_vessel = 0.75997 (52) gca peak Left_choroid_plexus = 0.12089 (35) gca peak Right_Inf_Lat_Vent = 0.24655 (23) gca peak Right_Cerebellum_Cortex = 0.14777 (55) gca peak Right_Accumbens_area = 0.45042 (65) gca peak Right_vessel = 0.82168 (52) gca peak Right_choroid_plexus = 0.14516 (37) gca peak Fifth_Ventricle = 0.65475 (32) gca peak WM_hypointensities = 0.07854 (76) gca peak non_WM_hypointensities = 0.08491 (43) gca peak Optic_Chiasm = 0.71127 (75) not using caudate to estimate GM means estimating mean gm scale to be 1.47 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.50 x + 0.0 setting left cbm cortex = 1.47 x + 0.00 setting right cbm cortex = 1.47 x + 0.00 Left_Putamen too bright - rescaling by 0.927 (from 1.235) to 92.7 (was 100.0) Left_Pallidum too bright - rescaling by 0.986 (from 1.055) to 99.9 (was 101.3) Right_Putamen too bright - rescaling by 0.952 (from 1.265) to 92.7 (was 97.4) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.12544 (31) mri peak = 0.25210 (43) Left_Lateral_Ventricle (4): linear fit = 1.36 x + 0.0 (1038 voxels, overlap=0.057) Left_Lateral_Ventricle (4): linear fit = 1.36 x + 0.0 (1038 voxels, peak = 42), gca=42.0 gca peak = 0.13981 (19) mri peak = 0.27195 (42) Right_Lateral_Ventricle (43): linear fit = 2.11 x + 0.0 (1308 voxels, overlap=0.072) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (1308 voxels, peak = 40), gca=28.5 gca peak = 0.28583 (100) mri peak = 0.18326 (100) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (1193 voxels, overlap=0.999) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (1193 voxels, peak = 100), gca=100.5 gca peak = 0.15343 (99) mri peak = 0.20909 (102) Left_Pallidum (13): linear fit = 1.02 x + 0.0 (1161 voxels, overlap=0.825) Left_Pallidum (13): linear fit = 1.02 x + 0.0 (1161 voxels, peak = 101), gca=101.5 gca peak = 0.24623 (81) mri peak = 0.12121 (84) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1652 voxels, overlap=0.976) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1652 voxels, peak = 81), gca=81.0 gca peak = 0.23802 (83) mri peak = 0.13559 (88) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (1423 voxels, overlap=0.997) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (1423 voxels, peak = 83), gca=83.0 gca peak = 0.07795 (102) mri peak = 0.19079 (103) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (91876 voxels, overlap=0.604) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (91876 voxels, peak = 102), gca=102.0 gca peak = 0.08042 (104) mri peak = 0.19526 (105) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (95711 voxels, overlap=0.557) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (95711 voxels, peak = 103), gca=103.5 gca peak = 0.06513 (85) mri peak = 0.06590 (90) Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (47435 voxels, overlap=0.851) Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (47435 voxels, peak = 85), gca=85.4 gca peak = 0.08011 (86) mri peak = 0.06148 (89) Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (47729 voxels, overlap=0.929) Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (47729 voxels, peak = 86), gca=86.4 gca peak = 0.21855 (91) mri peak = 0.20921 (94) Right_Caudate (50): linear fit = 1.01 x + 0.0 (1019 voxels, overlap=0.986) Right_Caudate (50): linear fit = 1.01 x + 0.0 (1019 voxels, peak = 92), gca=92.4 gca peak = 0.14597 (98) mri peak = 0.20140 (97) Left_Caudate (11): linear fit = 0.98 x + 0.0 (1002 voxels, overlap=0.587) Left_Caudate (11): linear fit = 0.98 x + 0.0 (1002 voxels, peak = 96), gca=95.6 gca peak = 0.09673 (83) mri peak = 0.09105 (88) Left_Cerebellum_Cortex (8): linear fit = 1.05 x + 0.0 (27873 voxels, overlap=0.677) Left_Cerebellum_Cortex (8): linear fit = 1.05 x + 0.0 (27873 voxels, peak = 88), gca=87.6 gca peak = 0.09970 (81) mri peak = 0.09494 (85) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (32915 voxels, overlap=0.867) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (32915 voxels, peak = 83), gca=83.0 gca peak = 0.15219 (95) mri peak = 0.11845 (95) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (14113 voxels, overlap=0.926) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (14113 voxels, peak = 95), gca=94.5 gca peak = 0.17533 (92) mri peak = 0.17596 (93) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (10055 voxels, overlap=0.784) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (10055 voxels, peak = 92), gca=91.5 gca peak = 0.30092 (84) mri peak = 0.16878 (87) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (562 voxels, overlap=0.953) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (562 voxels, peak = 84), gca=84.0 gca peak = 0.27835 (83) mri peak = 0.14605 (84) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (775 voxels, overlap=0.999) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (775 voxels, peak = 83), gca=83.0 gca peak = 0.09695 (98) mri peak = 0.13588 (99) Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (6798 voxels, overlap=0.760) Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (6798 voxels, peak = 99), gca=99.5 gca peak = 0.08873 (95) mri peak = 0.14569 (98) Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (5902 voxels, overlap=0.795) Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (5902 voxels, peak = 95), gca=94.5 gca peak = 0.08745 (86) mri peak = 0.14967 (100) Left_Putamen (12): linear fit = 1.09 x + 0.0 (2214 voxels, overlap=0.306) Left_Putamen (12): linear fit = 1.09 x + 0.0 (2214 voxels, peak = 93), gca=93.3 gca peak = 0.08949 (91) mri peak = 0.18587 (98) Right_Putamen (51): linear fit = 1.05 x + 0.0 (2269 voxels, overlap=0.505) Right_Putamen (51): linear fit = 1.05 x + 0.0 (2269 voxels, peak = 96), gca=96.0 gca peak = 0.07677 (89) mri peak = 0.13932 (93) Brain_Stem (16): linear fit = 1.01 x + 0.0 (15803 voxels, overlap=0.588) Brain_Stem (16): linear fit = 1.01 x + 0.0 (15803 voxels, peak = 90), gca=90.3 gca peak = 0.11988 (93) mri peak = 0.17911 (98) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1943 voxels, overlap=0.747) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1943 voxels, peak = 93), gca=93.0 gca peak = 0.14920 (95) mri peak = 0.17142 (98) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (2141 voxels, overlap=0.786) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (2141 voxels, peak = 95), gca=95.0 gca peak = 0.12656 (38) mri peak = 0.26990 (42) Third_Ventricle (14): linear fit = 1.05 x + 0.0 (142 voxels, overlap=0.502) Third_Ventricle (14): linear fit = 1.05 x + 0.0 (142 voxels, peak = 40), gca=40.1 gca peak = 0.16542 (24) mri peak = 0.23233 (38) Fourth_Ventricle (15): linear fit = 1.75 x + 0.0 (338 voxels, overlap=0.097) Fourth_Ventricle (15): linear fit = 1.75 x + 0.0 (338 voxels, peak = 42), gca=41.9 gca peak Unknown = 0.94835 ( 0) gca peak Left_Inf_Lat_Vent = 0.13793 (47) gca peak Left_Thalamus = 0.36646 (104) gca peak Fourth_Ventricle = 0.16542 (24) gca peak CSF = 0.15446 (55) gca peak Left_Accumbens_area = 0.57593 (79) gca peak Left_undetermined = 0.95280 (34) gca peak Left_vessel = 0.75997 (52) gca peak Left_choroid_plexus = 0.12303 (35) gca peak Right_Inf_Lat_Vent = 0.17280 (34) gca peak Right_Accumbens_area = 0.42274 (89) gca peak Right_vessel = 0.82168 (52) gca peak Right_choroid_plexus = 0.14504 (37) gca peak Fifth_Ventricle = 0.51780 (46) gca peak WM_hypointensities = 0.07725 (76) gca peak non_WM_hypointensities = 0.11534 (54) gca peak Optic_Chiasm = 0.49992 (75) not using caudate to estimate GM means estimating mean gm scale to be 1.00 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.30 x + 0.0 Left_Putamen too bright - rescaling by 0.991 (from 1.085) to 92.5 (was 93.3) Left_Pallidum too bright - rescaling by 0.982 (from 1.025) to 99.7 (was 101.5) Right_Putamen too bright - rescaling by 0.963 (from 1.055) to 92.5 (was 96.0) Right_Pallidum too bright - rescaling by 0.992 (from 1.005) to 99.7 (was 100.5) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 68892 voxels changed in iteration 0 of unlikely voxel relabeling 235 voxels changed in iteration 1 of unlikely voxel relabeling 2 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 188082 gm and wm labels changed (%35 to gray, %65 to white out of all changed labels) 818 hippocampal voxels changed. 0 amygdala voxels changed. pass 1: 98631 changed. image ll: -2.205, PF=0.500 pass 2: 33888 changed. image ll: -2.202, PF=0.500 pass 3: 12388 changed. pass 4: 5360 changed. pass 5: 2561 changed. 140389 voxels changed in iteration 0 of unlikely voxel relabeling 694 voxels changed in iteration 1 of unlikely voxel relabeling 39 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 6567 voxels changed in iteration 0 of unlikely voxel relabeling 96 voxels changed in iteration 1 of unlikely voxel relabeling 30 voxels changed in iteration 2 of unlikely voxel relabeling 3 voxels changed in iteration 3 of unlikely voxel relabeling 0 voxels changed in iteration 4 of unlikely voxel relabeling 5362 voxels changed in iteration 0 of unlikely voxel relabeling 53 voxels changed in iteration 1 of unlikely voxel relabeling 15 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 5173 voxels changed in iteration 0 of unlikely voxel relabeling 42 voxels changed in iteration 1 of unlikely voxel relabeling 3 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling MRItoUCHAR: min=0, max=85 MRItoUCHAR: converting to UCHAR writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 4744.399741 mri_ca_label stimesec 1.182820 mri_ca_label ru_maxrss 2112820 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 677329 mri_ca_label ru_majflt 0 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 0 mri_ca_label ru_oublock 488 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 107 mri_ca_label ru_nivcsw 5668 auto-labeling took 79 minutes and 10 seconds. mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/transforms/cc_up.lta ID473151317_WFL_Y26_GDM_T1W_ROC_RAS will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/transforms/cc_up.lta reading aseg from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aseg.auto_noCCseg.mgz reading norm from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/norm.mgz 35859 voxels in left wm, 45495 in right wm, xrange [125, 133] searching rotation angles z=[-6 8], y=[-6 8] searching scale 1 Z rot -5.7 searching scale 1 Z rot -5.5 searching scale 1 Z rot -5.2 searching scale 1 Z rot -5.0 searching scale 1 Z rot -4.7 searching scale 1 Z rot -4.5 searching scale 1 Z rot -4.2 searching scale 1 Z rot -4.0 searching scale 1 Z rot -3.7 searching scale 1 Z rot -3.5 searching scale 1 Z rot -3.2 searching scale 1 Z rot -3.0 searching scale 1 Z rot -2.7 searching scale 1 Z rot -2.5 searching scale 1 Z rot -2.2 searching scale 1 Z rot -2.0 searching scale 1 Z rot -1.7 searching scale 1 Z rot -1.5 searching scale 1 Z rot -1.2 searching scale 1 Z rot -1.0 searching scale 1 Z rot -0.7 searching scale 1 Z rot -0.5 searching scale 1 Z rot -0.2 searching scale 1 Z rot 0.0 searching scale 1 Z rot 0.3 searching scale 1 Z rot 0.5 searching scale 1 Z rot 0.8 searching scale 1 Z rot 1.0 searching scale 1 Z rot 1.3 searching scale 1 Z rot 1.5 searching scale 1 Z rot 1.8 searching scale 1 Z rot 2.0 searching scale 1 Z rot 2.3 searching scale 1 Z rot 2.5 searching scale 1 Z rot 2.8 searching scale 1 Z rot 3.0 searching scale 1 Z rot 3.3 searching scale 1 Z rot 3.5 searching scale 1 Z rot 3.8 searching scale 1 Z rot 4.0 searching scale 1 Z rot 4.3 searching scale 1 Z rot 4.5 searching scale 1 Z rot 4.8 searching scale 1 Z rot 5.0 searching scale 1 Z rot 5.3 searching scale 1 Z rot 5.5 searching scale 1 Z rot 5.8 searching scale 1 Z rot 6.0 searching scale 1 Z rot 6.3 searching scale 1 Z rot 6.5 searching scale 1 Z rot 6.8 searching scale 1 Z rot 7.0 searching scale 1 Z rot 7.3 searching scale 1 Z rot 7.5 searching scale 1 Z rot 7.8 searching scale 1 Z rot 8.0 searching scale 1 Z rot 8.3 global minimum found at slice 129.0, rotations (0.89, 1.55) final transformation (x=129.0, yr=0.888, zr=1.547): 0.99952 -0.02699 0.01549 -0.25987; 0.02699 0.99964 0.00042 26.50069; -0.01550 0.00000 0.99988 3.01482; 0.00000 0.00000 0.00000 1.00000; updating x range to be [125, 130] in xformed coordinates best xformed slice 127 cc center is found at 127 98 127 eigenvectors: 0.00057 -0.00264 1.00000; 0.30164 -0.95342 -0.00269; 0.95342 0.30164 0.00026; writing aseg with callosum to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aseg.auto.mgz... corpus callosum segmentation took 0.6 minutes #-------------------------------------- #@# Merge ASeg Wed Dec 16 22:58:26 CST 2020 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Wed Dec 16 22:58:26 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_normalize -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz assuming input volume is MGH (Van der Kouwe) MP-RAGE using segmentation for initial intensity normalization using MR volume brainmask.mgz to mask input volume... reading from norm.mgz... Reading aseg aseg.presurf.mgz normalizing image... processing with aseg removing outliers in the aseg WM... 1283 control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... Smoothing with sigma 8 Applying bias correction building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 47 (47), valley at 31 (31) csf peak at 24, setting threshold to 39 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 49 (49), valley at 33 (33) csf peak at 25, setting threshold to 41 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 2 minutes and 27 seconds. #-------------------------------------------- #@# Mask BFS Wed Dec 16 23:00:54 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz threshold mask volume at 5 DoAbs = 0 Found 1978261 voxels in mask (pct= 11.79) Writing masked volume to brain.finalsurfs.mgz...done. #-------------------------------------------- #@# WM Segmentation Wed Dec 16 23:00:55 CST 2020 mri_segment -mprage brain.mgz wm.seg.mgz doing initial intensity segmentation... using local statistics to label ambiguous voxels... computing class statistics for intensity windows... WM (104.0): 105.2 +- 4.4 [79.0 --> 125.0] GM (66.0) : 65.0 +- 10.9 [30.0 --> 95.0] setting bottom of white matter range to 75.8 setting top of gray matter range to 86.7 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... 2999 sparsely connected voxels removed... thickening thin strands.... 20 segments, 1855 filled 1200 bright non-wm voxels segmented. 6170 diagonally connected voxels added... white matter segmentation took 1.2 minutes writing output to wm.seg.mgz... assuming input volume is MGH (Van der Kouwe) MP-RAGE mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz preserving editing changes in input volume... auto filling took 0.37 minutes reading wm segmentation from wm.seg.mgz... 0 voxels added to wm to prevent paths from MTL structures to cortex 1145 additional wm voxels added 0 additional wm voxels added SEG EDIT: 25734 voxels turned on, 159055 voxels turned off. propagating editing to output volume from wm.seg.mgz 115,126,128 old 110 new 110 115,126,128 old 110 new 110 writing edited volume to wm.asegedit.mgz.... mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz Iteration Number : 1 pass 1 (xy+): 86 found - 86 modified | TOTAL: 86 pass 2 (xy+): 0 found - 86 modified | TOTAL: 86 pass 1 (xy-): 84 found - 84 modified | TOTAL: 170 pass 2 (xy-): 0 found - 84 modified | TOTAL: 170 pass 1 (yz+): 64 found - 64 modified | TOTAL: 234 pass 2 (yz+): 0 found - 64 modified | TOTAL: 234 pass 1 (yz-): 78 found - 78 modified | TOTAL: 312 pass 2 (yz-): 0 found - 78 modified | TOTAL: 312 pass 1 (xz+): 80 found - 80 modified | TOTAL: 392 pass 2 (xz+): 0 found - 80 modified | TOTAL: 392 pass 1 (xz-): 81 found - 81 modified | TOTAL: 473 pass 2 (xz-): 0 found - 81 modified | TOTAL: 473 Iteration Number : 1 pass 1 (+++): 294 found - 294 modified | TOTAL: 294 pass 2 (+++): 0 found - 294 modified | TOTAL: 294 pass 1 (+++): 448 found - 448 modified | TOTAL: 742 pass 2 (+++): 0 found - 448 modified | TOTAL: 742 pass 1 (+++): 284 found - 284 modified | TOTAL: 1026 pass 2 (+++): 0 found - 284 modified | TOTAL: 1026 pass 1 (+++): 444 found - 444 modified | TOTAL: 1470 pass 2 (+++): 0 found - 444 modified | TOTAL: 1470 Iteration Number : 1 pass 1 (++): 140 found - 140 modified | TOTAL: 140 pass 2 (++): 0 found - 140 modified | TOTAL: 140 pass 1 (+-): 113 found - 113 modified | TOTAL: 253 pass 2 (+-): 1 found - 114 modified | TOTAL: 254 pass 3 (+-): 0 found - 114 modified | TOTAL: 254 pass 1 (--): 125 found - 125 modified | TOTAL: 379 pass 2 (--): 1 found - 126 modified | TOTAL: 380 pass 3 (--): 0 found - 126 modified | TOTAL: 380 pass 1 (-+): 116 found - 116 modified | TOTAL: 496 pass 2 (-+): 0 found - 116 modified | TOTAL: 496 Iteration Number : 2 pass 1 (xy+): 60 found - 60 modified | TOTAL: 60 pass 2 (xy+): 0 found - 60 modified | TOTAL: 60 pass 1 (xy-): 52 found - 52 modified | TOTAL: 112 pass 2 (xy-): 0 found - 52 modified | TOTAL: 112 pass 1 (yz+): 33 found - 33 modified | TOTAL: 145 pass 2 (yz+): 0 found - 33 modified | TOTAL: 145 pass 1 (yz-): 49 found - 49 modified | TOTAL: 194 pass 2 (yz-): 0 found - 49 modified | TOTAL: 194 pass 1 (xz+): 54 found - 54 modified | TOTAL: 248 pass 2 (xz+): 0 found - 54 modified | TOTAL: 248 pass 1 (xz-): 37 found - 37 modified | TOTAL: 285 pass 2 (xz-): 0 found - 37 modified | TOTAL: 285 Iteration Number : 2 pass 1 (+++): 4 found - 4 modified | TOTAL: 4 pass 2 (+++): 0 found - 4 modified | TOTAL: 4 pass 1 (+++): 4 found - 4 modified | TOTAL: 8 pass 2 (+++): 0 found - 4 modified | TOTAL: 8 pass 1 (+++): 2 found - 2 modified | TOTAL: 10 pass 2 (+++): 0 found - 2 modified | TOTAL: 10 pass 1 (+++): 2 found - 2 modified | TOTAL: 12 pass 2 (+++): 0 found - 2 modified | TOTAL: 12 Iteration Number : 2 pass 1 (++): 13 found - 13 modified | TOTAL: 13 pass 2 (++): 0 found - 13 modified | TOTAL: 13 pass 1 (+-): 13 found - 13 modified | TOTAL: 26 pass 2 (+-): 0 found - 13 modified | TOTAL: 26 pass 1 (--): 27 found - 27 modified | TOTAL: 53 pass 2 (--): 0 found - 27 modified | TOTAL: 53 pass 1 (-+): 16 found - 16 modified | TOTAL: 69 pass 2 (-+): 0 found - 16 modified | TOTAL: 69 Iteration Number : 3 pass 1 (xy+): 3 found - 3 modified | TOTAL: 3 pass 2 (xy+): 0 found - 3 modified | TOTAL: 3 pass 1 (xy-): 1 found - 1 modified | TOTAL: 4 pass 2 (xy-): 0 found - 1 modified | TOTAL: 4 pass 1 (yz+): 2 found - 2 modified | TOTAL: 6 pass 2 (yz+): 0 found - 2 modified | TOTAL: 6 pass 1 (yz-): 2 found - 2 modified | TOTAL: 8 pass 2 (yz-): 0 found - 2 modified | TOTAL: 8 pass 1 (xz+): 2 found - 2 modified | TOTAL: 10 pass 2 (xz+): 0 found - 2 modified | TOTAL: 10 pass 1 (xz-): 2 found - 2 modified | TOTAL: 12 pass 2 (xz-): 0 found - 2 modified | TOTAL: 12 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 (-+): 3 found - 3 modified | TOTAL: 3 pass 2 (-+): 0 found - 3 modified | TOTAL: 3 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-): 1 found - 1 modified | TOTAL: 1 pass 2 (yz-): 0 found - 1 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 0 found - 0 modified | TOTAL: 1 Iteration Number : 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 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 5 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 5 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 5 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 2822 (out of 1270311: 0.222150) binarizing input wm segmentation... Ambiguous edge configurations... mri_pretess done #-------------------------------------------- #@# Fill Wed Dec 16 23:02:33 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz logging cutting plane coordinates to ../scripts/ponscc.cut.log... INFO: Using transforms/talairach.lta and its offset for Talairach volume ... using segmentation aseg.auto_noCCseg.mgz... reading input volume...done. searching for cutting planes...voxel to talairach voxel transform 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35716; 0.02219 -0.02656 1.01786 -15.24319; 0.00000 0.00000 0.00000 1.00000; voxel to talairach voxel transform 0.91844 0.06417 -0.02295 2.48059; -0.06368 0.96134 0.04102 5.35716; 0.02219 -0.02656 1.01786 -15.24319; 0.00000 0.00000 0.00000 1.00000; reading segmented volume aseg.auto_noCCseg.mgz... Looking for area (min, max) = (350, 1400) area[0] = 6049 (min = 350, max = 1400), aspect = 1.08 (min = 0.10, max = 0.75) need search nearby using seed (124, 118, 147), TAL = (4.0, 19.0, 10.0) talairach voxel to voxel transform 1.08318 -0.07155 0.02730 -1.88739; 0.07268 1.03426 -0.04004 -6.33127; -0.02172 0.02855 0.98082 14.85173; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (124, 118, 147) --> (4.0, 19.0, 10.0) done. writing output to filled.mgz... filling took 0.5 minutes talairach cc position changed to (4.00, 19.00, 10.00) Erasing brainstem...done. seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(22.00, 19.00, 10.00) SRC: (108.50, 117.53, 160.10) search lh wm seed point around talairach space (-14.00, 19.00, 10.00), SRC: (147.49, 120.15, 159.32) 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 Wed Dec 16 23:03:06 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz Iteration Number : 1 pass 1 (xy+): 16 found - 16 modified | TOTAL: 16 pass 2 (xy+): 0 found - 16 modified | TOTAL: 16 pass 1 (xy-): 13 found - 13 modified | TOTAL: 29 pass 2 (xy-): 0 found - 13 modified | TOTAL: 29 pass 1 (yz+): 16 found - 16 modified | TOTAL: 45 pass 2 (yz+): 0 found - 16 modified | TOTAL: 45 pass 1 (yz-): 19 found - 19 modified | TOTAL: 64 pass 2 (yz-): 0 found - 19 modified | TOTAL: 64 pass 1 (xz+): 17 found - 17 modified | TOTAL: 81 pass 2 (xz+): 0 found - 17 modified | TOTAL: 81 pass 1 (xz-): 11 found - 11 modified | TOTAL: 92 pass 2 (xz-): 0 found - 11 modified | TOTAL: 92 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 (+++): 5 found - 5 modified | TOTAL: 5 pass 2 (+++): 0 found - 5 modified | TOTAL: 5 Iteration Number : 1 pass 1 (++): 7 found - 7 modified | TOTAL: 7 pass 2 (++): 0 found - 7 modified | TOTAL: 7 pass 1 (+-): 15 found - 15 modified | TOTAL: 22 pass 2 (+-): 0 found - 15 modified | TOTAL: 22 pass 1 (--): 6 found - 6 modified | TOTAL: 28 pass 2 (--): 0 found - 6 modified | TOTAL: 28 pass 1 (-+): 3 found - 3 modified | TOTAL: 31 pass 2 (-+): 0 found - 3 modified | TOTAL: 31 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 2 found - 2 modified | TOTAL: 2 pass 2 (xy-): 0 found - 2 modified | TOTAL: 2 pass 1 (yz+): 0 found - 0 modified | TOTAL: 2 pass 1 (yz-): 2 found - 2 modified | TOTAL: 4 pass 2 (yz-): 0 found - 2 modified | TOTAL: 4 pass 1 (xz+): 0 found - 0 modified | TOTAL: 4 pass 1 (xz-): 1 found - 1 modified | TOTAL: 5 pass 2 (xz-): 0 found - 1 modified | TOTAL: 5 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 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 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 = 134 (out of 625158: 0.021435) Ambiguous edge configurations... mri_pretess done mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ slice 50: 1701 vertices, 1825 faces slice 60: 9285 vertices, 9570 faces slice 70: 16917 vertices, 17261 faces slice 80: 25280 vertices, 25675 faces slice 90: 33906 vertices, 34294 faces slice 100: 43271 vertices, 43701 faces slice 110: 53889 vertices, 54404 faces slice 120: 65163 vertices, 65773 faces slice 130: 76959 vertices, 77639 faces slice 140: 88660 vertices, 89322 faces slice 150: 99527 vertices, 100267 faces slice 160: 111357 vertices, 112101 faces slice 170: 121219 vertices, 121961 faces slice 180: 129893 vertices, 130624 faces slice 190: 136888 vertices, 137605 faces slice 200: 143283 vertices, 143991 faces slice 210: 146814 vertices, 147314 faces slice 220: 146814 vertices, 147314 faces slice 230: 146814 vertices, 147314 faces slice 240: 146814 vertices, 147314 faces slice 250: 146814 vertices, 147314 faces using the conformed surface RAS to save vertex points... writing ../surf/lh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix counting number of connected components... 146814 voxel in cpt #1: X=-500 [v=146814,e=441942,f=294628] located at (-31.376455, -2.761099, 17.765581) For the whole surface: X=-500 [v=146814,e=441942,f=294628] One single component has been found nothing to do done #-------------------------------------------- #@# Tessellate rh Wed Dec 16 23:03:11 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz Iteration Number : 1 pass 1 (xy+): 2 found - 2 modified | TOTAL: 2 pass 2 (xy+): 0 found - 2 modified | TOTAL: 2 pass 1 (xy-): 8 found - 8 modified | TOTAL: 10 pass 2 (xy-): 0 found - 8 modified | TOTAL: 10 pass 1 (yz+): 12 found - 12 modified | TOTAL: 22 pass 2 (yz+): 0 found - 12 modified | TOTAL: 22 pass 1 (yz-): 4 found - 4 modified | TOTAL: 26 pass 2 (yz-): 0 found - 4 modified | TOTAL: 26 pass 1 (xz+): 6 found - 6 modified | TOTAL: 32 pass 2 (xz+): 0 found - 6 modified | TOTAL: 32 pass 1 (xz-): 7 found - 7 modified | TOTAL: 39 pass 2 (xz-): 0 found - 7 modified | TOTAL: 39 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 Iteration Number : 1 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 3 found - 3 modified | TOTAL: 4 pass 2 (+-): 0 found - 3 modified | TOTAL: 4 pass 1 (--): 2 found - 2 modified | TOTAL: 6 pass 2 (--): 0 found - 2 modified | TOTAL: 6 pass 1 (-+): 8 found - 8 modified | TOTAL: 14 pass 2 (-+): 0 found - 8 modified | TOTAL: 14 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 1 found - 1 modified | TOTAL: 1 pass 2 (yz-): 0 found - 1 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 1 found - 1 modified | TOTAL: 2 pass 2 (xz-): 0 found - 1 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 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 1 found - 1 modified | TOTAL: 2 pass 2 (-+): 0 found - 1 modified | TOTAL: 2 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 = 59 (out of 619749: 0.009520) Ambiguous edge configurations... mri_pretess done mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ slice 50: 794 vertices, 879 faces slice 60: 4915 vertices, 5086 faces slice 70: 11346 vertices, 11608 faces slice 80: 19135 vertices, 19518 faces slice 90: 29750 vertices, 30212 faces slice 100: 39560 vertices, 40011 faces slice 110: 50534 vertices, 51121 faces slice 120: 63241 vertices, 63885 faces slice 130: 76784 vertices, 77497 faces slice 140: 90291 vertices, 91006 faces slice 150: 101713 vertices, 102496 faces slice 160: 114437 vertices, 115242 faces slice 170: 125380 vertices, 126139 faces slice 180: 134674 vertices, 135470 faces slice 190: 142312 vertices, 143096 faces slice 200: 148520 vertices, 149246 faces slice 210: 151922 vertices, 152466 faces slice 220: 151922 vertices, 152466 faces slice 230: 151922 vertices, 152466 faces slice 240: 151922 vertices, 152466 faces slice 250: 151922 vertices, 152466 faces using the conformed surface RAS to save vertex points... writing ../surf/rh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix counting number of connected components... 151922 voxel in cpt #1: X=-544 [v=151922,e=457398,f=304932] located at (29.930695, 0.065547, 19.146029) For the whole surface: X=-544 [v=151922,e=457398,f=304932] One single component has been found nothing to do done #-------------------------------------------- #@# Smooth1 lh Wed Dec 16 23:03:16 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Smooth1 rh Wed Dec 16 23:03:20 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation1 lh Wed Dec 16 23:03:25 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 53.9 mm, total surface area = 73407 mm^2 writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.5 minutes step 000: RMS=0.197 (target=0.015) step 005: RMS=0.153 (target=0.015) step 010: RMS=0.152 (target=0.015) step 015: RMS=0.151 (target=0.015) step 020: RMS=0.149 (target=0.015) step 025: RMS=0.148 (target=0.015) step 030: RMS=0.146 (target=0.015) step 035: RMS=0.143 (target=0.015) step 040: RMS=0.142 (target=0.015) step 045: RMS=0.141 (target=0.015) step 050: RMS=0.141 (target=0.015) step 055: RMS=0.143 (target=0.015) step 060: RMS=0.144 (target=0.015) inflation complete. Not saving sulc mris_inflate utimesec 28.712635 mris_inflate stimesec 0.063990 mris_inflate ru_maxrss 189392 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 24479 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 10352 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 34 #-------------------------------------------- #@# Inflation1 rh Wed Dec 16 23:03:54 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 52.8 mm, total surface area = 76151 mm^2 writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.5 minutes step 000: RMS=0.195 (target=0.015) step 005: RMS=0.150 (target=0.015) step 010: RMS=0.149 (target=0.015) step 015: RMS=0.150 (target=0.015) step 020: RMS=0.150 (target=0.015) step 025: RMS=0.148 (target=0.015) step 030: RMS=0.146 (target=0.015) step 035: RMS=0.143 (target=0.015) step 040: RMS=0.142 (target=0.015) step 045: RMS=0.141 (target=0.015) step 050: RMS=0.141 (target=0.015) step 055: RMS=0.142 (target=0.015) step 060: RMS=0.143 (target=0.015) inflation complete. Not saving sulc mris_inflate utimesec 29.786471 mris_inflate stimesec 0.058991 mris_inflate ru_maxrss 195776 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 25055 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 10712 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 34 #-------------------------------------------- #@# QSphere lh Wed Dec 16 23:04:24 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix doing quick spherical unfolding. setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... vertex spacing 0.91 +- 0.64 (0.00-->6.03) (max @ vno 81460 --> 82603) face area 0.03 +- 0.05 (-0.20-->0.82) == Number of threads available to mris_sphere for OpenMP = 1 == scaling brain by 0.368... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.057, avgs=0 005/300: dt: 0.9000, rms radial error=173.796, avgs=0 010/300: dt: 0.9000, rms radial error=173.235, avgs=0 015/300: dt: 0.9000, rms radial error=172.499, avgs=0 020/300: dt: 0.9000, rms radial error=171.661, avgs=0 025/300: dt: 0.9000, rms radial error=170.765, avgs=0 030/300: dt: 0.9000, rms radial error=169.837, avgs=0 035/300: dt: 0.9000, rms radial error=168.894, avgs=0 040/300: dt: 0.9000, rms radial error=167.945, avgs=0 045/300: dt: 0.9000, rms radial error=166.993, avgs=0 050/300: dt: 0.9000, rms radial error=166.043, avgs=0 055/300: dt: 0.9000, rms radial error=165.095, avgs=0 060/300: dt: 0.9000, rms radial error=164.152, avgs=0 065/300: dt: 0.9000, rms radial error=163.214, avgs=0 070/300: dt: 0.9000, rms radial error=162.283, avgs=0 075/300: dt: 0.9000, rms radial error=161.357, avgs=0 080/300: dt: 0.9000, rms radial error=160.436, avgs=0 085/300: dt: 0.9000, rms radial error=159.521, avgs=0 090/300: dt: 0.9000, rms radial error=158.611, avgs=0 095/300: dt: 0.9000, rms radial error=157.707, avgs=0 100/300: dt: 0.9000, rms radial error=156.809, avgs=0 105/300: dt: 0.9000, rms radial error=155.916, avgs=0 110/300: dt: 0.9000, rms radial error=155.028, avgs=0 115/300: dt: 0.9000, rms radial error=154.145, avgs=0 120/300: dt: 0.9000, rms radial error=153.268, avgs=0 125/300: dt: 0.9000, rms radial error=152.395, avgs=0 130/300: dt: 0.9000, rms radial error=151.528, avgs=0 135/300: dt: 0.9000, rms radial error=150.667, avgs=0 140/300: dt: 0.9000, rms radial error=149.810, avgs=0 145/300: dt: 0.9000, rms radial error=148.958, avgs=0 150/300: dt: 0.9000, rms radial error=148.111, avgs=0 155/300: dt: 0.9000, rms radial error=147.269, avgs=0 160/300: dt: 0.9000, rms radial error=146.432, avgs=0 165/300: dt: 0.9000, rms radial error=145.600, avgs=0 170/300: dt: 0.9000, rms radial error=144.773, avgs=0 175/300: dt: 0.9000, rms radial error=143.951, avgs=0 180/300: dt: 0.9000, rms radial error=143.133, avgs=0 185/300: dt: 0.9000, rms radial error=142.320, avgs=0 190/300: dt: 0.9000, rms radial error=141.512, avgs=0 195/300: dt: 0.9000, rms radial error=140.708, avgs=0 200/300: dt: 0.9000, rms radial error=139.909, avgs=0 205/300: dt: 0.9000, rms radial error=139.115, avgs=0 210/300: dt: 0.9000, rms radial error=138.325, avgs=0 215/300: dt: 0.9000, rms radial error=137.540, avgs=0 220/300: dt: 0.9000, rms radial error=136.760, avgs=0 225/300: dt: 0.9000, rms radial error=135.984, avgs=0 230/300: dt: 0.9000, rms radial error=135.213, avgs=0 235/300: dt: 0.9000, rms radial error=134.446, avgs=0 240/300: dt: 0.9000, rms radial error=133.684, avgs=0 245/300: dt: 0.9000, rms radial error=132.926, avgs=0 250/300: dt: 0.9000, rms radial error=132.172, avgs=0 255/300: dt: 0.9000, rms radial error=131.423, avgs=0 260/300: dt: 0.9000, rms radial error=130.678, avgs=0 265/300: dt: 0.9000, rms radial error=129.937, avgs=0 270/300: dt: 0.9000, rms radial error=129.200, avgs=0 275/300: dt: 0.9000, rms radial error=128.468, avgs=0 280/300: dt: 0.9000, rms radial error=127.739, avgs=0 285/300: dt: 0.9000, rms radial error=127.015, avgs=0 290/300: dt: 0.9000, rms radial error=126.294, avgs=0 295/300: dt: 0.9000, rms radial error=125.578, avgs=0 300/300: dt: 0.9000, rms radial error=124.866, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 16526.49 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00007 epoch 2 (K=40.0), pass 1, starting sse = 2850.50 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00025 epoch 3 (K=160.0), pass 1, starting sse = 478.40 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.02/10 = 0.00171 epoch 4 (K=640.0), pass 1, starting sse = 113.33 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.05/11 = 0.00481 final distance error %24.71 writing spherical brain to ../surf/lh.qsphere.nofix spherical transformation took 0.05 hours mris_sphere utimesec 179.226753 mris_sphere stimesec 0.067989 mris_sphere ru_maxrss 189584 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 24531 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 10352 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 0 mris_sphere ru_nivcsw 199 FSRUNTIME@ mris_sphere 0.0498 hours 1 threads #-------------------------------------------- #@# QSphere rh Wed Dec 16 23:07:23 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix doing quick spherical unfolding. setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... vertex spacing 0.92 +- 0.63 (0.00-->6.76) (max @ vno 102521 --> 102522) face area 0.03 +- 0.05 (-0.38-->0.82) == Number of threads available to mris_sphere for OpenMP = 1 == scaling brain by 0.368... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.362, avgs=0 005/300: dt: 0.9000, rms radial error=174.100, avgs=0 010/300: dt: 0.9000, rms radial error=173.538, avgs=0 015/300: dt: 0.9000, rms radial error=172.801, avgs=0 020/300: dt: 0.9000, rms radial error=171.963, avgs=0 025/300: dt: 0.9000, rms radial error=171.066, avgs=0 030/300: dt: 0.9000, rms radial error=170.136, avgs=0 035/300: dt: 0.9000, rms radial error=169.191, avgs=0 040/300: dt: 0.9000, rms radial error=168.240, avgs=0 045/300: dt: 0.9000, rms radial error=167.287, avgs=0 050/300: dt: 0.9000, rms radial error=166.336, avgs=0 055/300: dt: 0.9000, rms radial error=165.388, avgs=0 060/300: dt: 0.9000, rms radial error=164.444, avgs=0 065/300: dt: 0.9000, rms radial error=163.504, avgs=0 070/300: dt: 0.9000, rms radial error=162.570, avgs=0 075/300: dt: 0.9000, rms radial error=161.641, avgs=0 080/300: dt: 0.9000, rms radial error=160.718, avgs=0 085/300: dt: 0.9000, rms radial error=159.800, avgs=0 090/300: dt: 0.9000, rms radial error=158.888, avgs=0 095/300: dt: 0.9000, rms radial error=157.981, avgs=0 100/300: dt: 0.9000, rms radial error=157.080, avgs=0 105/300: dt: 0.9000, rms radial error=156.185, avgs=0 110/300: dt: 0.9000, rms radial error=155.294, avgs=0 115/300: dt: 0.9000, rms radial error=154.409, avgs=0 120/300: dt: 0.9000, rms radial error=153.531, avgs=0 125/300: dt: 0.9000, rms radial error=152.659, avgs=0 130/300: dt: 0.9000, rms radial error=151.792, avgs=0 135/300: dt: 0.9000, rms radial error=150.930, avgs=0 140/300: dt: 0.9000, rms radial error=150.073, avgs=0 145/300: dt: 0.9000, rms radial error=149.221, avgs=0 150/300: dt: 0.9000, rms radial error=148.374, avgs=0 155/300: dt: 0.9000, rms radial error=147.532, avgs=0 160/300: dt: 0.9000, rms radial error=146.695, avgs=0 165/300: dt: 0.9000, rms radial error=145.863, avgs=0 170/300: dt: 0.9000, rms radial error=145.035, avgs=0 175/300: dt: 0.9000, rms radial error=144.213, avgs=0 180/300: dt: 0.9000, rms radial error=143.396, avgs=0 185/300: dt: 0.9000, rms radial error=142.584, avgs=0 190/300: dt: 0.9000, rms radial error=141.776, avgs=0 195/300: dt: 0.9000, rms radial error=140.973, avgs=0 200/300: dt: 0.9000, rms radial error=140.174, avgs=0 205/300: dt: 0.9000, rms radial error=139.380, avgs=0 210/300: dt: 0.9000, rms radial error=138.591, avgs=0 215/300: dt: 0.9000, rms radial error=137.805, avgs=0 220/300: dt: 0.9000, rms radial error=137.025, avgs=0 225/300: dt: 0.9000, rms radial error=136.249, avgs=0 230/300: dt: 0.9000, rms radial error=135.477, avgs=0 235/300: dt: 0.9000, rms radial error=134.710, avgs=0 240/300: dt: 0.9000, rms radial error=133.948, avgs=0 245/300: dt: 0.9000, rms radial error=133.189, avgs=0 250/300: dt: 0.9000, rms radial error=132.436, avgs=0 255/300: dt: 0.9000, rms radial error=131.686, avgs=0 260/300: dt: 0.9000, rms radial error=130.941, avgs=0 265/300: dt: 0.9000, rms radial error=130.200, avgs=0 270/300: dt: 0.9000, rms radial error=129.463, avgs=0 275/300: dt: 0.9000, rms radial error=128.730, avgs=0 280/300: dt: 0.9000, rms radial error=128.001, avgs=0 285/300: dt: 0.9000, rms radial error=127.277, avgs=0 290/300: dt: 0.9000, rms radial error=126.557, avgs=0 295/300: dt: 0.9000, rms radial error=125.842, avgs=0 300/300: dt: 0.9000, rms radial error=125.130, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 17132.18 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00012 epoch 2 (K=40.0), pass 1, starting sse = 2984.08 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00029 epoch 3 (K=160.0), pass 1, starting sse = 525.66 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.02/10 = 0.00183 epoch 4 (K=640.0), pass 1, starting sse = 140.13 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.08/11 = 0.00699 final distance error %24.44 writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.05 hours mris_sphere utimesec 189.208235 mris_sphere stimesec 0.077988 mris_sphere ru_maxrss 195964 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 25101 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 10712 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 0 mris_sphere ru_nivcsw 255 FSRUNTIME@ mris_sphere 0.0526 hours 1 threads #-------------------------------------------- #@# Fix Topology Copy lh Wed Dec 16 23:10:33 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts cp ../surf/lh.orig.nofix ../surf/lh.orig cp ../surf/lh.inflated.nofix ../surf/lh.inflated #-------------------------------------------- #@# Fix Topology Copy rh Wed Dec 16 23:10:33 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts cp ../surf/rh.orig.nofix ../surf/rh.orig cp ../surf/rh.inflated.nofix ../surf/rh.inflated #@# Fix Topology lh Wed Dec 16 23:10:33 CST 2020 mris_fix_topology -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh reading spherical homeomorphism from 'qsphere.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ before topology correction, eno=-500 (nv=146814, nf=294628, ne=441942, g=251) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 9 iterations marking ambiguous vertices... 81778 ambiguous faces found in tessellation segmenting defects... 173 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 2 into 5 -merging segment 31 into 27 -merging segment 53 into 44 -merging segment 69 into 55 -merging segment 75 into 55 -merging segment 102 into 55 -merging segment 84 into 55 -merging segment 91 into 55 -merging segment 96 into 55 -merging segment 99 into 55 -merging segment 74 into 71 -merging segment 80 into 79 -merging segment 111 into 81 -merging segment 115 into 103 -merging segment 119 into 109 -merging segment 129 into 116 -merging segment 141 into 122 -merging segment 152 into 134 -merging segment 138 into 137 -merging segment 147 into 142 -merging segment 159 into 142 152 defects to be corrected 0 vertices coincident reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -8.5701 (-4.2850) -vertex loglikelihood: -6.9603 (-3.4801) -normal dot loglikelihood: -3.4943 (-3.4943) -quad curv loglikelihood: -5.8578 (-2.9289) Total Loglikelihood : -24.8824 CORRECTING DEFECT 0 (vertices=2678, convex hull=725, v0=1260) XL defect detected... After retessellation of defect 0 (v0=1260), euler #=-150 (101873,297803,195780) : difference with theory (-149) = 1 CORRECTING DEFECT 1 (vertices=2868, convex hull=682, v0=1439) XL defect detected... After retessellation of defect 1 (v0=1439), euler #=-149 (102073,298750,196528) : difference with theory (-148) = 1 CORRECTING DEFECT 2 (vertices=250, convex hull=39, v0=1979) After retessellation of defect 2 (v0=1979), euler #=-148 (102087,298807,196572) : difference with theory (-147) = 1 CORRECTING DEFECT 3 (vertices=17, convex hull=29, v0=2203) After retessellation of defect 3 (v0=2203), euler #=-147 (102090,298825,196588) : difference with theory (-146) = 1 CORRECTING DEFECT 4 (vertices=83, convex hull=69, v0=3007) After retessellation of defect 4 (v0=3007), euler #=-145 (102096,298870,196629) : difference with theory (-145) = 0 CORRECTING DEFECT 5 (vertices=41, convex hull=29, v0=4036) After retessellation of defect 5 (v0=4036), euler #=-144 (102099,298886,196643) : difference with theory (-144) = 0 CORRECTING DEFECT 6 (vertices=244, convex hull=41, v0=5331) After retessellation of defect 6 (v0=5331), euler #=-143 (102111,298940,196686) : difference with theory (-143) = 0 CORRECTING DEFECT 7 (vertices=69, convex hull=30, v0=5555) After retessellation of defect 7 (v0=5555), euler #=-142 (102116,298965,196707) : difference with theory (-142) = 0 CORRECTING DEFECT 8 (vertices=152, convex hull=49, v0=6279) After retessellation of defect 8 (v0=6279), euler #=-141 (102124,299011,196746) : difference with theory (-141) = 0 CORRECTING DEFECT 9 (vertices=17, convex hull=17, v0=7040) After retessellation of defect 9 (v0=7040), euler #=-140 (102125,299020,196755) : difference with theory (-140) = 0 CORRECTING DEFECT 10 (vertices=5, convex hull=23, v0=7400) After retessellation of defect 10 (v0=7400), euler #=-139 (102126,299028,196763) : difference with theory (-139) = 0 CORRECTING DEFECT 11 (vertices=492, convex hull=206, v0=8515) After retessellation of defect 11 (v0=8515), euler #=-138 (102186,299307,196983) : difference with theory (-138) = 0 CORRECTING DEFECT 12 (vertices=490, convex hull=54, v0=8658) After retessellation of defect 12 (v0=8658), euler #=-137 (102203,299378,197038) : difference with theory (-137) = 0 CORRECTING DEFECT 13 (vertices=99, convex hull=28, v0=8883) After retessellation of defect 13 (v0=8883), euler #=-136 (102210,299408,197062) : difference with theory (-136) = 0 CORRECTING DEFECT 14 (vertices=323, convex hull=47, v0=9606) After retessellation of defect 14 (v0=9606), euler #=-135 (102228,299483,197120) : difference with theory (-135) = 0 CORRECTING DEFECT 15 (vertices=237, convex hull=42, v0=11621) After retessellation of defect 15 (v0=11621), euler #=-134 (102243,299543,197166) : difference with theory (-134) = 0 CORRECTING DEFECT 16 (vertices=43, convex hull=27, v0=11860) After retessellation of defect 16 (v0=11860), euler #=-133 (102245,299560,197182) : difference with theory (-133) = 0 CORRECTING DEFECT 17 (vertices=44, convex hull=72, v0=12070) After retessellation of defect 17 (v0=12070), euler #=-132 (102263,299641,197246) : difference with theory (-132) = 0 CORRECTING DEFECT 18 (vertices=8, convex hull=21, v0=12094) After retessellation of defect 18 (v0=12094), euler #=-131 (102264,299650,197255) : difference with theory (-131) = 0 CORRECTING DEFECT 19 (vertices=7, convex hull=24, v0=12907) After retessellation of defect 19 (v0=12907), euler #=-130 (102265,299660,197265) : difference with theory (-130) = 0 CORRECTING DEFECT 20 (vertices=16, convex hull=24, v0=15843) After retessellation of defect 20 (v0=15843), euler #=-129 (102265,299669,197275) : difference with theory (-129) = 0 CORRECTING DEFECT 21 (vertices=5, convex hull=27, v0=15892) After retessellation of defect 21 (v0=15892), euler #=-128 (102266,299680,197286) : difference with theory (-128) = 0 CORRECTING DEFECT 22 (vertices=345, convex hull=74, v0=16307) After retessellation of defect 22 (v0=16307), euler #=-127 (102278,299756,197351) : difference with theory (-127) = 0 CORRECTING DEFECT 23 (vertices=10, convex hull=10, v0=17456) After retessellation of defect 23 (v0=17456), euler #=-126 (102278,299757,197353) : difference with theory (-126) = 0 CORRECTING DEFECT 24 (vertices=69, convex hull=109, v0=17530) After retessellation of defect 24 (v0=17530), euler #=-125 (102311,299905,197469) : difference with theory (-125) = 0 CORRECTING DEFECT 25 (vertices=596, convex hull=180, v0=19000) After retessellation of defect 25 (v0=19000), euler #=-124 (102370,300170,197676) : difference with theory (-124) = 0 CORRECTING DEFECT 26 (vertices=510, convex hull=182, v0=19097) After retessellation of defect 26 (v0=19097), euler #=-122 (102433,300447,197892) : difference with theory (-123) = -1 CORRECTING DEFECT 27 (vertices=14, convex hull=14, v0=19160) After retessellation of defect 27 (v0=19160), euler #=-121 (102436,300460,197903) : difference with theory (-122) = -1 CORRECTING DEFECT 28 (vertices=40, convex hull=57, v0=20017) After retessellation of defect 28 (v0=20017), euler #=-120 (102449,300522,197953) : difference with theory (-121) = -1 CORRECTING DEFECT 29 (vertices=29, convex hull=74, v0=20369) After retessellation of defect 29 (v0=20369), euler #=-119 (102458,300578,198001) : difference with theory (-120) = -1 CORRECTING DEFECT 30 (vertices=74, convex hull=37, v0=22905) After retessellation of defect 30 (v0=22905), euler #=-118 (102460,300596,198018) : difference with theory (-119) = -1 CORRECTING DEFECT 31 (vertices=24, convex hull=28, v0=23163) After retessellation of defect 31 (v0=23163), euler #=-117 (102461,300610,198032) : difference with theory (-118) = -1 CORRECTING DEFECT 32 (vertices=75, convex hull=34, v0=23303) After retessellation of defect 32 (v0=23303), euler #=-116 (102467,300638,198055) : difference with theory (-117) = -1 CORRECTING DEFECT 33 (vertices=943, convex hull=316, v0=23518) After retessellation of defect 33 (v0=23518), euler #=-115 (102578,301147,198454) : difference with theory (-116) = -1 CORRECTING DEFECT 34 (vertices=18, convex hull=30, v0=24659) After retessellation of defect 34 (v0=24659), euler #=-114 (102579,301158,198465) : difference with theory (-115) = -1 CORRECTING DEFECT 35 (vertices=30, convex hull=31, v0=24688) After retessellation of defect 35 (v0=24688), euler #=-113 (102582,301179,198484) : difference with theory (-114) = -1 CORRECTING DEFECT 36 (vertices=7, convex hull=25, v0=25112) After retessellation of defect 36 (v0=25112), euler #=-112 (102583,301190,198495) : difference with theory (-113) = -1 CORRECTING DEFECT 37 (vertices=231, convex hull=93, v0=26331) After retessellation of defect 37 (v0=26331), euler #=-111 (102630,301373,198632) : difference with theory (-112) = -1 CORRECTING DEFECT 38 (vertices=26, convex hull=20, v0=27449) After retessellation of defect 38 (v0=27449), euler #=-110 (102632,301386,198644) : difference with theory (-111) = -1 CORRECTING DEFECT 39 (vertices=250, convex hull=67, v0=28689) After retessellation of defect 39 (v0=28689), euler #=-109 (102655,301490,198726) : difference with theory (-110) = -1 CORRECTING DEFECT 40 (vertices=204, convex hull=42, v0=28742) After retessellation of defect 40 (v0=28742), euler #=-108 (102668,301547,198771) : difference with theory (-109) = -1 CORRECTING DEFECT 41 (vertices=173, convex hull=110, v0=31619) After retessellation of defect 41 (v0=31619), euler #=-107 (102705,301704,198892) : difference with theory (-108) = -1 CORRECTING DEFECT 42 (vertices=540, convex hull=300, v0=32139) After retessellation of defect 42 (v0=32139), euler #=-105 (102884,302396,199407) : difference with theory (-107) = -2 CORRECTING DEFECT 43 (vertices=14, convex hull=24, v0=34001) After retessellation of defect 43 (v0=34001), euler #=-104 (102886,302409,199419) : difference with theory (-106) = -2 CORRECTING DEFECT 44 (vertices=28, convex hull=25, v0=34205) After retessellation of defect 44 (v0=34205), euler #=-103 (102888,302424,199433) : difference with theory (-105) = -2 CORRECTING DEFECT 45 (vertices=173, convex hull=73, v0=34336) After retessellation of defect 45 (v0=34336), euler #=-102 (102907,302513,199504) : difference with theory (-104) = -2 CORRECTING DEFECT 46 (vertices=18, convex hull=22, v0=34535) After retessellation of defect 46 (v0=34535), euler #=-101 (102911,302531,199519) : difference with theory (-103) = -2 CORRECTING DEFECT 47 (vertices=25, convex hull=27, v0=34547) After retessellation of defect 47 (v0=34547), euler #=-100 (102916,302553,199537) : difference with theory (-102) = -2 CORRECTING DEFECT 48 (vertices=234, convex hull=155, v0=35325) After retessellation of defect 48 (v0=35325), euler #=-99 (102998,302870,199773) : difference with theory (-101) = -2 CORRECTING DEFECT 49 (vertices=306, convex hull=54, v0=35711) After retessellation of defect 49 (v0=35711), euler #=-99 (103016,302949,199834) : difference with theory (-100) = -1 CORRECTING DEFECT 50 (vertices=68, convex hull=137, v0=36151) After retessellation of defect 50 (v0=36151), euler #=-98 (103056,303128,199974) : difference with theory (-99) = -1 CORRECTING DEFECT 51 (vertices=109, convex hull=124, v0=37863) After retessellation of defect 51 (v0=37863), euler #=-97 (103111,303353,200145) : difference with theory (-98) = -1 CORRECTING DEFECT 52 (vertices=10969, convex hull=2418, v0=38456) v 120811 (69461) --> 120951 (86000), len = 89.075 INFLATED: (-39.5, -5.5, 7.5) --> (-44.5, 8.5, 2.5), len = 15.68 CANON: (-88.0, 12.3, -45.8) --> (-65.8, 52.5, -53.9), len = 46.67 CURRENT: (-39.5, -5.5, 7.5) --> (-44.5, 8.5, 2.5), len = 15.68 ORIG: (-39.2, -5.6, 7.2) --> (-44.2, 8.2, 2.5), len = 15.42 XL defect detected... After retessellation of defect 52 (v0=38456), euler #=-99 (104216,308113,203798) : difference with theory (-97) = 2 CORRECTING DEFECT 53 (vertices=100, convex hull=54, v0=39246) After retessellation of defect 53 (v0=39246), euler #=-98 (104225,308166,203843) : difference with theory (-96) = 2 CORRECTING DEFECT 54 (vertices=12, convex hull=25, v0=40204) After retessellation of defect 54 (v0=40204), euler #=-97 (104226,308175,203852) : difference with theory (-95) = 2 CORRECTING DEFECT 55 (vertices=169, convex hull=151, v0=41000) After retessellation of defect 55 (v0=41000), euler #=-96 (104292,308435,204047) : difference with theory (-94) = 2 CORRECTING DEFECT 56 (vertices=548, convex hull=273, v0=42407) After retessellation of defect 56 (v0=42407), euler #=-96 (104473,309147,204578) : difference with theory (-93) = 3 CORRECTING DEFECT 57 (vertices=21, convex hull=24, v0=42974) After retessellation of defect 57 (v0=42974), euler #=-95 (104474,309156,204587) : difference with theory (-92) = 3 CORRECTING DEFECT 58 (vertices=166, convex hull=83, v0=43201) After retessellation of defect 58 (v0=43201), euler #=-94 (104514,309320,204712) : difference with theory (-91) = 3 CORRECTING DEFECT 59 (vertices=418, convex hull=234, v0=43702) After retessellation of defect 59 (v0=43702), euler #=-93 (104601,309708,205014) : difference with theory (-90) = 3 CORRECTING DEFECT 60 (vertices=441, convex hull=161, v0=43713) After retessellation of defect 60 (v0=43713), euler #=-92 (104646,309922,205184) : difference with theory (-89) = 3 CORRECTING DEFECT 61 (vertices=8, convex hull=19, v0=43778) After retessellation of defect 61 (v0=43778), euler #=-91 (104647,309931,205193) : difference with theory (-88) = 3 CORRECTING DEFECT 62 (vertices=35, convex hull=26, v0=43974) After retessellation of defect 62 (v0=43974), euler #=-90 (104648,309943,205205) : difference with theory (-87) = 3 CORRECTING DEFECT 63 (vertices=206, convex hull=47, v0=44038) After retessellation of defect 63 (v0=44038), euler #=-89 (104657,309992,205246) : difference with theory (-86) = 3 CORRECTING DEFECT 64 (vertices=17, convex hull=17, v0=44958) After retessellation of defect 64 (v0=44958), euler #=-88 (104658,310000,205254) : difference with theory (-85) = 3 CORRECTING DEFECT 65 (vertices=417, convex hull=209, v0=45227) After retessellation of defect 65 (v0=45227), euler #=-87 (104682,310171,205402) : difference with theory (-84) = 3 CORRECTING DEFECT 66 (vertices=12, convex hull=23, v0=47531) After retessellation of defect 66 (v0=47531), euler #=-86 (104683,310184,205415) : difference with theory (-83) = 3 CORRECTING DEFECT 67 (vertices=541, convex hull=431, v0=49887) After retessellation of defect 67 (v0=49887), euler #=-84 (104843,310885,205958) : difference with theory (-82) = 2 CORRECTING DEFECT 68 (vertices=60, convex hull=56, v0=53677) After retessellation of defect 68 (v0=53677), euler #=-83 (104852,310936,206001) : difference with theory (-81) = 2 CORRECTING DEFECT 69 (vertices=263, convex hull=153, v0=56020) After retessellation of defect 69 (v0=56020), euler #=-82 (104931,311246,206233) : difference with theory (-80) = 2 CORRECTING DEFECT 70 (vertices=692, convex hull=144, v0=60100) After retessellation of defect 70 (v0=60100), euler #=-83 (105024,311604,206497) : difference with theory (-79) = 4 CORRECTING DEFECT 71 (vertices=417, convex hull=81, v0=60119) After retessellation of defect 71 (v0=60119), euler #=-82 (105034,311672,206556) : difference with theory (-78) = 4 CORRECTING DEFECT 72 (vertices=82, convex hull=39, v0=60616) After retessellation of defect 72 (v0=60616), euler #=-81 (105041,311709,206587) : difference with theory (-77) = 4 CORRECTING DEFECT 73 (vertices=127, convex hull=123, v0=62978) After retessellation of defect 73 (v0=62978), euler #=-79 (105072,311859,206708) : difference with theory (-76) = 3 CORRECTING DEFECT 74 (vertices=1257, convex hull=392, v0=64346) L defect detected... After retessellation of defect 74 (v0=64346), euler #=-77 (105297,312738,207364) : difference with theory (-75) = 2 CORRECTING DEFECT 75 (vertices=32, convex hull=28, v0=65183) After retessellation of defect 75 (v0=65183), euler #=-76 (105300,312755,207379) : difference with theory (-74) = 2 CORRECTING DEFECT 76 (vertices=30, convex hull=30, v0=66057) After retessellation of defect 76 (v0=66057), euler #=-75 (105301,312770,207394) : difference with theory (-73) = 2 CORRECTING DEFECT 77 (vertices=15, convex hull=13, v0=66116) After retessellation of defect 77 (v0=66116), euler #=-74 (105302,312778,207402) : difference with theory (-72) = 2 CORRECTING DEFECT 78 (vertices=815, convex hull=233, v0=66411) After retessellation of defect 78 (v0=66411), euler #=-73 (105335,312992,207584) : difference with theory (-71) = 2 CORRECTING DEFECT 79 (vertices=50, convex hull=33, v0=66686) After retessellation of defect 79 (v0=66686), euler #=-72 (105340,313020,207608) : difference with theory (-70) = 2 CORRECTING DEFECT 80 (vertices=15, convex hull=23, v0=67400) After retessellation of defect 80 (v0=67400), euler #=-71 (105340,313029,207618) : difference with theory (-69) = 2 CORRECTING DEFECT 81 (vertices=83, convex hull=84, v0=69158) After retessellation of defect 81 (v0=69158), euler #=-70 (105380,313186,207736) : difference with theory (-68) = 2 CORRECTING DEFECT 82 (vertices=16, convex hull=22, v0=71298) After retessellation of defect 82 (v0=71298), euler #=-69 (105380,313195,207746) : difference with theory (-67) = 2 CORRECTING DEFECT 83 (vertices=108, convex hull=88, v0=72991) After retessellation of defect 83 (v0=72991), euler #=-68 (105421,313354,207865) : difference with theory (-66) = 2 CORRECTING DEFECT 84 (vertices=22, convex hull=20, v0=73001) After retessellation of defect 84 (v0=73001), euler #=-67 (105427,313380,207886) : difference with theory (-65) = 2 CORRECTING DEFECT 85 (vertices=24, convex hull=32, v0=73072) After retessellation of defect 85 (v0=73072), euler #=-66 (105428,313398,207904) : difference with theory (-64) = 2 CORRECTING DEFECT 86 (vertices=114, convex hull=110, v0=73516) After retessellation of defect 86 (v0=73516), euler #=-65 (105468,313569,208036) : difference with theory (-63) = 2 CORRECTING DEFECT 87 (vertices=542, convex hull=63, v0=74842) After retessellation of defect 87 (v0=74842), euler #=-64 (105526,313772,208182) : difference with theory (-62) = 2 CORRECTING DEFECT 88 (vertices=29, convex hull=60, v0=74881) After retessellation of defect 88 (v0=74881), euler #=-63 (105545,313851,208243) : difference with theory (-61) = 2 CORRECTING DEFECT 89 (vertices=394, convex hull=176, v0=76811) After retessellation of defect 89 (v0=76811), euler #=-63 (105680,314348,208605) : difference with theory (-60) = 3 CORRECTING DEFECT 90 (vertices=50, convex hull=32, v0=78530) After retessellation of defect 90 (v0=78530), euler #=-62 (105683,314367,208622) : difference with theory (-59) = 3 CORRECTING DEFECT 91 (vertices=383, convex hull=149, v0=81112) After retessellation of defect 91 (v0=81112), euler #=-61 (105697,314500,208742) : difference with theory (-58) = 3 CORRECTING DEFECT 92 (vertices=25, convex hull=75, v0=81425) After retessellation of defect 92 (v0=81425), euler #=-60 (105712,314575,208803) : difference with theory (-57) = 3 CORRECTING DEFECT 93 (vertices=56, convex hull=29, v0=81713) After retessellation of defect 93 (v0=81713), euler #=-59 (105718,314604,208827) : difference with theory (-56) = 3 CORRECTING DEFECT 94 (vertices=20, convex hull=46, v0=82353) After retessellation of defect 94 (v0=82353), euler #=-58 (105728,314649,208863) : difference with theory (-55) = 3 CORRECTING DEFECT 95 (vertices=339, convex hull=43, v0=85010) After retessellation of defect 95 (v0=85010), euler #=-57 (105738,314698,208903) : difference with theory (-54) = 3 CORRECTING DEFECT 96 (vertices=31, convex hull=64, v0=85216) After retessellation of defect 96 (v0=85216), euler #=-56 (105752,314762,208954) : difference with theory (-53) = 3 CORRECTING DEFECT 97 (vertices=105, convex hull=136, v0=86394) After retessellation of defect 97 (v0=86394), euler #=-54 (105803,314977,209120) : difference with theory (-52) = 2 CORRECTING DEFECT 98 (vertices=438, convex hull=40, v0=87458) After retessellation of defect 98 (v0=87458), euler #=-53 (105810,315012,209149) : difference with theory (-51) = 2 CORRECTING DEFECT 99 (vertices=106, convex hull=55, v0=89014) After retessellation of defect 99 (v0=89014), euler #=-52 (105833,315108,209223) : difference with theory (-50) = 2 CORRECTING DEFECT 100 (vertices=523, convex hull=452, v0=89348) L defect detected... After retessellation of defect 100 (v0=89348), euler #=-51 (106051,316014,209912) : difference with theory (-49) = 2 CORRECTING DEFECT 101 (vertices=43, convex hull=31, v0=89389) After retessellation of defect 101 (v0=89389), euler #=-50 (106055,316037,209932) : difference with theory (-48) = 2 CORRECTING DEFECT 102 (vertices=894, convex hull=397, v0=91015) After retessellation of defect 102 (v0=91015), euler #=-48 (106296,316989,210645) : difference with theory (-47) = 1 CORRECTING DEFECT 103 (vertices=117, convex hull=34, v0=91503) After retessellation of defect 103 (v0=91503), euler #=-47 (106307,317035,210681) : difference with theory (-46) = 1 CORRECTING DEFECT 104 (vertices=43, convex hull=30, v0=91626) After retessellation of defect 104 (v0=91626), euler #=-46 (106310,317054,210698) : difference with theory (-45) = 1 CORRECTING DEFECT 105 (vertices=33, convex hull=48, v0=93985) After retessellation of defect 105 (v0=93985), euler #=-45 (106322,317111,210744) : difference with theory (-44) = 1 CORRECTING DEFECT 106 (vertices=133, convex hull=37, v0=94221) After retessellation of defect 106 (v0=94221), euler #=-44 (106336,317169,210789) : difference with theory (-43) = 1 CORRECTING DEFECT 107 (vertices=1169, convex hull=558, v0=95765) XL defect detected... After retessellation of defect 107 (v0=95765), euler #=-45 (106736,318706,211925) : difference with theory (-42) = 3 CORRECTING DEFECT 108 (vertices=34, convex hull=24, v0=98568) After retessellation of defect 108 (v0=98568), euler #=-44 (106739,318722,211939) : difference with theory (-41) = 3 CORRECTING DEFECT 109 (vertices=100, convex hull=38, v0=99709) After retessellation of defect 109 (v0=99709), euler #=-43 (106745,318755,211967) : difference with theory (-40) = 3 CORRECTING DEFECT 110 (vertices=12, convex hull=23, v0=99751) After retessellation of defect 110 (v0=99751), euler #=-42 (106746,318766,211978) : difference with theory (-39) = 3 CORRECTING DEFECT 111 (vertices=25, convex hull=18, v0=99951) After retessellation of defect 111 (v0=99951), euler #=-41 (106747,318773,211985) : difference with theory (-38) = 3 CORRECTING DEFECT 112 (vertices=54, convex hull=34, v0=100887) After retessellation of defect 112 (v0=100887), euler #=-40 (106751,318798,212007) : difference with theory (-37) = 3 CORRECTING DEFECT 113 (vertices=28, convex hull=60, v0=101798) After retessellation of defect 113 (v0=101798), euler #=-39 (106763,318859,212057) : difference with theory (-36) = 3 CORRECTING DEFECT 114 (vertices=49, convex hull=43, v0=102593) After retessellation of defect 114 (v0=102593), euler #=-38 (106765,318881,212078) : difference with theory (-35) = 3 CORRECTING DEFECT 115 (vertices=77, convex hull=34, v0=102805) After retessellation of defect 115 (v0=102805), euler #=-37 (106776,318926,212113) : difference with theory (-34) = 3 CORRECTING DEFECT 116 (vertices=100, convex hull=107, v0=103454) After retessellation of defect 116 (v0=103454), euler #=-36 (106822,319109,212251) : difference with theory (-33) = 3 CORRECTING DEFECT 117 (vertices=33, convex hull=57, v0=103968) After retessellation of defect 117 (v0=103968), euler #=-35 (106835,319172,212302) : difference with theory (-32) = 3 CORRECTING DEFECT 118 (vertices=636, convex hull=133, v0=105626) After retessellation of defect 118 (v0=105626), euler #=-33 (106873,319346,212440) : difference with theory (-31) = 2 CORRECTING DEFECT 119 (vertices=139, convex hull=116, v0=108610) After retessellation of defect 119 (v0=108610), euler #=-32 (106942,319607,212633) : difference with theory (-30) = 2 CORRECTING DEFECT 120 (vertices=498, convex hull=169, v0=113392) After retessellation of defect 120 (v0=113392), euler #=-31 (107045,319998,212922) : difference with theory (-29) = 2 CORRECTING DEFECT 121 (vertices=1233, convex hull=385, v0=115127) L defect detected... normal vector of length zero at vertex 141418 with 3 faces After retessellation of defect 121 (v0=115127), euler #=-29 (107240,320796,213527) : difference with theory (-28) = 1 CORRECTING DEFECT 122 (vertices=1523, convex hull=294, v0=119144) After retessellation of defect 122 (v0=119144), euler #=-29 (107433,321532,214070) : difference with theory (-27) = 2 CORRECTING DEFECT 123 (vertices=31, convex hull=23, v0=119844) After retessellation of defect 123 (v0=119844), euler #=-28 (107434,321542,214080) : difference with theory (-26) = 2 CORRECTING DEFECT 124 (vertices=502, convex hull=253, v0=121462) After retessellation of defect 124 (v0=121462), euler #=-25 (107504,321887,214358) : difference with theory (-25) = 0 CORRECTING DEFECT 125 (vertices=20, convex hull=50, v0=121620) After retessellation of defect 125 (v0=121620), euler #=-24 (107518,321946,214404) : difference with theory (-24) = 0 CORRECTING DEFECT 126 (vertices=140, convex hull=62, v0=122309) After retessellation of defect 126 (v0=122309), euler #=-23 (107528,322002,214451) : difference with theory (-23) = 0 CORRECTING DEFECT 127 (vertices=281, convex hull=40, v0=123240) After retessellation of defect 127 (v0=123240), euler #=-22 (107542,322055,214491) : difference with theory (-22) = 0 CORRECTING DEFECT 128 (vertices=54, convex hull=34, v0=123589) After retessellation of defect 128 (v0=123589), euler #=-21 (107545,322076,214510) : difference with theory (-21) = 0 CORRECTING DEFECT 129 (vertices=246, convex hull=117, v0=125430) After retessellation of defect 129 (v0=125430), euler #=-20 (107600,322295,214675) : difference with theory (-20) = 0 CORRECTING DEFECT 130 (vertices=11, convex hull=15, v0=125577) After retessellation of defect 130 (v0=125577), euler #=-19 (107600,322299,214680) : difference with theory (-19) = 0 CORRECTING DEFECT 131 (vertices=41, convex hull=21, v0=125966) After retessellation of defect 131 (v0=125966), euler #=-18 (107602,322311,214691) : difference with theory (-18) = 0 CORRECTING DEFECT 132 (vertices=24, convex hull=53, v0=126211) After retessellation of defect 132 (v0=126211), euler #=-17 (107614,322367,214736) : difference with theory (-17) = 0 CORRECTING DEFECT 133 (vertices=70, convex hull=35, v0=127827) After retessellation of defect 133 (v0=127827), euler #=-16 (107623,322405,214766) : difference with theory (-16) = 0 CORRECTING DEFECT 134 (vertices=24, convex hull=20, v0=127935) After retessellation of defect 134 (v0=127935), euler #=-15 (107623,322412,214774) : difference with theory (-15) = 0 CORRECTING DEFECT 135 (vertices=44, convex hull=28, v0=129555) After retessellation of defect 135 (v0=129555), euler #=-14 (107630,322445,214801) : difference with theory (-14) = 0 CORRECTING DEFECT 136 (vertices=50, convex hull=21, v0=129644) After retessellation of defect 136 (v0=129644), euler #=-13 (107633,322459,214813) : difference with theory (-13) = 0 CORRECTING DEFECT 137 (vertices=196, convex hull=101, v0=130516) After retessellation of defect 137 (v0=130516), euler #=-12 (107660,322583,214911) : difference with theory (-12) = 0 CORRECTING DEFECT 138 (vertices=44, convex hull=31, v0=131280) After retessellation of defect 138 (v0=131280), euler #=-11 (107661,322595,214923) : difference with theory (-11) = 0 CORRECTING DEFECT 139 (vertices=66, convex hull=39, v0=132379) After retessellation of defect 139 (v0=132379), euler #=-10 (107666,322631,214955) : difference with theory (-10) = 0 CORRECTING DEFECT 140 (vertices=160, convex hull=59, v0=132853) After retessellation of defect 140 (v0=132853), euler #=-9 (107674,322674,214991) : difference with theory (-9) = 0 CORRECTING DEFECT 141 (vertices=739, convex hull=207, v0=133736) After retessellation of defect 141 (v0=133736), euler #=-8 (107762,323041,215271) : difference with theory (-8) = 0 CORRECTING DEFECT 142 (vertices=45, convex hull=31, v0=133859) After retessellation of defect 142 (v0=133859), euler #=-7 (107769,323073,215297) : difference with theory (-7) = 0 CORRECTING DEFECT 143 (vertices=35, convex hull=21, v0=135076) After retessellation of defect 143 (v0=135076), euler #=-6 (107770,323083,215307) : difference with theory (-6) = 0 CORRECTING DEFECT 144 (vertices=50, convex hull=20, v0=135325) After retessellation of defect 144 (v0=135325), euler #=-5 (107772,323094,215317) : difference with theory (-5) = 0 CORRECTING DEFECT 145 (vertices=27, convex hull=77, v0=135414) After retessellation of defect 145 (v0=135414), euler #=-4 (107789,323174,215381) : difference with theory (-4) = 0 CORRECTING DEFECT 146 (vertices=162, convex hull=122, v0=135885) After retessellation of defect 146 (v0=135885), euler #=-3 (107836,323386,215547) : difference with theory (-3) = 0 CORRECTING DEFECT 147 (vertices=76, convex hull=73, v0=137308) After retessellation of defect 147 (v0=137308), euler #=-2 (107858,323485,215625) : difference with theory (-2) = 0 CORRECTING DEFECT 148 (vertices=16, convex hull=21, v0=138742) After retessellation of defect 148 (v0=138742), euler #=-1 (107858,323491,215632) : difference with theory (-1) = 0 CORRECTING DEFECT 149 (vertices=61, convex hull=32, v0=139299) After retessellation of defect 149 (v0=139299), euler #=0 (107861,323510,215649) : difference with theory (0) = 0 CORRECTING DEFECT 150 (vertices=227, convex hull=114, v0=139323) After retessellation of defect 150 (v0=139323), euler #=1 (107871,323590,215720) : difference with theory (1) = 0 CORRECTING DEFECT 151 (vertices=24, convex hull=56, v0=141188) After retessellation of defect 151 (v0=141188), euler #=2 (107884,323646,215764) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.93 +- 0.42 (0.02-->26.60) (max @ vno 40603 --> 49018) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.93 +- 0.42 (0.02-->26.60) (max @ vno 40603 --> 49018) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 516 mutations (35.3%), 946 crossovers (64.7%), 3594 vertices were eliminated building final representation... 38930 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=107884, nf=215764, ne=323646, g=0) writing corrected surface to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.orig... defective orientation at vertex 43289(44062) with faces 83539 and 206346 defective orientation at vertex 43289(44070) with faces 83539 and 206379 defective orientation at vertex 44062(43289) with faces 83539 and 206346 defective orientation at vertex 44062(44070) with faces 83539 and 206395 defective orientation at vertex 44070(43289) with faces 83539 and 206379 defective orientation at vertex 44070(44062) with faces 83539 and 206395 0.006 % of the vertices (6 vertices) exhibit an orientation change topology fixing took 534.8 minutes 0 defective edges removing intersecting faces 000: 2583 intersecting 001: 113 intersecting 002: 24 intersecting mris_fix_topology utimesec 32053.897066 mris_fix_topology stimesec 2.244658 mris_fix_topology ru_maxrss 1056376 mris_fix_topology ru_ixrss 0 mris_fix_topology ru_idrss 0 mris_fix_topology ru_isrss 0 mris_fix_topology ru_minflt 192635 mris_fix_topology ru_majflt 0 mris_fix_topology ru_nswap 0 mris_fix_topology ru_inblock 0 mris_fix_topology ru_oublock 11048 mris_fix_topology ru_msgsnd 0 mris_fix_topology ru_msgrcv 0 mris_fix_topology ru_nsignals 0 mris_fix_topology ru_nvcsw 8 mris_fix_topology ru_nivcsw 37880 FSRUNTIME@ mris_fix_topology lh 8.9129 hours 1 threads #@# Fix Topology rh Thu Dec 17 08:05:19 CST 2020 mris_fix_topology -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh reading spherical homeomorphism from 'qsphere.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ before topology correction, eno=-544 (nv=151922, nf=304932, ne=457398, g=273) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 8 iterations marking ambiguous vertices... 96607 ambiguous faces found in tessellation segmenting defects... 148 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 12 into 5 -merging segment 8 into 5 -merging segment 16 into 13 -merging segment 89 into 20 -merging segment 101 into 20 -merging segment 29 into 23 -merging segment 79 into 70 -merging segment 76 into 70 -merging segment 104 into 71 -merging segment 110 into 88 -merging segment 20 into 90 -merging segment 96 into 92 -merging segment 136 into 122 135 defects to be corrected 0 vertices coincident reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -8.4557 (-4.2278) -vertex loglikelihood: -6.8913 (-3.4456) -normal dot loglikelihood: -3.4515 (-3.4515) -quad curv loglikelihood: -5.8497 (-2.9248) Total Loglikelihood : -24.6481 CORRECTING DEFECT 0 (vertices=52, convex hull=35, v0=917) After retessellation of defect 0 (v0=917), euler #=-119 (99482,290433,190832) : difference with theory (-132) = -13 CORRECTING DEFECT 1 (vertices=43, convex hull=33, v0=980) After retessellation of defect 1 (v0=980), euler #=-118 (99484,290461,190859) : difference with theory (-131) = -13 CORRECTING DEFECT 2 (vertices=58, convex hull=23, v0=1660) After retessellation of defect 2 (v0=1660), euler #=-117 (99487,290476,190872) : difference with theory (-130) = -13 CORRECTING DEFECT 3 (vertices=85, convex hull=58, v0=2571) After retessellation of defect 3 (v0=2571), euler #=-116 (99505,290555,190934) : difference with theory (-129) = -13 CORRECTING DEFECT 4 (vertices=37, convex hull=36, v0=2657) After retessellation of defect 4 (v0=2657), euler #=-115 (99509,290578,190954) : difference with theory (-128) = -13 CORRECTING DEFECT 5 (vertices=5582, convex hull=1196, v0=2681) XL defect detected... After retessellation of defect 5 (v0=2681), euler #=-116 (100157,293237,192964) : difference with theory (-127) = -11 CORRECTING DEFECT 6 (vertices=480, convex hull=127, v0=2802) After retessellation of defect 6 (v0=2802), euler #=-115 (100239,293542,193188) : difference with theory (-126) = -11 CORRECTING DEFECT 7 (vertices=380, convex hull=100, v0=3685) After retessellation of defect 7 (v0=3685), euler #=-114 (100290,293745,193341) : difference with theory (-125) = -11 CORRECTING DEFECT 8 (vertices=60, convex hull=22, v0=4225) After retessellation of defect 8 (v0=4225), euler #=-113 (100295,293767,193359) : difference with theory (-124) = -11 CORRECTING DEFECT 9 (vertices=15, convex hull=19, v0=4377) After retessellation of defect 9 (v0=4377), euler #=-112 (100295,293773,193366) : difference with theory (-123) = -11 CORRECTING DEFECT 10 (vertices=301, convex hull=113, v0=4766) After retessellation of defect 10 (v0=4766), euler #=-111 (100349,294005,193545) : difference with theory (-122) = -11 CORRECTING DEFECT 11 (vertices=196, convex hull=55, v0=5123) After retessellation of defect 11 (v0=5123), euler #=-109 (100360,294062,193593) : difference with theory (-121) = -12 CORRECTING DEFECT 12 (vertices=112, convex hull=41, v0=5317) After retessellation of defect 12 (v0=5317), euler #=-108 (100375,294123,193640) : difference with theory (-120) = -12 CORRECTING DEFECT 13 (vertices=67, convex hull=43, v0=5851) After retessellation of defect 13 (v0=5851), euler #=-107 (100388,294178,193683) : difference with theory (-119) = -12 CORRECTING DEFECT 14 (vertices=31, convex hull=56, v0=9250) After retessellation of defect 14 (v0=9250), euler #=-106 (100405,294255,193744) : difference with theory (-118) = -12 CORRECTING DEFECT 15 (vertices=327, convex hull=77, v0=10583) normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces normal vector of length zero at vertex 107163 with 4 faces After retessellation of defect 15 (v0=10583), euler #=-106 (100422,294344,193816) : difference with theory (-117) = -11 CORRECTING DEFECT 16 (vertices=146, convex hull=34, v0=11463) After retessellation of defect 16 (v0=11463), euler #=-105 (100431,294387,193851) : difference with theory (-116) = -11 CORRECTING DEFECT 17 (vertices=245, convex hull=33, v0=13749) After retessellation of defect 17 (v0=13749), euler #=-104 (100436,294409,193869) : difference with theory (-115) = -11 CORRECTING DEFECT 18 (vertices=141, convex hull=32, v0=14815) After retessellation of defect 18 (v0=14815), euler #=-103 (100445,294444,193896) : difference with theory (-114) = -11 CORRECTING DEFECT 19 (vertices=793, convex hull=258, v0=15048) After retessellation of defect 19 (v0=15048), euler #=-101 (100553,294903,194249) : difference with theory (-113) = -12 CORRECTING DEFECT 20 (vertices=29, convex hull=30, v0=16685) After retessellation of defect 20 (v0=16685), euler #=-100 (100557,294926,194269) : difference with theory (-112) = -12 CORRECTING DEFECT 21 (vertices=217, convex hull=55, v0=17415) After retessellation of defect 21 (v0=17415), euler #=-99 (100574,294998,194325) : difference with theory (-111) = -12 CORRECTING DEFECT 22 (vertices=53, convex hull=20, v0=17660) After retessellation of defect 22 (v0=17660), euler #=-98 (100577,295015,194340) : difference with theory (-110) = -12 CORRECTING DEFECT 23 (vertices=148, convex hull=95, v0=18287) After retessellation of defect 23 (v0=18287), euler #=-97 (100595,295105,194413) : difference with theory (-109) = -12 CORRECTING DEFECT 24 (vertices=27, convex hull=33, v0=21603) After retessellation of defect 24 (v0=21603), euler #=-96 (100596,295119,194427) : difference with theory (-108) = -12 CORRECTING DEFECT 25 (vertices=309, convex hull=68, v0=24542) After retessellation of defect 25 (v0=24542), euler #=-95 (100623,295234,194516) : difference with theory (-107) = -12 CORRECTING DEFECT 26 (vertices=37, convex hull=25, v0=24618) After retessellation of defect 26 (v0=24618), euler #=-94 (100626,295255,194535) : difference with theory (-106) = -12 CORRECTING DEFECT 27 (vertices=45, convex hull=25, v0=25639) After retessellation of defect 27 (v0=25639), euler #=-93 (100629,295272,194550) : difference with theory (-105) = -12 CORRECTING DEFECT 28 (vertices=36, convex hull=19, v0=26151) After retessellation of defect 28 (v0=26151), euler #=-92 (100631,295285,194562) : difference with theory (-104) = -12 CORRECTING DEFECT 29 (vertices=115, convex hull=145, v0=26395) After retessellation of defect 29 (v0=26395), euler #=-91 (100685,295522,194746) : difference with theory (-103) = -12 CORRECTING DEFECT 30 (vertices=432, convex hull=112, v0=26595) After retessellation of defect 30 (v0=26595), euler #=-90 (100703,295629,194836) : difference with theory (-102) = -12 CORRECTING DEFECT 31 (vertices=14, convex hull=31, v0=31236) After retessellation of defect 31 (v0=31236), euler #=-89 (100704,295642,194849) : difference with theory (-101) = -12 CORRECTING DEFECT 32 (vertices=32, convex hull=17, v0=31295) After retessellation of defect 32 (v0=31295), euler #=-88 (100705,295650,194857) : difference with theory (-100) = -12 CORRECTING DEFECT 33 (vertices=264, convex hull=52, v0=32281) After retessellation of defect 33 (v0=32281), euler #=-87 (100719,295713,194907) : difference with theory (-99) = -12 CORRECTING DEFECT 34 (vertices=81, convex hull=24, v0=32630) After retessellation of defect 34 (v0=32630), euler #=-86 (100724,295735,194925) : difference with theory (-98) = -12 CORRECTING DEFECT 35 (vertices=596, convex hull=216, v0=33037) After retessellation of defect 35 (v0=33037), euler #=-85 (100860,296245,195300) : difference with theory (-97) = -12 CORRECTING DEFECT 36 (vertices=56, convex hull=37, v0=33044) After retessellation of defect 36 (v0=33044), euler #=-84 (100864,296271,195323) : difference with theory (-96) = -12 CORRECTING DEFECT 37 (vertices=89, convex hull=39, v0=33585) After retessellation of defect 37 (v0=33585), euler #=-83 (100870,296308,195355) : difference with theory (-95) = -12 CORRECTING DEFECT 38 (vertices=180, convex hull=62, v0=33922) After retessellation of defect 38 (v0=33922), euler #=-82 (100902,296430,195446) : difference with theory (-94) = -12 CORRECTING DEFECT 39 (vertices=44, convex hull=19, v0=34595) After retessellation of defect 39 (v0=34595), euler #=-81 (100905,296446,195460) : difference with theory (-93) = -12 CORRECTING DEFECT 40 (vertices=63, convex hull=21, v0=35176) After retessellation of defect 40 (v0=35176), euler #=-80 (100907,296458,195471) : difference with theory (-92) = -12 CORRECTING DEFECT 41 (vertices=188, convex hull=54, v0=36310) After retessellation of defect 41 (v0=36310), euler #=-79 (100919,296517,195519) : difference with theory (-91) = -12 CORRECTING DEFECT 42 (vertices=192, convex hull=53, v0=37308) After retessellation of defect 42 (v0=37308), euler #=-78 (100938,296594,195578) : difference with theory (-90) = -12 CORRECTING DEFECT 43 (vertices=700, convex hull=316, v0=37566) After retessellation of defect 43 (v0=37566), euler #=-77 (101153,297397,196167) : difference with theory (-89) = -12 CORRECTING DEFECT 44 (vertices=20, convex hull=28, v0=38441) After retessellation of defect 44 (v0=38441), euler #=-76 (101154,297412,196182) : difference with theory (-88) = -12 CORRECTING DEFECT 45 (vertices=129, convex hull=30, v0=40516) After retessellation of defect 45 (v0=40516), euler #=-75 (101163,297446,196208) : difference with theory (-87) = -12 CORRECTING DEFECT 46 (vertices=415, convex hull=182, v0=40620) After retessellation of defect 46 (v0=40620), euler #=-74 (101232,297734,196428) : difference with theory (-86) = -12 CORRECTING DEFECT 47 (vertices=239, convex hull=171, v0=42046) After retessellation of defect 47 (v0=42046), euler #=-73 (101295,298007,196639) : difference with theory (-85) = -12 CORRECTING DEFECT 48 (vertices=57, convex hull=33, v0=45382) After retessellation of defect 48 (v0=45382), euler #=-72 (101304,298047,196671) : difference with theory (-84) = -12 CORRECTING DEFECT 49 (vertices=277, convex hull=88, v0=46012) After retessellation of defect 49 (v0=46012), euler #=-71 (101332,298171,196768) : difference with theory (-83) = -12 CORRECTING DEFECT 50 (vertices=476, convex hull=157, v0=48450) After retessellation of defect 50 (v0=48450), euler #=-70 (101392,298427,196965) : difference with theory (-82) = -12 CORRECTING DEFECT 51 (vertices=100, convex hull=22, v0=49080) After retessellation of defect 51 (v0=49080), euler #=-69 (101397,298448,196982) : difference with theory (-81) = -12 CORRECTING DEFECT 52 (vertices=188, convex hull=160, v0=49885) After retessellation of defect 52 (v0=49885), euler #=-68 (101467,298737,197202) : difference with theory (-80) = -12 CORRECTING DEFECT 53 (vertices=31, convex hull=55, v0=50381) After retessellation of defect 53 (v0=50381), euler #=-67 (101484,298807,197256) : difference with theory (-79) = -12 CORRECTING DEFECT 54 (vertices=548, convex hull=186, v0=50733) After retessellation of defect 54 (v0=50733), euler #=-66 (101565,299142,197511) : difference with theory (-78) = -12 CORRECTING DEFECT 55 (vertices=56, convex hull=36, v0=51430) After retessellation of defect 55 (v0=51430), euler #=-65 (101570,299171,197536) : difference with theory (-77) = -12 CORRECTING DEFECT 56 (vertices=6, convex hull=31, v0=51576) After retessellation of defect 56 (v0=51576), euler #=-64 (101572,299188,197552) : difference with theory (-76) = -12 CORRECTING DEFECT 57 (vertices=75, convex hull=44, v0=51832) After retessellation of defect 57 (v0=51832), euler #=-63 (101573,299210,197574) : difference with theory (-75) = -12 CORRECTING DEFECT 58 (vertices=304, convex hull=103, v0=53417) After retessellation of defect 58 (v0=53417), euler #=-62 (101614,299382,197706) : difference with theory (-74) = -12 CORRECTING DEFECT 59 (vertices=633, convex hull=77, v0=54096) After retessellation of defect 59 (v0=54096), euler #=-61 (101631,299468,197776) : difference with theory (-73) = -12 CORRECTING DEFECT 60 (vertices=194, convex hull=44, v0=54114) After retessellation of defect 60 (v0=54114), euler #=-60 (101641,299516,197815) : difference with theory (-72) = -12 CORRECTING DEFECT 61 (vertices=5, convex hull=15, v0=54981) After retessellation of defect 61 (v0=54981), euler #=-59 (101641,299520,197820) : difference with theory (-71) = -12 CORRECTING DEFECT 62 (vertices=15, convex hull=18, v0=59174) After retessellation of defect 62 (v0=59174), euler #=-58 (101643,299531,197830) : difference with theory (-70) = -12 CORRECTING DEFECT 63 (vertices=44, convex hull=29, v0=59304) After retessellation of defect 63 (v0=59304), euler #=-57 (101646,299550,197847) : difference with theory (-69) = -12 CORRECTING DEFECT 64 (vertices=127, convex hull=109, v0=59941) After retessellation of defect 64 (v0=59941), euler #=-56 (101665,299651,197930) : difference with theory (-68) = -12 CORRECTING DEFECT 65 (vertices=601, convex hull=309, v0=60411) After retessellation of defect 65 (v0=60411), euler #=-53 (101819,300279,198407) : difference with theory (-67) = -14 CORRECTING DEFECT 66 (vertices=5422, convex hull=1024, v0=62026) XL defect detected... After retessellation of defect 66 (v0=62026), euler #=-51 (102103,301669,199515) : difference with theory (-66) = -15 CORRECTING DEFECT 67 (vertices=14, convex hull=36, v0=62260) After retessellation of defect 67 (v0=62260), euler #=-50 (102106,301689,199533) : difference with theory (-65) = -15 CORRECTING DEFECT 68 (vertices=8, convex hull=32, v0=64201) After retessellation of defect 68 (v0=64201), euler #=-49 (102108,301703,199546) : difference with theory (-64) = -15 CORRECTING DEFECT 69 (vertices=139, convex hull=79, v0=65555) After retessellation of defect 69 (v0=65555), euler #=-48 (102118,301765,199599) : difference with theory (-63) = -15 CORRECTING DEFECT 70 (vertices=1375, convex hull=465, v0=66102) XL defect detected... After retessellation of defect 70 (v0=66102), euler #=-48 (102375,302812,200389) : difference with theory (-62) = -14 CORRECTING DEFECT 71 (vertices=308, convex hull=153, v0=66839) After retessellation of defect 71 (v0=66839), euler #=-48 (102477,303192,200667) : difference with theory (-61) = -13 CORRECTING DEFECT 72 (vertices=732, convex hull=188, v0=67252) After retessellation of defect 72 (v0=67252), euler #=-49 (102528,303444,200867) : difference with theory (-60) = -11 CORRECTING DEFECT 73 (vertices=6, convex hull=19, v0=69132) After retessellation of defect 73 (v0=69132), euler #=-48 (102529,303452,200875) : difference with theory (-59) = -11 CORRECTING DEFECT 74 (vertices=59, convex hull=75, v0=69159) After retessellation of defect 74 (v0=69159), euler #=-47 (102547,303539,200945) : difference with theory (-58) = -11 CORRECTING DEFECT 75 (vertices=16, convex hull=22, v0=77895) After retessellation of defect 75 (v0=77895), euler #=-46 (102547,303547,200954) : difference with theory (-57) = -11 CORRECTING DEFECT 76 (vertices=458, convex hull=196, v0=78337) After retessellation of defect 76 (v0=78337), euler #=-45 (102671,304024,201308) : difference with theory (-56) = -11 CORRECTING DEFECT 77 (vertices=478, convex hull=132, v0=83372) normal vector of length zero at vertex 125752 with 3 faces normal vector of length zero at vertex 125752 with 3 faces normal vector of length zero at vertex 125752 with 3 faces normal vector of length zero at vertex 125752 with 3 faces After retessellation of defect 77 (v0=83372), euler #=-44 (102684,304124,201396) : difference with theory (-55) = -11 CORRECTING DEFECT 78 (vertices=31, convex hull=19, v0=83827) After retessellation of defect 78 (v0=83827), euler #=-43 (102685,304133,201405) : difference with theory (-54) = -11 CORRECTING DEFECT 79 (vertices=88, convex hull=33, v0=84045) After retessellation of defect 79 (v0=84045), euler #=-42 (102690,304162,201430) : difference with theory (-53) = -11 CORRECTING DEFECT 80 (vertices=109, convex hull=119, v0=84887) After retessellation of defect 80 (v0=84887), euler #=-41 (102721,304314,201552) : difference with theory (-52) = -11 CORRECTING DEFECT 81 (vertices=1400, convex hull=461, v0=89587) L defect detected... After retessellation of defect 81 (v0=89587), euler #=-40 (102864,304989,202085) : difference with theory (-51) = -11 CORRECTING DEFECT 82 (vertices=15072, convex hull=2633, v0=91032) XL defect detected... After retessellation of defect 82 (v0=91032), euler #=-46 (104316,310827,206465) : difference with theory (-50) = -4 CORRECTING DEFECT 83 (vertices=33, convex hull=36, v0=91751) After retessellation of defect 83 (v0=91751), euler #=-45 (104320,310851,206486) : difference with theory (-49) = -4 CORRECTING DEFECT 84 (vertices=28, convex hull=35, v0=92633) After retessellation of defect 84 (v0=92633), euler #=-43 (104321,310869,206505) : difference with theory (-48) = -5 CORRECTING DEFECT 85 (vertices=31, convex hull=19, v0=92740) After retessellation of defect 85 (v0=92740), euler #=-42 (104323,310882,206517) : difference with theory (-47) = -5 CORRECTING DEFECT 86 (vertices=1351, convex hull=425, v0=92880) L defect detected... After retessellation of defect 86 (v0=92880), euler #=-41 (104539,311750,207170) : difference with theory (-46) = -5 CORRECTING DEFECT 87 (vertices=162, convex hull=182, v0=93170) After retessellation of defect 87 (v0=93170), euler #=-40 (104621,312076,207415) : difference with theory (-45) = -5 CORRECTING DEFECT 88 (vertices=261, convex hull=85, v0=96159) After retessellation of defect 88 (v0=96159), euler #=-39 (104682,312293,207572) : difference with theory (-44) = -5 CORRECTING DEFECT 89 (vertices=56, convex hull=33, v0=97936) After retessellation of defect 89 (v0=97936), euler #=-38 (104689,312326,207599) : difference with theory (-43) = -5 CORRECTING DEFECT 90 (vertices=69, convex hull=43, v0=100317) After retessellation of defect 90 (v0=100317), euler #=-37 (104695,312362,207630) : difference with theory (-42) = -5 CORRECTING DEFECT 91 (vertices=233, convex hull=167, v0=100652) After retessellation of defect 91 (v0=100652), euler #=-36 (104768,312669,207865) : difference with theory (-41) = -5 CORRECTING DEFECT 92 (vertices=71, convex hull=24, v0=101461) After retessellation of defect 92 (v0=101461), euler #=-35 (104773,312690,207882) : difference with theory (-40) = -5 CORRECTING DEFECT 93 (vertices=84, convex hull=41, v0=101516) After retessellation of defect 93 (v0=101516), euler #=-34 (104779,312726,207913) : difference with theory (-39) = -5 CORRECTING DEFECT 94 (vertices=30, convex hull=63, v0=101841) After retessellation of defect 94 (v0=101841), euler #=-33 (104792,312791,207966) : difference with theory (-38) = -5 CORRECTING DEFECT 95 (vertices=292, convex hull=130, v0=104364) After retessellation of defect 95 (v0=104364), euler #=-32 (104846,313011,208133) : difference with theory (-37) = -5 CORRECTING DEFECT 96 (vertices=38, convex hull=64, v0=106955) After retessellation of defect 96 (v0=106955), euler #=-31 (104855,313068,208182) : difference with theory (-36) = -5 CORRECTING DEFECT 97 (vertices=205, convex hull=124, v0=109352) After retessellation of defect 97 (v0=109352), euler #=-30 (104881,313204,208293) : difference with theory (-35) = -5 CORRECTING DEFECT 98 (vertices=24, convex hull=58, v0=110957) After retessellation of defect 98 (v0=110957), euler #=-29 (104890,313253,208334) : difference with theory (-34) = -5 CORRECTING DEFECT 99 (vertices=24, convex hull=24, v0=112460) After retessellation of defect 99 (v0=112460), euler #=-28 (104893,313272,208351) : difference with theory (-33) = -5 CORRECTING DEFECT 100 (vertices=391, convex hull=169, v0=112499) After retessellation of defect 100 (v0=112499), euler #=-27 (104995,313663,208641) : difference with theory (-32) = -5 CORRECTING DEFECT 101 (vertices=307, convex hull=183, v0=114992) After retessellation of defect 101 (v0=114992), euler #=-26 (105068,313969,208875) : difference with theory (-31) = -5 CORRECTING DEFECT 102 (vertices=58, convex hull=40, v0=116741) After retessellation of defect 102 (v0=116741), euler #=-25 (105076,314008,208907) : difference with theory (-30) = -5 CORRECTING DEFECT 103 (vertices=35, convex hull=54, v0=118506) After retessellation of defect 103 (v0=118506), euler #=-24 (105092,314081,208965) : difference with theory (-29) = -5 CORRECTING DEFECT 104 (vertices=20, convex hull=20, v0=119695) After retessellation of defect 104 (v0=119695), euler #=-23 (105092,314089,208974) : difference with theory (-28) = -5 CORRECTING DEFECT 105 (vertices=38, convex hull=24, v0=121063) After retessellation of defect 105 (v0=121063), euler #=-22 (105094,314101,208985) : difference with theory (-27) = -5 CORRECTING DEFECT 106 (vertices=277, convex hull=64, v0=121491) After retessellation of defect 106 (v0=121491), euler #=-21 (105108,314170,209041) : difference with theory (-26) = -5 CORRECTING DEFECT 107 (vertices=29, convex hull=77, v0=121809) After retessellation of defect 107 (v0=121809), euler #=-20 (105124,314247,209103) : difference with theory (-25) = -5 CORRECTING DEFECT 108 (vertices=353, convex hull=42, v0=123308) After retessellation of defect 108 (v0=123308), euler #=-20 (105135,314298,209143) : difference with theory (-24) = -4 CORRECTING DEFECT 109 (vertices=30, convex hull=25, v0=124755) After retessellation of defect 109 (v0=124755), euler #=-19 (105139,314318,209160) : difference with theory (-23) = -4 CORRECTING DEFECT 110 (vertices=482, convex hull=267, v0=125057) After retessellation of defect 110 (v0=125057), euler #=-17 (105222,314705,209466) : difference with theory (-22) = -5 CORRECTING DEFECT 111 (vertices=82, convex hull=40, v0=125754) After retessellation of defect 111 (v0=125754), euler #=-16 (105231,314750,209503) : difference with theory (-21) = -5 CORRECTING DEFECT 112 (vertices=682, convex hull=194, v0=125773) After retessellation of defect 112 (v0=125773), euler #=-15 (105269,314958,209674) : difference with theory (-20) = -5 CORRECTING DEFECT 113 (vertices=14, convex hull=21, v0=125792) After retessellation of defect 113 (v0=125792), euler #=-14 (105272,314973,209687) : difference with theory (-19) = -5 CORRECTING DEFECT 114 (vertices=306, convex hull=109, v0=127798) After retessellation of defect 114 (v0=127798), euler #=-13 (105316,315163,209834) : difference with theory (-18) = -5 CORRECTING DEFECT 115 (vertices=30, convex hull=42, v0=128037) After retessellation of defect 115 (v0=128037), euler #=-12 (105325,315205,209868) : difference with theory (-17) = -5 CORRECTING DEFECT 116 (vertices=661, convex hull=171, v0=128856) After retessellation of defect 116 (v0=128856), euler #=-11 (105347,315352,209994) : difference with theory (-16) = -5 CORRECTING DEFECT 117 (vertices=37, convex hull=71, v0=129759) After retessellation of defect 117 (v0=129759), euler #=-10 (105356,315407,210041) : difference with theory (-15) = -5 CORRECTING DEFECT 118 (vertices=61, convex hull=41, v0=130046) After retessellation of defect 118 (v0=130046), euler #=-9 (105363,315444,210072) : difference with theory (-14) = -5 CORRECTING DEFECT 119 (vertices=85, convex hull=124, v0=131443) After retessellation of defect 119 (v0=131443), euler #=-8 (105410,315637,210219) : difference with theory (-13) = -5 CORRECTING DEFECT 120 (vertices=19, convex hull=28, v0=131702) After retessellation of defect 120 (v0=131702), euler #=-7 (105410,315650,210233) : difference with theory (-12) = -5 CORRECTING DEFECT 121 (vertices=22, convex hull=24, v0=133591) After retessellation of defect 121 (v0=133591), euler #=-6 (105410,315662,210246) : difference with theory (-11) = -5 CORRECTING DEFECT 122 (vertices=27, convex hull=58, v0=134438) After retessellation of defect 122 (v0=134438), euler #=-5 (105422,315718,210291) : difference with theory (-10) = -5 CORRECTING DEFECT 123 (vertices=37, convex hull=58, v0=135305) After retessellation of defect 123 (v0=135305), euler #=-4 (105438,315790,210348) : difference with theory (-9) = -5 CORRECTING DEFECT 124 (vertices=232, convex hull=96, v0=138498) After retessellation of defect 124 (v0=138498), euler #=-4 (105480,315960,210476) : difference with theory (-8) = -4 CORRECTING DEFECT 125 (vertices=499, convex hull=179, v0=139013) After retessellation of defect 125 (v0=139013), euler #=-3 (105591,316383,210789) : difference with theory (-7) = -4 CORRECTING DEFECT 126 (vertices=138, convex hull=92, v0=139705) After retessellation of defect 126 (v0=139705), euler #=-4 (105626,316544,210914) : difference with theory (-6) = -2 CORRECTING DEFECT 127 (vertices=224, convex hull=96, v0=139880) After retessellation of defect 127 (v0=139880), euler #=-3 (105669,316711,211039) : difference with theory (-5) = -2 CORRECTING DEFECT 128 (vertices=140, convex hull=48, v0=140314) After retessellation of defect 128 (v0=140314), euler #=-2 (105681,316763,211080) : difference with theory (-4) = -2 CORRECTING DEFECT 129 (vertices=31, convex hull=33, v0=140687) After retessellation of defect 129 (v0=140687), euler #=-2 (105685,316789,211102) : difference with theory (-3) = -1 CORRECTING DEFECT 130 (vertices=362, convex hull=166, v0=141353) After retessellation of defect 130 (v0=141353), euler #=-1 (105734,317008,211273) : difference with theory (-2) = -1 CORRECTING DEFECT 131 (vertices=39, convex hull=36, v0=141481) After retessellation of defect 131 (v0=141481), euler #=0 (105738,317031,211293) : difference with theory (-1) = -1 CORRECTING DEFECT 132 (vertices=277, convex hull=275, v0=142552) After retessellation of defect 132 (v0=142552), euler #=0 (105799,317365,211566) : difference with theory (0) = 0 CORRECTING DEFECT 133 (vertices=30, convex hull=59, v0=144361) After retessellation of defect 133 (v0=144361), euler #=1 (105808,317414,211607) : difference with theory (1) = 0 CORRECTING DEFECT 134 (vertices=8, convex hull=14, v0=148211) After retessellation of defect 134 (v0=148211), euler #=2 (105809,317421,211614) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.93 +- 0.40 (0.04-->14.34) (max @ vno 12449 --> 14093) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.93 +- 0.40 (0.04-->14.34) (max @ vno 12449 --> 14093) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 458 mutations (34.4%), 873 crossovers (65.6%), 5255 vertices were eliminated building final representation... 46113 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=105809, nf=211614, ne=317421, g=0) writing corrected surface to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.orig... 0.000 % of the vertices (0 vertices) exhibit an orientation change topology fixing took 1200.2 minutes 0 defective edges removing intersecting faces 000: 2631 intersecting 001: 162 intersecting 002: 54 intersecting 003: 43 intersecting expanding nbhd size to 2 004: 49 intersecting 005: 20 intersecting 006: 6 intersecting mris_fix_topology utimesec 71942.820028 mris_fix_topology stimesec 4.321343 mris_fix_topology ru_maxrss 1441172 mris_fix_topology ru_ixrss 0 mris_fix_topology ru_idrss 0 mris_fix_topology ru_isrss 0 mris_fix_topology ru_minflt 340634 mris_fix_topology ru_majflt 0 mris_fix_topology ru_nswap 0 mris_fix_topology ru_inblock 0 mris_fix_topology ru_oublock 11024 mris_fix_topology ru_msgsnd 0 mris_fix_topology ru_msgrcv 0 mris_fix_topology ru_nsignals 0 mris_fix_topology ru_nvcsw 16 mris_fix_topology ru_nivcsw 85601 FSRUNTIME@ mris_fix_topology rh 20.0040 hours 1 threads mris_euler_number ../surf/lh.orig euler # = v-e+f = 2g-2: 107884 - 323646 + 215764 = 2 --> 0 holes F =2V-4: 215764 = 215768-4 (0) 2E=3F: 647292 = 647292 (0) total defect index = 0 mris_euler_number ../surf/rh.orig euler # = v-e+f = 2g-2: 105809 - 317421 + 211614 = 2 --> 0 holes F =2V-4: 211614 = 211618-4 (0) 2E=3F: 634842 = 634842 (0) total defect index = 0 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig intersection removal took 0.00 hours removing intersecting faces 000: 721 intersecting 001: 112 intersecting 002: 17 intersecting writing corrected surface to ../surf/lh.orig rm ../surf/lh.inflated /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig intersection removal took 0.00 hours removing intersecting faces 000: 992 intersecting 001: 162 intersecting 002: 62 intersecting 003: 41 intersecting 004: 18 intersecting expanding nbhd size to 2 005: 24 intersecting 006: 18 intersecting 007: 16 intersecting writing corrected surface to ../surf/rh.orig rm ../surf/rh.inflated #-------------------------------------------- #@# Make White Surf lh Fri Dec 18 04:05:44 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh using white.preaparc as white matter name... only generating white matter surface using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline not using aparc to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/filled.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/brain.finalsurfs.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/../mri/aseg.presurf.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... 9003 bright wm thresholded. 1549 bright non-wm voxels segmented. reading original surface position from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.orig... computing class statistics... border white: 350087 voxels (2.09%) border gray 258529 voxels (1.54%) WM (96.0): 96.6 +- 8.2 [70.0 --> 110.0] GM (68.0) : 67.2 +- 14.8 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 46.2 (was 70) setting MAX_BORDER_WHITE to 114.2 (was 105) setting MIN_BORDER_WHITE to 61.0 (was 85) setting MAX_CSF to 31.5 (was 40) setting MAX_GRAY to 97.8 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 46.2 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 16.7 (was 40) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.84 +- 0.29 (0.02-->10.09) (max @ vno 77067 --> 103404) face area 0.29 +- 0.17 (0.00-->6.03) mean absolute distance = 0.88 +- 1.43 4561 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=106+-7.8, GM=61+-13.0 mean inside = 93.4, mean outside = 70.7 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group removing 3 vertex label from ripped group removing 2 vertex label from ripped group mean border=86.9, 1014 (1011) missing vertices, mean dist -0.5 [1.1 (%59.8)->0.5 (%40.2))] %69 local maxima, %25 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.91 +- 0.32 (0.05-->9.96) (max @ vno 77067 --> 103404) face area 0.29 +- 0.18 (0.00-->7.06) mean absolute distance = 0.55 +- 1.04 4615 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=3625022.5, rms=12.301 001: dt: 0.5000, sse=1977986.8, rms=8.605 (30.046%) 002: dt: 0.5000, sse=1445156.8, rms=6.949 (19.246%) 003: dt: 0.5000, sse=1226114.0, rms=6.109 (12.085%) 004: dt: 0.5000, sse=1097767.1, rms=5.584 (8.597%) 005: dt: 0.5000, sse=1012056.6, rms=5.157 (7.654%) 006: dt: 0.5000, sse=958708.8, rms=4.924 (4.507%) 007: dt: 0.5000, sse=929788.7, rms=4.765 (3.238%) 008: dt: 0.5000, sse=917348.8, rms=4.702 (1.319%) 009: dt: 0.5000, sse=906385.2, rms=4.615 (1.841%) rms = 4.60, time step reduction 1 of 3 to 0.250... 010: dt: 0.5000, sse=900285.1, rms=4.601 (0.303%) 011: dt: 0.2500, sse=706703.1, rms=3.357 (27.037%) 012: dt: 0.2500, sse=664396.9, rms=3.039 (9.490%) 013: dt: 0.2500, sse=663978.4, rms=2.944 (3.128%) 014: dt: 0.2500, sse=646810.4, rms=2.887 (1.933%) rms = 2.85, time step reduction 2 of 3 to 0.125... 015: dt: 0.2500, sse=646258.8, rms=2.853 (1.177%) 016: dt: 0.1250, sse=629679.4, rms=2.710 (5.019%) rms = 2.69, time step reduction 3 of 3 to 0.062... 017: dt: 0.1250, sse=625503.1, rms=2.690 (0.708%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 3 vertex label from ripped group removing 2 vertex label from ripped group mean border=86.2, 895 (438) missing vertices, mean dist -0.2 [0.9 (%42.7)->0.3 (%57.3))] %75 local maxima, %19 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=clust, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.91 +- 0.32 (0.07-->9.84) (max @ vno 77067 --> 103404) face area 0.34 +- 0.21 (0.00-->8.30) mean absolute distance = 0.46 +- 0.83 4628 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1121362.2, rms=5.257 018: dt: 0.5000, sse=909197.6, rms=4.073 (22.532%) rms = 4.23, time step reduction 1 of 3 to 0.250... 019: dt: 0.2500, sse=764291.6, rms=3.153 (22.574%) 020: dt: 0.2500, sse=716562.8, rms=2.711 (14.032%) 021: dt: 0.2500, sse=694856.0, rms=2.552 (5.850%) 022: dt: 0.2500, sse=689524.9, rms=2.481 (2.810%) rms = 2.44, time step reduction 2 of 3 to 0.125... 023: dt: 0.2500, sse=685002.0, rms=2.438 (1.729%) 024: dt: 0.1250, sse=697186.2, rms=2.321 (4.788%) rms = 2.30, time step reduction 3 of 3 to 0.062... 025: dt: 0.1250, sse=666562.6, rms=2.298 (0.972%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group mean border=85.6, 948 (307) missing vertices, mean dist -0.2 [0.8 (%40.3)->0.2 (%59.7))] %80 local maxima, %14 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=clust, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.91 +- 0.31 (0.06-->9.73) (max @ vno 77067 --> 103404) face area 0.34 +- 0.21 (0.00-->8.33) mean absolute distance = 0.37 +- 0.65 3981 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=822223.3, rms=3.613 rms = 3.80, time step reduction 1 of 3 to 0.250... 026: dt: 0.2500, sse=727786.6, rms=2.868 (20.618%) 027: dt: 0.2500, sse=683076.6, rms=2.388 (16.755%) 028: dt: 0.2500, sse=663266.4, rms=2.256 (5.513%) 029: dt: 0.2500, sse=659719.2, rms=2.175 (3.596%) rms = 2.15, time step reduction 2 of 3 to 0.125... 030: dt: 0.2500, sse=654169.0, rms=2.151 (1.087%) 031: dt: 0.1250, sse=641823.8, rms=2.044 (4.990%) rms = 2.03, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=640790.6, rms=2.026 (0.885%) positioning took 0.5 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group mean border=85.1, 995 (232) missing vertices, mean dist -0.1 [0.5 (%44.7)->0.2 (%55.3))] %81 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=clust, 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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white.preaparc... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=685434.5, rms=2.542 rms = 2.83, time step reduction 1 of 3 to 0.250... 033: dt: 0.2500, sse=637149.0, rms=2.050 (19.371%) 034: dt: 0.2500, sse=620572.6, rms=1.795 (12.427%) 035: dt: 0.2500, sse=612658.6, rms=1.739 (3.124%) rms = 1.71, time step reduction 2 of 3 to 0.125... 036: dt: 0.2500, sse=615166.2, rms=1.708 (1.792%) 037: dt: 0.1250, sse=602140.4, rms=1.596 (6.533%) rms = 1.56, time step reduction 3 of 3 to 0.062... 038: dt: 0.1250, sse=610186.5, rms=1.563 (2.073%) positioning took 0.4 minutes generating cortex label... 4 non-cortical segments detected only using segment with 5795 vertices erasing segment 1 (vno[0] = 41649) erasing segment 2 (vno[0] = 61779) erasing segment 3 (vno[0] = 106904) writing cortex label to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.cortex.label... writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.curv writing smoothed area to lh.area writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.area vertex spacing 0.91 +- 0.31 (0.03-->9.62) (max @ vno 77067 --> 103404) face area 0.34 +- 0.21 (0.00-->7.81) refinement took 4.1 minutes #-------------------------------------------- #@# Make White Surf rh Fri Dec 18 04:09:48 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh using white.preaparc as white matter name... only generating white matter surface using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline not using aparc to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/filled.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/brain.finalsurfs.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/../mri/aseg.presurf.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... 9003 bright wm thresholded. 1549 bright non-wm voxels segmented. reading original surface position from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.orig... computing class statistics... border white: 350087 voxels (2.09%) border gray 258529 voxels (1.54%) WM (96.0): 96.6 +- 8.2 [70.0 --> 110.0] GM (68.0) : 67.2 +- 14.8 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 44.2 (was 70) setting MAX_BORDER_WHITE to 114.2 (was 105) setting MIN_BORDER_WHITE to 59.0 (was 85) setting MAX_CSF to 29.5 (was 40) setting MAX_GRAY to 97.8 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 44.2 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 14.7 (was 40) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.84 +- 0.29 (0.01-->9.86) (max @ vno 103185 --> 103323) face area 0.30 +- 0.17 (0.00-->7.01) mean absolute distance = 0.86 +- 1.42 4352 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=106+-8.7, GM=59+-12.2 mean inside = 93.8, mean outside = 71.0 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... mean border=86.5, 505 (505) missing vertices, mean dist -0.4 [1.1 (%56.4)->0.5 (%43.6))] %71 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.92 +- 0.32 (0.08-->9.97) (max @ vno 103185 --> 103323) face area 0.30 +- 0.17 (0.00-->6.22) mean absolute distance = 0.53 +- 1.01 4438 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=3556610.8, rms=12.258 001: dt: 0.5000, sse=1942714.6, rms=8.584 (29.968%) 002: dt: 0.5000, sse=1405364.4, rms=6.870 (19.970%) 003: dt: 0.5000, sse=1220710.0, rms=6.160 (10.331%) 004: dt: 0.5000, sse=1106564.6, rms=5.682 (7.762%) 005: dt: 0.5000, sse=1025520.3, rms=5.314 (6.483%) 006: dt: 0.5000, sse=976846.8, rms=5.061 (4.747%) 007: dt: 0.5000, sse=946761.1, rms=4.907 (3.060%) 008: dt: 0.5000, sse=934549.9, rms=4.837 (1.428%) 009: dt: 0.5000, sse=929999.3, rms=4.782 (1.131%) rms = 4.75, time step reduction 1 of 3 to 0.250... 010: dt: 0.5000, sse=923218.9, rms=4.746 (0.748%) 011: dt: 0.2500, sse=716956.2, rms=3.499 (26.277%) 012: dt: 0.2500, sse=693200.9, rms=3.188 (8.888%) 013: dt: 0.2500, sse=664422.6, rms=3.089 (3.091%) 014: dt: 0.2500, sse=661723.9, rms=3.000 (2.881%) rms = 2.97, time step reduction 2 of 3 to 0.125... 015: dt: 0.2500, sse=650961.6, rms=2.972 (0.954%) 016: dt: 0.1250, sse=626968.8, rms=2.778 (6.525%) rms = 2.74, time step reduction 3 of 3 to 0.062... 017: dt: 0.1250, sse=625735.8, rms=2.742 (1.306%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... removing 1 vertex label from ripped group removing 3 vertex label from ripped group mean border=85.5, 513 (84) missing vertices, mean dist -0.2 [0.9 (%40.1)->0.3 (%59.9))] %76 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=clust, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.92 +- 0.32 (0.04-->9.83) (max @ vno 103185 --> 103323) face area 0.35 +- 0.21 (0.00-->7.37) mean absolute distance = 0.43 +- 0.80 4697 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1162973.6, rms=5.493 018: dt: 0.5000, sse=941130.8, rms=4.338 (21.031%) rms = 4.43, time step reduction 1 of 3 to 0.250... 019: dt: 0.2500, sse=786422.9, rms=3.350 (22.781%) 020: dt: 0.2500, sse=722693.4, rms=2.839 (15.245%) 021: dt: 0.2500, sse=703403.7, rms=2.654 (6.522%) 022: dt: 0.2500, sse=690017.1, rms=2.566 (3.327%) 023: dt: 0.2500, sse=684286.2, rms=2.508 (2.265%) rms = 2.47, time step reduction 2 of 3 to 0.125... 024: dt: 0.2500, sse=684172.0, rms=2.468 (1.593%) 025: dt: 0.1250, sse=664805.6, rms=2.320 (5.971%) rms = 2.30, time step reduction 3 of 3 to 0.062... 026: dt: 0.1250, sse=662465.1, rms=2.299 (0.920%) 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 mean border=84.6, 669 (54) missing vertices, mean dist -0.1 [0.7 (%38.9)->0.2 (%61.1))] %80 local maxima, %14 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=clust, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.91 +- 0.32 (0.05-->9.76) (max @ vno 103185 --> 103323) face area 0.34 +- 0.21 (0.00-->7.16) mean absolute distance = 0.36 +- 0.66 4003 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=817326.7, rms=3.635 rms = 3.94, time step reduction 1 of 3 to 0.250... 027: dt: 0.2500, sse=715472.4, rms=2.852 (21.534%) 028: dt: 0.2500, sse=677616.6, rms=2.359 (17.293%) 029: dt: 0.2500, sse=679163.2, rms=2.255 (4.419%) 030: dt: 0.2500, sse=651145.8, rms=2.186 (3.046%) rms = 2.16, time step reduction 2 of 3 to 0.125... 031: dt: 0.2500, sse=661060.2, rms=2.164 (1.016%) 032: dt: 0.1250, sse=638898.1, rms=2.040 (5.721%) rms = 2.02, time step reduction 3 of 3 to 0.062... 033: dt: 0.1250, sse=637361.6, rms=2.020 (0.970%) positioning took 0.5 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 3 vertex label from ripped group removing 3 vertex label from ripped group removing 2 vertex label from ripped group mean border=84.1, 752 (46) missing vertices, mean dist -0.1 [0.5 (%44.7)->0.2 (%55.3))] %82 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=clust, 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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white.preaparc... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=684005.9, rms=2.559 rms = 2.96, time step reduction 1 of 3 to 0.250... 034: dt: 0.2500, sse=634623.1, rms=2.057 (19.629%) 035: dt: 0.2500, sse=618004.7, rms=1.803 (12.363%) rms = 1.79, time step reduction 2 of 3 to 0.125... 036: dt: 0.2500, sse=617904.3, rms=1.785 (0.966%) 037: dt: 0.1250, sse=614457.9, rms=1.668 (6.549%) rms = 1.64, time step reduction 3 of 3 to 0.062... 038: dt: 0.1250, sse=600160.6, rms=1.636 (1.937%) positioning took 0.4 minutes generating cortex label... 7 non-cortical segments detected only using segment with 5427 vertices erasing segment 1 (vno[0] = 34218) erasing segment 2 (vno[0] = 50598) erasing segment 3 (vno[0] = 60059) erasing segment 4 (vno[0] = 60737) erasing segment 5 (vno[0] = 81022) erasing segment 6 (vno[0] = 101718) writing cortex label to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.cortex.label... writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.curv writing smoothed area to rh.area writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.area vertex spacing 0.91 +- 0.32 (0.01-->9.77) (max @ vno 103185 --> 103323) face area 0.34 +- 0.21 (0.00-->7.28) refinement took 4.0 minutes #-------------------------------------------- #@# Smooth2 lh Fri Dec 18 04:13:46 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Smooth2 rh Fri Dec 18 04:13:50 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation2 lh Fri Dec 18 04:13:53 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_inflate -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated Reading ../surf/lh.smoothwm avg radius = 55.7 mm, total surface area = 66368 mm^2 writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc step 000: RMS=0.179 (target=0.015) step 005: RMS=0.128 (target=0.015) step 010: RMS=0.117 (target=0.015) step 015: RMS=0.099 (target=0.015) step 020: RMS=0.085 (target=0.015) step 025: RMS=0.074 (target=0.015) step 030: RMS=0.065 (target=0.015) step 035: RMS=0.058 (target=0.015) step 040: RMS=0.052 (target=0.015) step 045: RMS=0.047 (target=0.015) step 050: RMS=0.045 (target=0.015) step 055: RMS=0.043 (target=0.015) step 060: RMS=0.041 (target=0.015) inflation complete. inflation took 0.4 minutes mris_inflate utimesec 21.344755 mris_inflate stimesec 0.041993 mris_inflate ru_maxrss 140760 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 18459 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8440 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 23 #-------------------------------------------- #@# Inflation2 rh Fri Dec 18 04:14:14 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_inflate -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated Reading ../surf/rh.smoothwm avg radius = 55.0 mm, total surface area = 65738 mm^2 writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc step 000: RMS=0.177 (target=0.015) step 005: RMS=0.126 (target=0.015) step 010: RMS=0.111 (target=0.015) step 015: RMS=0.096 (target=0.015) step 020: RMS=0.084 (target=0.015) step 025: RMS=0.074 (target=0.015) step 030: RMS=0.065 (target=0.015) step 035: RMS=0.057 (target=0.015) step 040: RMS=0.050 (target=0.015) step 045: RMS=0.046 (target=0.015) step 050: RMS=0.043 (target=0.015) step 055: RMS=0.041 (target=0.015) step 060: RMS=0.039 (target=0.015) inflation complete. inflation took 0.3 minutes mris_inflate utimesec 20.919819 mris_inflate stimesec 0.041993 mris_inflate ru_maxrss 137920 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 18261 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8280 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 24 #-------------------------------------------- #@# Curv .H and .K lh Fri Dec 18 04:14:35 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf mris_curvature -w lh.white.preaparc total integrated curvature = -22.531*4pi (-283.133) --> 24 handles ICI = 348.1, FI = 2027.8, variation=169121.014 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 165 vertices thresholded to be in k1 ~ [-1.60 0.53], k2 ~ [-0.25 0.39] total integrated curvature = 0.501*4pi (6.293) --> 0 handles ICI = 1.2, FI = 4.2, variation=86.173 118 vertices thresholded to be in [-0.16 0.08] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.004 84 vertices thresholded to be in [-0.53 0.22] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.022 done. #-------------------------------------------- #@# Curv .H and .K rh Fri Dec 18 04:15:32 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf mris_curvature -w rh.white.preaparc total integrated curvature = 47.951*4pi (602.566) --> -47 handles ICI = 192.1, FI = 1656.3, variation=26537.193 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. rm -f rh.white.H ln -s rh.white.preaparc.H rh.white.H rm -f rh.white.K ln -s rh.white.preaparc.K rh.white.K mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 140 vertices thresholded to be in k1 ~ [-1.03 0.98], k2 ~ [-0.20 0.53] total integrated curvature = 0.581*4pi (7.298) --> 0 handles ICI = 1.2, FI = 4.3, variation=86.340 107 vertices thresholded to be in [-0.21 0.03] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = -0.000, std = 0.003 91 vertices thresholded to be in [-0.39 0.41] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.018, std = 0.019 done. #----------------------------------------- #@# Curvature Stats lh Fri Dec 18 04:16:28 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 [ 273 ] Gb_filter = 0 WARN: S lookup min: -0.463969 WARN: S explicit min: 0.000000 vertex = 2 #----------------------------------------- #@# Curvature Stats rh Fri Dec 18 04:16:30 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 [ 288 ] Gb_filter = 0 WARN: S lookup min: -0.138994 WARN: S explicit min: 0.000000 vertex = 1003 #-------------------------------------------- #@# Sphere lh Fri Dec 18 04:16:32 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_sphere -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... == Number of threads available to mris_sphere for OpenMP = 1 == scaling brain by 0.371... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=clust, 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 %31.99 pass 1: epoch 2 of 3 starting distance error %18.45 unfolding complete - removing small folds... starting distance error %17.78 removing remaining folds... final distance error %17.84 MRISunfold() return, current seed 1234 -01: dt=0.0000, 494 negative triangles 325: dt=0.9900, 494 negative triangles 326: dt=0.9900, 202 negative triangles 327: dt=0.9900, 153 negative triangles 328: dt=0.9900, 134 negative triangles 329: dt=0.9900, 119 negative triangles 330: dt=0.9900, 111 negative triangles 331: dt=0.9900, 118 negative triangles 332: dt=0.9900, 84 negative triangles 333: dt=0.9900, 88 negative triangles 334: dt=0.9900, 80 negative triangles 335: dt=0.9900, 74 negative triangles 336: dt=0.9900, 72 negative triangles 337: dt=0.9900, 60 negative triangles 338: dt=0.9900, 68 negative triangles 339: dt=0.9900, 57 negative triangles 340: dt=0.9900, 60 negative triangles 341: dt=0.9900, 52 negative triangles 342: dt=0.9900, 62 negative triangles 343: dt=0.9900, 56 negative triangles 344: dt=0.9900, 46 negative triangles 345: dt=0.9900, 41 negative triangles 346: dt=0.9900, 42 negative triangles 347: dt=0.9900, 44 negative triangles 348: dt=0.9900, 40 negative triangles 349: dt=0.9900, 37 negative triangles 350: dt=0.9900, 38 negative triangles 351: dt=0.9900, 38 negative triangles 352: dt=0.9900, 33 negative triangles 353: dt=0.9900, 28 negative triangles 354: dt=0.9900, 25 negative triangles 355: dt=0.9900, 25 negative triangles 356: dt=0.9900, 24 negative triangles 357: dt=0.9900, 24 negative triangles 358: dt=0.9900, 23 negative triangles 359: dt=0.9900, 27 negative triangles 360: dt=0.9900, 23 negative triangles 361: dt=0.9900, 22 negative triangles 362: dt=0.9900, 15 negative triangles 363: dt=0.9900, 24 negative triangles 364: dt=0.9900, 14 negative triangles 365: dt=0.9900, 14 negative triangles 366: dt=0.9900, 12 negative triangles 367: dt=0.9900, 18 negative triangles 368: dt=0.9900, 19 negative triangles 369: dt=0.9900, 12 negative triangles 370: dt=0.9900, 15 negative triangles 371: dt=0.9900, 17 negative triangles 372: dt=0.9900, 16 negative triangles 373: dt=0.9900, 14 negative triangles 374: dt=0.9900, 9 negative triangles 375: dt=0.9900, 14 negative triangles 376: dt=0.9900, 8 negative triangles 377: dt=0.9900, 13 negative triangles 378: dt=0.9900, 12 negative triangles 379: dt=0.9900, 9 negative triangles 380: dt=0.9900, 9 negative triangles 381: dt=0.9900, 8 negative triangles 382: dt=0.9900, 8 negative triangles 383: dt=0.9900, 5 negative triangles 384: dt=0.9900, 4 negative triangles 385: dt=0.9900, 3 negative triangles 386: dt=0.9900, 1 negative triangles 387: dt=0.9900, 1 negative triangles 388: dt=0.9900, 1 negative triangles 389: dt=0.9900, 1 negative triangles 390: dt=0.9900, 1 negative triangles 391: dt=0.9900, 1 negative triangles 392: dt=0.9900, 1 negative triangles 393: dt=0.9900, 1 negative triangles 394: dt=0.9900, 1 negative triangles 395: dt=0.9900, 1 negative triangles 396: dt=0.9405, 1 negative triangles 397: dt=0.9405, 1 negative triangles 398: dt=0.9405, 1 negative triangles 399: dt=0.9405, 1 negative triangles 400: dt=0.9405, 1 negative triangles 401: dt=0.9405, 1 negative triangles 402: dt=0.9405, 1 negative triangles 403: dt=0.9405, 1 negative triangles 404: dt=0.9405, 1 negative triangles 405: dt=0.9405, 1 negative triangles 406: dt=0.8935, 1 negative triangles 407: dt=0.8935, 1 negative triangles 408: dt=0.8935, 1 negative triangles 409: dt=0.8935, 1 negative triangles 410: dt=0.8935, 1 negative triangles 411: dt=0.8935, 1 negative triangles 412: dt=0.8935, 1 negative triangles expanding nbhd size to 1 413: dt=0.9900, 1 negative triangles 414: dt=0.9900, 1 negative triangles 415: dt=0.9900, 1 negative triangles 416: dt=0.9405, 1 negative triangles 417: dt=0.9405, 1 negative triangles 418: dt=0.9405, 1 negative triangles 419: dt=0.9405, 1 negative triangles 420: dt=0.9405, 1 negative triangles 421: dt=0.9405, 1 negative triangles 422: dt=0.9405, 1 negative triangles 423: dt=0.9405, 1 negative triangles 424: dt=0.9405, 1 negative triangles 425: dt=0.9405, 1 negative triangles 426: dt=0.8935, 1 negative triangles 427: dt=0.8935, 1 negative triangles 428: dt=0.8935, 1 negative triangles 429: dt=0.8935, 1 negative triangles 430: dt=0.8935, 1 negative triangles 431: dt=0.8935, 1 negative triangles 432: dt=0.8935, 1 negative triangles 433: dt=0.8935, 1 negative triangles 434: dt=0.8935, 1 negative triangles 435: dt=0.8935, 1 negative triangles 436: dt=0.8488, 1 negative triangles 437: dt=0.8488, 1 negative triangles 438: dt=0.8488, 1 negative triangles 439: dt=0.8488, 1 negative triangles 440: dt=0.8488, 1 negative triangles 441: dt=0.8488, 1 negative triangles 442: dt=0.8488, 1 negative triangles 443: dt=0.8488, 1 negative triangles 444: dt=0.8488, 1 negative triangles 445: dt=0.8488, 1 negative triangles 446: dt=0.8064, 1 negative triangles 447: dt=0.8064, 1 negative triangles 448: dt=0.8064, 1 negative triangles 449: dt=0.8064, 1 negative triangles 450: dt=0.8064, 1 negative triangles 451: dt=0.8064, 1 negative triangles 452: dt=0.8064, 1 negative triangles 453: dt=0.8064, 1 negative triangles 454: dt=0.8064, 1 negative triangles 455: dt=0.8064, 1 negative triangles 456: dt=0.7660, 1 negative triangles 457: dt=0.7660, 1 negative triangles 458: dt=0.7660, 1 negative triangles 459: dt=0.7660, 1 negative triangles 460: dt=0.7660, 1 negative triangles 461: dt=0.7660, 1 negative triangles 462: dt=0.7660, 1 negative triangles 463: dt=0.7660, 1 negative triangles 464: dt=0.7660, 1 negative triangles 465: dt=0.7660, 1 negative triangles 466: dt=0.7277, 1 negative triangles 467: dt=0.7277, 1 negative triangles 468: dt=0.7277, 1 negative triangles 469: dt=0.7277, 1 negative triangles 470: dt=0.7277, 1 negative triangles 471: dt=0.7277, 1 negative triangles 472: dt=0.7277, 1 negative triangles 473: dt=0.7277, 1 negative triangles 474: dt=0.7277, 1 negative triangles 475: dt=0.7277, 1 negative triangles 476: dt=0.6914, 1 negative triangles 477: dt=0.6914, 1 negative triangles 478: dt=0.6914, 1 negative triangles 479: dt=0.6914, 1 negative triangles 480: dt=0.6914, 1 negative triangles 481: dt=0.6914, 1 negative triangles 482: dt=0.6914, 1 negative triangles 483: dt=0.6914, 1 negative triangles 484: dt=0.6914, 1 negative triangles 485: dt=0.6914, 1 negative triangles 486: dt=0.6568, 1 negative triangles 487: dt=0.6568, 1 negative triangles 488: dt=0.6568, 1 negative triangles 489: dt=0.6568, 1 negative triangles 490: dt=0.6568, 1 negative triangles 491: dt=0.6568, 1 negative triangles 492: dt=0.6568, 1 negative triangles 493: dt=0.6568, 1 negative triangles 494: dt=0.6568, 1 negative triangles 495: dt=0.6568, 1 negative triangles 496: dt=0.6239, 1 negative triangles 497: dt=0.6239, 1 negative triangles 498: dt=0.6239, 1 negative triangles 499: dt=0.6239, 1 negative triangles 500: dt=0.6239, 1 negative triangles 501: dt=0.6239, 1 negative triangles 502: dt=0.6239, 1 negative triangles 503: dt=0.6239, 1 negative triangles 504: dt=0.6239, 1 negative triangles 505: dt=0.6239, 1 negative triangles 506: dt=0.5927, 1 negative triangles 507: dt=0.5927, 1 negative triangles 508: dt=0.5927, 1 negative triangles 509: dt=0.5927, 1 negative triangles 510: dt=0.5927, 1 negative triangles 511: dt=0.5927, 1 negative triangles 512: dt=0.5927, 1 negative triangles 513: dt=0.5927, 1 negative triangles 514: dt=0.5927, 1 negative triangles 515: dt=0.5927, 1 negative triangles 516: dt=0.5631, 1 negative triangles 517: dt=0.5631, 1 negative triangles 518: dt=0.5631, 1 negative triangles 519: dt=0.5631, 1 negative triangles 520: dt=0.5631, 1 negative triangles 521: dt=0.5631, 1 negative triangles 522: dt=0.5631, 1 negative triangles 523: dt=0.5631, 1 negative triangles 524: dt=0.5631, 1 negative triangles 525: dt=0.5631, 1 negative triangles 526: dt=0.5350, 1 negative triangles 527: dt=0.5350, 1 negative triangles 528: dt=0.5350, 1 negative triangles 529: dt=0.5350, 1 negative triangles 530: dt=0.5350, 1 negative triangles 531: dt=0.5350, 1 negative triangles 532: dt=0.5350, 1 negative triangles 533: dt=0.5350, 1 negative triangles 534: dt=0.5350, 1 negative triangles 535: dt=0.5350, 1 negative triangles 536: dt=0.5082, 1 negative triangles 537: dt=0.5082, 1 negative triangles 538: dt=0.5082, 1 negative triangles 539: dt=0.5082, 1 negative triangles 540: dt=0.5082, 1 negative triangles 541: dt=0.5082, 1 negative triangles 542: dt=0.5082, 1 negative triangles 543: dt=0.5082, 1 negative triangles 544: dt=0.5082, 1 negative triangles 545: dt=0.5082, 1 negative triangles 546: dt=0.4828, 1 negative triangles 547: dt=0.4828, 1 negative triangles 548: dt=0.4828, 1 negative triangles 549: dt=0.4828, 1 negative triangles 550: dt=0.4828, 1 negative triangles 551: dt=0.4828, 1 negative triangles 552: dt=0.4828, 1 negative triangles 553: dt=0.4828, 1 negative triangles 554: dt=0.4828, 1 negative triangles 555: dt=0.4828, 1 negative triangles 556: dt=0.4587, 1 negative triangles 557: dt=0.4587, 1 negative triangles 558: dt=0.4587, 1 negative triangles 559: dt=0.4587, 1 negative triangles 560: dt=0.4587, 1 negative triangles 561: dt=0.4587, 1 negative triangles 562: dt=0.4587, 1 negative triangles 563: dt=0.4587, 1 negative triangles 564: dt=0.4587, 1 negative triangles 565: dt=0.4587, 1 negative triangles 566: dt=0.4357, 1 negative triangles 567: dt=0.4357, 1 negative triangles 568: dt=0.4357, 1 negative triangles 569: dt=0.4357, 1 negative triangles 570: dt=0.4357, 1 negative triangles 571: dt=0.4357, 1 negative triangles 572: dt=0.4357, 1 negative triangles 573: dt=0.4357, 1 negative triangles 574: dt=0.4357, 1 negative triangles 575: dt=0.4357, 1 negative triangles 576: dt=0.4139, 1 negative triangles 577: dt=0.4139, 1 negative triangles 578: dt=0.4139, 1 negative triangles 579: dt=0.4139, 1 negative triangles 580: dt=0.4139, 1 negative triangles 581: dt=0.4139, 1 negative triangles 582: dt=0.4139, 1 negative triangles 583: dt=0.4139, 1 negative triangles 584: dt=0.4139, 1 negative triangles 585: dt=0.4139, 1 negative triangles 586: dt=0.3932, 1 negative triangles 587: dt=0.3932, 1 negative triangles 588: dt=0.3932, 1 negative triangles 589: dt=0.3932, 1 negative triangles 590: dt=0.3932, 1 negative triangles 591: dt=0.3932, 1 negative triangles 592: dt=0.3932, 1 negative triangles 593: dt=0.3932, 1 negative triangles 594: dt=0.3932, 1 negative triangles 595: dt=0.3932, 1 negative triangles 596: dt=0.3736, 1 negative triangles 597: dt=0.3736, 1 negative triangles 598: dt=0.3736, 1 negative triangles 599: dt=0.3736, 1 negative triangles 600: dt=0.3736, 1 negative triangles 601: dt=0.3736, 1 negative triangles 602: dt=0.3736, 1 negative triangles 603: dt=0.3736, 1 negative triangles 604: dt=0.3736, 1 negative triangles 605: dt=0.3736, 1 negative triangles 606: dt=0.3549, 1 negative triangles 607: dt=0.3549, 1 negative triangles 608: dt=0.3549, 1 negative triangles 609: dt=0.3549, 1 negative triangles 610: dt=0.3549, 1 negative triangles 611: dt=0.3549, 1 negative triangles 612: dt=0.3549, 1 negative triangles 613: dt=0.3549, 1 negative triangles 614: dt=0.3549, 1 negative triangles 615: dt=0.3549, 1 negative triangles 616: dt=0.3372, 1 negative triangles 617: dt=0.3372, 1 negative triangles 618: dt=0.3372, 1 negative triangles 619: dt=0.3372, 1 negative triangles 620: dt=0.3372, 1 negative triangles 621: dt=0.3372, 1 negative triangles 622: dt=0.3372, 1 negative triangles 623: dt=0.3372, 1 negative triangles 624: dt=0.3372, 1 negative triangles 625: dt=0.3372, 1 negative triangles 626: dt=0.3203, 1 negative triangles 627: dt=0.3203, 1 negative triangles 628: dt=0.3203, 1 negative triangles 629: dt=0.3203, 1 negative triangles 630: dt=0.3203, 1 negative triangles 631: dt=0.3203, 1 negative triangles 632: dt=0.3203, 1 negative triangles 633: dt=0.3203, 1 negative triangles 634: dt=0.3203, 1 negative triangles 635: dt=0.3203, 1 negative triangles 636: dt=0.3043, 1 negative triangles 637: dt=0.3043, 1 negative triangles 638: dt=0.3043, 1 negative triangles 639: dt=0.3043, 1 negative triangles 640: dt=0.3043, 1 negative triangles 641: dt=0.3043, 1 negative triangles 642: dt=0.3043, 1 negative triangles 643: dt=0.3043, 1 negative triangles 644: dt=0.3043, 1 negative triangles 645: dt=0.3043, 1 negative triangles 646: dt=0.2891, 1 negative triangles 647: dt=0.2891, 1 negative triangles 648: dt=0.2891, 1 negative triangles 649: dt=0.2891, 1 negative triangles 650: dt=0.2891, 1 negative triangles 651: dt=0.2891, 1 negative triangles 652: dt=0.2891, 1 negative triangles 653: dt=0.2891, 1 negative triangles 654: dt=0.2891, 1 negative triangles 655: dt=0.2891, 1 negative triangles 656: dt=0.2746, 1 negative triangles 657: dt=0.2746, 1 negative triangles 658: dt=0.2746, 1 negative triangles 659: dt=0.2746, 1 negative triangles 660: dt=0.2746, 1 negative triangles 661: dt=0.2746, 1 negative triangles 662: dt=0.2746, 1 negative triangles 663: dt=0.2746, 1 negative triangles 664: dt=0.2746, 1 negative triangles 665: dt=0.2746, 1 negative triangles 666: dt=0.2609, 1 negative triangles 667: dt=0.2609, 1 negative triangles 668: dt=0.2609, 1 negative triangles 669: dt=0.2609, 1 negative triangles 670: dt=0.2609, 1 negative triangles 671: dt=0.2609, 1 negative triangles 672: dt=0.2609, 1 negative triangles 673: dt=0.2609, 1 negative triangles 674: dt=0.2609, 1 negative triangles 675: dt=0.2609, 1 negative triangles 676: dt=0.2478, 1 negative triangles 677: dt=0.2478, 1 negative triangles 678: dt=0.2478, 1 negative triangles 679: dt=0.2478, 1 negative triangles 680: dt=0.2478, 1 negative triangles 681: dt=0.2478, 1 negative triangles 682: dt=0.2478, 1 negative triangles 683: dt=0.2478, 1 negative triangles 684: dt=0.2478, 1 negative triangles 685: dt=0.2478, 1 negative triangles 686: dt=0.2354, 1 negative triangles 687: dt=0.2354, 1 negative triangles 688: dt=0.2354, 1 negative triangles 689: dt=0.2354, 1 negative triangles 690: dt=0.2354, 1 negative triangles 691: dt=0.2354, 1 negative triangles 692: dt=0.2354, 1 negative triangles 693: dt=0.2354, 1 negative triangles 694: dt=0.2354, 1 negative triangles 695: dt=0.2354, 1 negative triangles 696: dt=0.2237, 1 negative triangles 697: dt=0.2237, 1 negative triangles 698: dt=0.2237, 1 negative triangles 699: dt=0.2237, 1 negative triangles 700: dt=0.2237, 1 negative triangles 701: dt=0.2237, 1 negative triangles 702: dt=0.2237, 1 negative triangles 703: dt=0.2237, 1 negative triangles 704: dt=0.2237, 1 negative triangles 705: dt=0.2237, 1 negative triangles 706: dt=0.2125, 1 negative triangles 707: dt=0.2125, 1 negative triangles 708: dt=0.2125, 1 negative triangles 709: dt=0.2125, 1 negative triangles 710: dt=0.2125, 1 negative triangles 711: dt=0.2125, 1 negative triangles 712: dt=0.2125, 1 negative triangles 713: dt=0.2125, 1 negative triangles 714: dt=0.2125, 1 negative triangles 715: dt=0.2125, 1 negative triangles 716: dt=0.2019, 1 negative triangles 717: dt=0.2019, 1 negative triangles 718: dt=0.2019, 1 negative triangles 719: dt=0.2019, 1 negative triangles 720: dt=0.2019, 1 negative triangles 721: dt=0.2019, 1 negative triangles 722: dt=0.2019, 1 negative triangles 723: dt=0.2019, 1 negative triangles 724: dt=0.2019, 1 negative triangles 725: dt=0.2019, 1 negative triangles 726: dt=0.1918, 1 negative triangles 727: dt=0.1918, 1 negative triangles 728: dt=0.1918, 1 negative triangles 729: dt=0.1918, 1 negative triangles 730: dt=0.1918, 1 negative triangles 731: dt=0.1918, 1 negative triangles 732: dt=0.1918, 1 negative triangles 733: dt=0.1918, 1 negative triangles 734: dt=0.1918, 1 negative triangles 735: dt=0.1918, 1 negative triangles 736: dt=0.1822, 1 negative triangles 737: dt=0.1822, 1 negative triangles 738: dt=0.1822, 1 negative triangles 739: dt=0.1822, 1 negative triangles 740: dt=0.1822, 1 negative triangles 741: dt=0.1822, 1 negative triangles 742: dt=0.1822, 1 negative triangles 743: dt=0.1822, 1 negative triangles 744: dt=0.1822, 1 negative triangles 745: dt=0.1822, 1 negative triangles 746: dt=0.1731, 1 negative triangles 747: dt=0.1731, 1 negative triangles 748: dt=0.1731, 1 negative triangles 749: dt=0.1731, 1 negative triangles 750: dt=0.1731, 1 negative triangles 751: dt=0.1731, 1 negative triangles 752: dt=0.1731, 1 negative triangles 753: dt=0.1731, 1 negative triangles 754: dt=0.1731, 1 negative triangles 755: dt=0.1731, 1 negative triangles 756: dt=0.1644, 1 negative triangles 757: dt=0.1644, 1 negative triangles 758: dt=0.1644, 1 negative triangles 759: dt=0.1644, 1 negative triangles 760: dt=0.1644, 1 negative triangles 761: dt=0.1644, 1 negative triangles 762: dt=0.1644, 1 negative triangles 763: dt=0.1644, 1 negative triangles 764: dt=0.1644, 1 negative triangles 765: dt=0.1644, 1 negative triangles 766: dt=0.1562, 1 negative triangles 767: dt=0.1562, 1 negative triangles 768: dt=0.1562, 1 negative triangles 769: dt=0.1562, 1 negative triangles 770: dt=0.1562, 1 negative triangles 771: dt=0.1562, 1 negative triangles 772: dt=0.1562, 1 negative triangles 773: dt=0.1562, 1 negative triangles 774: dt=0.1562, 1 negative triangles 775: dt=0.1562, 1 negative triangles 776: dt=0.1484, 1 negative triangles 777: dt=0.1484, 1 negative triangles 778: dt=0.1484, 1 negative triangles 779: dt=0.1484, 1 negative triangles 780: dt=0.1484, 1 negative triangles 781: dt=0.1484, 1 negative triangles 782: dt=0.1484, 1 negative triangles 783: dt=0.1484, 1 negative triangles 784: dt=0.1484, 1 negative triangles 785: dt=0.1484, 1 negative triangles 786: dt=0.1410, 1 negative triangles 787: dt=0.1410, 1 negative triangles 788: dt=0.1410, 1 negative triangles 789: dt=0.1410, 1 negative triangles 790: dt=0.1410, 1 negative triangles 791: dt=0.1410, 1 negative triangles 792: dt=0.1410, 1 negative triangles 793: dt=0.1410, 1 negative triangles 794: dt=0.1410, 1 negative triangles 795: dt=0.1410, 1 negative triangles 796: dt=0.1339, 1 negative triangles 797: dt=0.1339, 1 negative triangles 798: dt=0.1339, 1 negative triangles 799: dt=0.1339, 1 negative triangles 800: dt=0.1339, 1 negative triangles 801: dt=0.1339, 1 negative triangles 802: dt=0.1339, 1 negative triangles 803: dt=0.1339, 1 negative triangles 804: dt=0.1339, 1 negative triangles 805: dt=0.1339, 1 negative triangles 806: dt=0.1272, 1 negative triangles 807: dt=0.1272, 1 negative triangles 808: dt=0.1272, 1 negative triangles 809: dt=0.1272, 1 negative triangles 810: dt=0.1272, 1 negative triangles 811: dt=0.1272, 1 negative triangles 812: dt=0.1272, 1 negative triangles 813: dt=0.1272, 1 negative triangles 814: dt=0.1272, 1 negative triangles 815: dt=0.1272, 1 negative triangles 816: dt=0.1209, 1 negative triangles 817: dt=0.1209, 1 negative triangles 818: dt=0.1209, 1 negative triangles 819: dt=0.1209, 1 negative triangles 820: dt=0.1209, 1 negative triangles 821: dt=0.1209, 1 negative triangles 822: dt=0.1209, 1 negative triangles 823: dt=0.1209, 1 negative triangles 824: dt=0.1209, 1 negative triangles 825: dt=0.1209, 1 negative triangles 826: dt=0.1148, 1 negative triangles 827: dt=0.1148, 1 negative triangles 828: dt=0.1148, 1 negative triangles 829: dt=0.1148, 1 negative triangles 830: dt=0.1148, 1 negative triangles 831: dt=0.1148, 1 negative triangles 832: dt=0.1148, 1 negative triangles 833: dt=0.1148, 1 negative triangles 834: dt=0.1148, 1 negative triangles 835: dt=0.1148, 1 negative triangles 836: dt=0.1091, 1 negative triangles 837: dt=0.1091, 1 negative triangles 838: dt=0.1091, 1 negative triangles 839: dt=0.1091, 1 negative triangles 840: dt=0.1091, 1 negative triangles 841: dt=0.1091, 1 negative triangles 842: dt=0.1091, 1 negative triangles 843: dt=0.1091, 1 negative triangles 844: dt=0.1091, 1 negative triangles 845: dt=0.1091, 1 negative triangles 846: dt=0.1036, 1 negative triangles 847: dt=0.1036, 1 negative triangles 848: dt=0.1036, 1 negative triangles 849: dt=0.1036, 1 negative triangles 850: dt=0.1036, 1 negative triangles 851: dt=0.1036, 1 negative triangles 852: dt=0.1036, 1 negative triangles 853: dt=0.1036, 1 negative triangles 854: dt=0.1036, 1 negative triangles 855: dt=0.1036, 1 negative triangles 856: dt=0.0984, 1 negative triangles 857: dt=0.0984, 1 negative triangles 858: dt=0.0984, 1 negative triangles 859: dt=0.0984, 1 negative triangles 860: dt=0.0984, 1 negative triangles 861: dt=0.0984, 1 negative triangles 862: dt=0.0984, 1 negative triangles 863: dt=0.0984, 1 negative triangles 864: dt=0.0984, 1 negative triangles 865: dt=0.0984, 1 negative triangles 866: dt=0.0935, 1 negative triangles 867: dt=0.0935, 1 negative triangles 868: dt=0.0935, 1 negative triangles 869: dt=0.0935, 1 negative triangles 870: dt=0.0935, 1 negative triangles 871: dt=0.0935, 1 negative triangles 872: dt=0.0935, 1 negative triangles 873: dt=0.0935, 1 negative triangles 874: dt=0.0935, 1 negative triangles 875: dt=0.0935, 1 negative triangles 876: dt=0.0888, 1 negative triangles 877: dt=0.0888, 1 negative triangles 878: dt=0.0888, 1 negative triangles 879: dt=0.0888, 1 negative triangles 880: dt=0.0888, 1 negative triangles 881: dt=0.0888, 1 negative triangles 882: dt=0.0888, 1 negative triangles 883: dt=0.0888, 1 negative triangles 884: dt=0.0888, 1 negative triangles 885: dt=0.0888, 1 negative triangles 886: dt=0.0844, 1 negative triangles 887: dt=0.0844, 1 negative triangles 888: dt=0.0844, 1 negative triangles 889: dt=0.0844, 1 negative triangles 890: dt=0.0844, 1 negative triangles 891: dt=0.0844, 1 negative triangles 892: dt=0.0844, 1 negative triangles 893: dt=0.0844, 1 negative triangles 894: dt=0.0844, 1 negative triangles 895: dt=0.0844, 1 negative triangles 896: dt=0.0802, 1 negative triangles 897: dt=0.0802, 1 negative triangles 898: dt=0.0802, 1 negative triangles 899: dt=0.0802, 1 negative triangles 900: dt=0.0802, 1 negative triangles 901: dt=0.0802, 1 negative triangles 902: dt=0.0802, 1 negative triangles 903: dt=0.0802, 1 negative triangles 904: dt=0.0802, 1 negative triangles 905: dt=0.0802, 1 negative triangles 906: dt=0.0762, 1 negative triangles 907: dt=0.0762, 1 negative triangles 908: dt=0.0762, 1 negative triangles 909: dt=0.0762, 1 negative triangles 910: dt=0.0762, 1 negative triangles 911: dt=0.0762, 1 negative triangles 912: dt=0.0762, 1 negative triangles 913: dt=0.0762, 1 negative triangles 914: dt=0.0762, 1 negative triangles 915: dt=0.0762, 1 negative triangles 916: dt=0.0724, 1 negative triangles 917: dt=0.0724, 1 negative triangles 918: dt=0.0724, 1 negative triangles 919: dt=0.0724, 1 negative triangles 920: dt=0.0724, 1 negative triangles 921: dt=0.0724, 1 negative triangles 922: dt=0.0724, 1 negative triangles 923: dt=0.0724, 1 negative triangles 924: dt=0.0724, 1 negative triangles 925: dt=0.0724, 1 negative triangles 926: dt=0.0687, 1 negative triangles 927: dt=0.0687, 1 negative triangles 928: dt=0.0687, 1 negative triangles 929: dt=0.0687, 1 negative triangles 930: dt=0.0687, 1 negative triangles 931: dt=0.0687, 1 negative triangles 932: dt=0.0687, 1 negative triangles 933: dt=0.0687, 1 negative triangles 934: dt=0.0687, 1 negative triangles 935: dt=0.0687, 1 negative triangles 936: dt=0.0653, 1 negative triangles 937: dt=0.0653, 1 negative triangles 938: dt=0.0653, 1 negative triangles 939: dt=0.0653, 1 negative triangles 940: dt=0.0653, 1 negative triangles 941: dt=0.0653, 1 negative triangles 942: dt=0.0653, 1 negative triangles 943: dt=0.0653, 1 negative triangles 944: dt=0.0653, 1 negative triangles 945: dt=0.0653, 1 negative triangles 946: dt=0.0620, 1 negative triangles 947: dt=0.0620, 1 negative triangles 948: dt=0.0620, 1 negative triangles 949: dt=0.0620, 1 negative triangles 950: dt=0.0620, 1 negative triangles 951: dt=0.0620, 1 negative triangles 952: dt=0.0620, 1 negative triangles 953: dt=0.0620, 1 negative triangles 954: dt=0.0620, 1 negative triangles 955: dt=0.0620, 1 negative triangles 956: dt=0.0589, 1 negative triangles 957: dt=0.0589, 1 negative triangles 958: dt=0.0589, 1 negative triangles 959: dt=0.0589, 1 negative triangles 960: dt=0.0589, 1 negative triangles 961: dt=0.0589, 1 negative triangles 962: dt=0.0589, 1 negative triangles 963: dt=0.0589, 1 negative triangles 964: dt=0.0589, 1 negative triangles 965: dt=0.0589, 1 negative triangles 966: dt=0.0560, 1 negative triangles 967: dt=0.0560, 1 negative triangles 968: dt=0.0560, 1 negative triangles 969: dt=0.0560, 1 negative triangles 970: dt=0.0560, 1 negative triangles 971: dt=0.0560, 1 negative triangles 972: dt=0.0560, 1 negative triangles 973: dt=0.0560, 1 negative triangles 974: dt=0.0560, 1 negative triangles 975: dt=0.0560, 1 negative triangles 976: dt=0.0532, 1 negative triangles 977: dt=0.0532, 1 negative triangles 978: dt=0.0532, 1 negative triangles 979: dt=0.0532, 1 negative triangles 980: dt=0.0532, 1 negative triangles 981: dt=0.0532, 1 negative triangles 982: dt=0.0532, 1 negative triangles 983: dt=0.0532, 1 negative triangles 984: dt=0.0532, 1 negative triangles 985: dt=0.0532, 1 negative triangles 986: dt=0.0505, 1 negative triangles 987: dt=0.0505, 1 negative triangles 988: dt=0.0505, 1 negative triangles 989: dt=0.0505, 1 negative triangles 990: dt=0.0505, 1 negative triangles 991: dt=0.0505, 1 negative triangles 992: dt=0.0505, 1 negative triangles 993: dt=0.0505, 1 negative triangles 994: dt=0.0505, 1 negative triangles 995: dt=0.0505, 1 negative triangles 996: dt=0.0480, 1 negative triangles 997: dt=0.0480, 1 negative triangles 998: dt=0.0480, 1 negative triangles 999: dt=0.0480, 1 negative triangles 1000: dt=0.0480, 1 negative triangles 1001: dt=0.0480, 1 negative triangles 1002: dt=0.0480, 1 negative triangles 1003: dt=0.0480, 1 negative triangles 1004: dt=0.0480, 1 negative triangles 1005: dt=0.0480, 1 negative triangles 1006: dt=0.0456, 1 negative triangles 1007: dt=0.0456, 1 negative triangles 1008: dt=0.0456, 1 negative triangles 1009: dt=0.0456, 1 negative triangles 1010: dt=0.0456, 1 negative triangles 1011: dt=0.0456, 1 negative triangles 1012: dt=0.0456, 1 negative triangles 1013: dt=0.0456, 1 negative triangles 1014: dt=0.0456, 1 negative triangles 1015: dt=0.0456, 1 negative triangles 1016: dt=0.0433, 1 negative triangles 1017: dt=0.0433, 1 negative triangles 1018: dt=0.0433, 1 negative triangles 1019: dt=0.0433, 1 negative triangles 1020: dt=0.0433, 1 negative triangles 1021: dt=0.0433, 1 negative triangles 1022: dt=0.0433, 1 negative triangles 1023: dt=0.0433, 1 negative triangles 1024: dt=0.0433, 1 negative triangles 1025: dt=0.0433, 1 negative triangles 1026: dt=0.0412, 1 negative triangles 1027: dt=0.0412, 1 negative triangles 1028: dt=0.0412, 1 negative triangles 1029: dt=0.0412, 1 negative triangles 1030: dt=0.0412, 1 negative triangles 1031: dt=0.0412, 1 negative triangles 1032: dt=0.0412, 1 negative triangles 1033: dt=0.0412, 1 negative triangles 1034: dt=0.0412, 1 negative triangles 1035: dt=0.0412, 1 negative triangles 1036: dt=0.0391, 1 negative triangles 1037: dt=0.0391, 1 negative triangles 1038: dt=0.0391, 1 negative triangles 1039: dt=0.0391, 1 negative triangles 1040: dt=0.0391, 1 negative triangles 1041: dt=0.0391, 1 negative triangles 1042: dt=0.0391, 1 negative triangles 1043: dt=0.0391, 1 negative triangles 1044: dt=0.0391, 1 negative triangles 1045: dt=0.0391, 1 negative triangles 1046: dt=0.0371, 1 negative triangles 1047: dt=0.0371, 1 negative triangles 1048: dt=0.0371, 1 negative triangles 1049: dt=0.0371, 1 negative triangles 1050: dt=0.0371, 1 negative triangles 1051: dt=0.0371, 1 negative triangles 1052: dt=0.0371, 1 negative triangles 1053: dt=0.0371, 1 negative triangles 1054: dt=0.0371, 1 negative triangles 1055: dt=0.0371, 1 negative triangles 1056: dt=0.0353, 1 negative triangles 1057: dt=0.0353, 1 negative triangles 1058: dt=0.0353, 1 negative triangles 1059: dt=0.0353, 1 negative triangles 1060: dt=0.0353, 1 negative triangles 1061: dt=0.0353, 1 negative triangles 1062: dt=0.0353, 1 negative triangles 1063: dt=0.0353, 1 negative triangles 1064: dt=0.0353, 1 negative triangles 1065: dt=0.0353, 1 negative triangles 1066: dt=0.0335, 1 negative triangles 1067: dt=0.0335, 1 negative triangles 1068: dt=0.0335, 1 negative triangles 1069: dt=0.0335, 1 negative triangles 1070: dt=0.0335, 1 negative triangles 1071: dt=0.0335, 1 negative triangles 1072: dt=0.0335, 1 negative triangles 1073: dt=0.0335, 1 negative triangles 1074: dt=0.0335, 1 negative triangles 1075: dt=0.0335, 1 negative triangles 1076: dt=0.0319, 1 negative triangles 1077: dt=0.0319, 1 negative triangles 1078: dt=0.0319, 1 negative triangles 1079: dt=0.0319, 1 negative triangles 1080: dt=0.0319, 1 negative triangles 1081: dt=0.0319, 1 negative triangles 1082: dt=0.0319, 1 negative triangles 1083: dt=0.0319, 1 negative triangles 1084: dt=0.0319, 1 negative triangles 1085: dt=0.0319, 1 negative triangles 1086: dt=0.0303, 1 negative triangles 1087: dt=0.0303, 1 negative triangles 1088: dt=0.0303, 1 negative triangles 1089: dt=0.0303, 1 negative triangles 1090: dt=0.0303, 1 negative triangles 1091: dt=0.0303, 1 negative triangles 1092: dt=0.0303, 1 negative triangles 1093: dt=0.0303, 1 negative triangles 1094: dt=0.0303, 1 negative triangles 1095: dt=0.0303, 1 negative triangles 1096: dt=0.0287, 1 negative triangles 1097: dt=0.0287, 1 negative triangles 1098: dt=0.0287, 1 negative triangles 1099: dt=0.0287, 1 negative triangles 1100: dt=0.0287, 1 negative triangles 1101: dt=0.0287, 1 negative triangles 1102: dt=0.0287, 1 negative triangles 1103: dt=0.0287, 1 negative triangles 1104: dt=0.0287, 1 negative triangles 1105: dt=0.0287, 1 negative triangles 1106: dt=0.0273, 1 negative triangles 1107: dt=0.0273, 1 negative triangles 1108: dt=0.0273, 1 negative triangles 1109: dt=0.0273, 1 negative triangles 1110: dt=0.0273, 1 negative triangles 1111: dt=0.0273, 1 negative triangles 1112: dt=0.0273, 1 negative triangles 1113: dt=0.0273, 1 negative triangles 1114: dt=0.0273, 1 negative triangles 1115: dt=0.0273, 1 negative triangles 1116: dt=0.0259, 1 negative triangles 1117: dt=0.0259, 1 negative triangles 1118: dt=0.0259, 1 negative triangles 1119: dt=0.0259, 1 negative triangles 1120: dt=0.0259, 1 negative triangles 1121: dt=0.0259, 1 negative triangles 1122: dt=0.0259, 1 negative triangles 1123: dt=0.0259, 1 negative triangles 1124: dt=0.0259, 1 negative triangles 1125: dt=0.0259, 1 negative triangles 1126: dt=0.0246, 1 negative triangles 1127: dt=0.0246, 1 negative triangles 1128: dt=0.0246, 1 negative triangles 1129: dt=0.0246, 1 negative triangles 1130: dt=0.0246, 1 negative triangles 1131: dt=0.0246, 1 negative triangles 1132: dt=0.0246, 1 negative triangles 1133: dt=0.0246, 1 negative triangles 1134: dt=0.0246, 1 negative triangles 1135: dt=0.0246, 1 negative triangles 1136: dt=0.0234, 1 negative triangles 1137: dt=0.0234, 1 negative triangles 1138: dt=0.0234, 1 negative triangles 1139: dt=0.0234, 1 negative triangles 1140: dt=0.0234, 1 negative triangles 1141: dt=0.0234, 1 negative triangles 1142: dt=0.0234, 1 negative triangles 1143: dt=0.0234, 1 negative triangles 1144: dt=0.0234, 1 negative triangles 1145: dt=0.0234, 1 negative triangles 1146: dt=0.0222, 1 negative triangles 1147: dt=0.0222, 1 negative triangles 1148: dt=0.0222, 1 negative triangles 1149: dt=0.0222, 1 negative triangles 1150: dt=0.0222, 1 negative triangles 1151: dt=0.0222, 1 negative triangles 1152: dt=0.0222, 1 negative triangles 1153: dt=0.0222, 1 negative triangles 1154: dt=0.0222, 1 negative triangles 1155: dt=0.0222, 1 negative triangles 1156: dt=0.0211, 1 negative triangles 1157: dt=0.0211, 1 negative triangles 1158: dt=0.0211, 1 negative triangles 1159: dt=0.0211, 1 negative triangles 1160: dt=0.0211, 1 negative triangles 1161: dt=0.0211, 1 negative triangles 1162: dt=0.0211, 1 negative triangles 1163: dt=0.0211, 1 negative triangles 1164: dt=0.0211, 1 negative triangles 1165: dt=0.0211, 1 negative triangles 1166: dt=0.0201, 1 negative triangles 1167: dt=0.0201, 1 negative triangles 1168: dt=0.0201, 1 negative triangles 1169: dt=0.0201, 1 negative triangles 1170: dt=0.0201, 1 negative triangles 1171: dt=0.0201, 1 negative triangles 1172: dt=0.0201, 1 negative triangles 1173: dt=0.0201, 1 negative triangles 1174: dt=0.0201, 1 negative triangles 1175: dt=0.0201, 1 negative triangles 1176: dt=0.0191, 1 negative triangles 1177: dt=0.0191, 1 negative triangles 1178: dt=0.0191, 1 negative triangles 1179: dt=0.0191, 1 negative triangles 1180: dt=0.0191, 1 negative triangles 1181: dt=0.0191, 1 negative triangles 1182: dt=0.0191, 1 negative triangles 1183: dt=0.0191, 1 negative triangles 1184: dt=0.0191, 1 negative triangles 1185: dt=0.0191, 1 negative triangles 1186: dt=0.0181, 1 negative triangles 1187: dt=0.0181, 1 negative triangles 1188: dt=0.0181, 1 negative triangles 1189: dt=0.0181, 1 negative triangles 1190: dt=0.0181, 1 negative triangles 1191: dt=0.0181, 1 negative triangles 1192: dt=0.0181, 1 negative triangles 1193: dt=0.0181, 1 negative triangles 1194: dt=0.0181, 1 negative triangles 1195: dt=0.0181, 1 negative triangles 1196: dt=0.0172, 1 negative triangles 1197: dt=0.0172, 1 negative triangles 1198: dt=0.0172, 1 negative triangles 1199: dt=0.0172, 1 negative triangles 1200: dt=0.0172, 1 negative triangles 1201: dt=0.0172, 1 negative triangles 1202: dt=0.0172, 1 negative triangles 1203: dt=0.0172, 1 negative triangles 1204: dt=0.0172, 1 negative triangles 1205: dt=0.0172, 1 negative triangles 1206: dt=0.0164, 1 negative triangles 1207: dt=0.0164, 1 negative triangles 1208: dt=0.0164, 1 negative triangles 1209: dt=0.0164, 1 negative triangles 1210: dt=0.0164, 1 negative triangles 1211: dt=0.0164, 1 negative triangles 1212: dt=0.0164, 1 negative triangles 1213: dt=0.0164, 1 negative triangles 1214: dt=0.0164, 1 negative triangles 1215: dt=0.0164, 1 negative triangles 1216: dt=0.0155, 1 negative triangles 1217: dt=0.0155, 1 negative triangles 1218: dt=0.0155, 1 negative triangles 1219: dt=0.0155, 1 negative triangles 1220: dt=0.0155, 1 negative triangles 1221: dt=0.0155, 1 negative triangles 1222: dt=0.0155, 1 negative triangles 1223: dt=0.0155, 1 negative triangles 1224: dt=0.0155, 1 negative triangles 1225: dt=0.0155, 1 negative triangles 1226: dt=0.0148, 1 negative triangles 1227: dt=0.0148, 1 negative triangles 1228: dt=0.0148, 1 negative triangles 1229: dt=0.0148, 1 negative triangles 1230: dt=0.0148, 1 negative triangles 1231: dt=0.0148, 1 negative triangles 1232: dt=0.0148, 1 negative triangles 1233: dt=0.0148, 1 negative triangles 1234: dt=0.0148, 1 negative triangles 1235: dt=0.0148, 1 negative triangles 1236: dt=0.0140, 1 negative triangles 1237: dt=0.0140, 1 negative triangles 1238: dt=0.0140, 1 negative triangles 1239: dt=0.0140, 1 negative triangles 1240: dt=0.0140, 1 negative triangles 1241: dt=0.0140, 1 negative triangles 1242: dt=0.0140, 1 negative triangles 1243: dt=0.0140, 1 negative triangles 1244: dt=0.0140, 1 negative triangles 1245: dt=0.0140, 1 negative triangles 1246: dt=0.0133, 1 negative triangles 1247: dt=0.0133, 1 negative triangles 1248: dt=0.0133, 1 negative triangles 1249: dt=0.0133, 1 negative triangles 1250: dt=0.0133, 1 negative triangles 1251: dt=0.0133, 1 negative triangles 1252: dt=0.0133, 1 negative triangles 1253: dt=0.0133, 1 negative triangles 1254: dt=0.0133, 1 negative triangles 1255: dt=0.0133, 1 negative triangles 1256: dt=0.0127, 1 negative triangles 1257: dt=0.0127, 1 negative triangles 1258: dt=0.0127, 1 negative triangles 1259: dt=0.0127, 1 negative triangles 1260: dt=0.0127, 1 negative triangles 1261: dt=0.0127, 1 negative triangles 1262: dt=0.0127, 1 negative triangles 1263: dt=0.0127, 1 negative triangles 1264: dt=0.0127, 1 negative triangles 1265: dt=0.0127, 1 negative triangles 1266: dt=0.0120, 1 negative triangles 1267: dt=0.0120, 1 negative triangles 1268: dt=0.0120, 1 negative triangles 1269: dt=0.0120, 1 negative triangles 1270: dt=0.0120, 1 negative triangles 1271: dt=0.0120, 1 negative triangles 1272: dt=0.0120, 1 negative triangles 1273: dt=0.0120, 1 negative triangles 1274: dt=0.0120, 1 negative triangles 1275: dt=0.0120, 1 negative triangles 1276: dt=0.0114, 1 negative triangles 1277: dt=0.0114, 1 negative triangles 1278: dt=0.0114, 1 negative triangles 1279: dt=0.0114, 1 negative triangles 1280: dt=0.0114, 1 negative triangles 1281: dt=0.0114, 1 negative triangles 1282: dt=0.0114, 1 negative triangles 1283: dt=0.0114, 1 negative triangles 1284: dt=0.0114, 1 negative triangles 1285: dt=0.0114, 1 negative triangles 1286: dt=0.0108, 1 negative triangles 1287: dt=0.0108, 1 negative triangles 1288: dt=0.0108, 1 negative triangles 1289: dt=0.0108, 1 negative triangles 1290: dt=0.0108, 1 negative triangles 1291: dt=0.0108, 1 negative triangles 1292: dt=0.0108, 1 negative triangles 1293: dt=0.0108, 1 negative triangles 1294: dt=0.0108, 1 negative triangles 1295: dt=0.0108, 1 negative triangles 1296: dt=0.0103, 1 negative triangles 1297: dt=0.0103, 1 negative triangles 1298: dt=0.0103, 1 negative triangles 1299: dt=0.0103, 1 negative triangles 1300: dt=0.0103, 1 negative triangles 1301: dt=0.0103, 1 negative triangles 1302: dt=0.0103, 1 negative triangles 1303: dt=0.0103, 1 negative triangles 1304: dt=0.0103, 1 negative triangles 1305: dt=0.0103, 1 negative triangles 1306: dt=0.0098, 1 negative triangles 1307: dt=0.0098, 1 negative triangles 1308: dt=0.0098, 1 negative triangles 1309: dt=0.0098, 1 negative triangles 1310: dt=0.0098, 1 negative triangles 1311: dt=0.0098, 1 negative triangles 1312: dt=0.0098, 1 negative triangles 1313: dt=0.0098, 1 negative triangles 1314: dt=0.0098, 1 negative triangles 1315: dt=0.0098, 1 negative triangles 1316: dt=0.0098, 1 negative triangles 1317: dt=0.0098, 1 negative triangles 1318: dt=0.0098, 1 negative triangles 1319: dt=0.0098, 1 negative triangles 1320: dt=0.0098, 1 negative triangles 1321: dt=0.0098, 1 negative triangles 1322: dt=0.0098, 1 negative triangles 1323: dt=0.0098, 1 negative triangles 1324: dt=0.0098, 1 negative triangles 1325: dt=0.0098, 1 negative triangles 1326: 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.97 hours mris_sphere utimesec 3497.591285 mris_sphere stimesec 0.183972 mris_sphere ru_maxrss 192900 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 31999 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 7592 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 6 mris_sphere ru_nivcsw 3914 FSRUNTIME@ mris_sphere 0.9725 hours 1 threads #-------------------------------------------- #@# Sphere rh Fri Dec 18 05:14:54 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_sphere -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... == Number of threads available to mris_sphere for OpenMP = 1 == scaling brain by 0.379... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=clust, 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 %18.00 pass 1: epoch 2 of 3 starting distance error %17.88 unfolding complete - removing small folds... starting distance error %17.46 removing remaining folds... final distance error %17.51 MRISunfold() return, current seed 1234 -01: dt=0.0000, 407 negative triangles 335: dt=0.9900, 407 negative triangles 336: dt=0.9900, 152 negative triangles 337: dt=0.9900, 132 negative triangles 338: dt=0.9900, 123 negative triangles 339: dt=0.9900, 95 negative triangles 340: dt=0.9900, 98 negative triangles 341: dt=0.9900, 99 negative triangles 342: dt=0.9900, 84 negative triangles 343: dt=0.9900, 71 negative triangles 344: dt=0.9900, 73 negative triangles 345: dt=0.9900, 59 negative triangles 346: dt=0.9900, 48 negative triangles 347: dt=0.9900, 45 negative triangles 348: dt=0.9900, 52 negative triangles 349: dt=0.9900, 41 negative triangles 350: dt=0.9900, 46 negative triangles 351: dt=0.9900, 35 negative triangles 352: dt=0.9900, 39 negative triangles 353: dt=0.9900, 39 negative triangles 354: dt=0.9900, 37 negative triangles 355: dt=0.9900, 34 negative triangles 356: dt=0.9900, 32 negative triangles 357: dt=0.9900, 30 negative triangles 358: dt=0.9900, 28 negative triangles 359: dt=0.9900, 26 negative triangles 360: dt=0.9900, 20 negative triangles 361: dt=0.9900, 21 negative triangles 362: dt=0.9900, 22 negative triangles 363: dt=0.9900, 21 negative triangles 364: dt=0.9900, 20 negative triangles 365: dt=0.9900, 22 negative triangles 366: dt=0.9900, 18 negative triangles 367: dt=0.9900, 21 negative triangles 368: dt=0.9900, 13 negative triangles 369: dt=0.9900, 12 negative triangles 370: dt=0.9900, 14 negative triangles 371: dt=0.9900, 15 negative triangles 372: dt=0.9900, 11 negative triangles 373: dt=0.9900, 6 negative triangles 374: dt=0.9900, 12 negative triangles 375: dt=0.9900, 10 negative triangles 376: dt=0.9900, 7 negative triangles 377: dt=0.9900, 8 negative triangles 378: dt=0.9900, 10 negative triangles 379: dt=0.9900, 11 negative triangles 380: dt=0.9900, 8 negative triangles 381: dt=0.9900, 7 negative triangles 382: dt=0.9900, 10 negative triangles 383: dt=0.9405, 11 negative triangles 384: dt=0.9405, 8 negative triangles 385: dt=0.9405, 5 negative triangles 386: dt=0.9405, 7 negative triangles 387: dt=0.9405, 7 negative triangles 388: dt=0.9405, 6 negative triangles 389: dt=0.9405, 4 negative triangles 390: dt=0.9405, 6 negative triangles 391: dt=0.9405, 4 negative triangles 392: dt=0.9405, 6 negative triangles 393: dt=0.9405, 6 negative triangles 394: dt=0.9405, 7 negative triangles 395: dt=0.9405, 5 negative triangles 396: dt=0.9405, 3 negative triangles 397: dt=0.9405, 5 negative triangles 398: dt=0.9405, 3 negative triangles 399: dt=0.9405, 4 negative triangles 400: dt=0.9405, 2 negative triangles 401: dt=0.9405, 2 negative triangles 402: dt=0.9405, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.73 hours mris_sphere utimesec 2617.509078 mris_sphere stimesec 0.234964 mris_sphere ru_maxrss 189116 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 31056 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 7448 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 8 mris_sphere ru_nivcsw 2937 FSRUNTIME@ mris_sphere 0.7278 hours 1 threads #-------------------------------------------- #@# Surf Reg lh Fri Dec 18 05:58:34 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_register -curv -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /export/apps/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts cmdline mris_register -curv -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /export/apps/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading surface from ../surf/lh.sphere... reading template parameterization from /export/apps/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=clust, 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=clust, 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 = 3.474 curvature mean = 0.031, std = 0.826 curvature mean = -0.003, std = 0.855 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (0.00, -16.00, 16.00) sse = 326204.5, tmin=0.6566 d=32.00 min @ (0.00, 8.00, -8.00) sse = 313873.3, tmin=1.3338 d=16.00 min @ (0.00, -4.00, 4.00) sse = 311893.5, tmin=2.0186 d=8.00 min @ (2.00, 0.00, 0.00) sse = 310509.8, tmin=2.7155 d=2.00 min @ (-0.50, 1.00, -0.50) sse = 310283.2, tmin=4.1883 d=1.00 min @ (0.00, -0.25, 0.25) sse = 310269.2, tmin=4.9810 d=0.50 min @ (0.12, -0.12, 0.00) sse = 310253.9, tmin=5.6851 tol=1.0e+00, sigma=0.5, host=clust, 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 5.69 min curvature mean = -0.019, std = 0.817 curvature mean = 0.002, std = 0.934 curvature mean = -0.029, std = 0.824 curvature mean = 0.002, std = 0.968 curvature mean = -0.029, std = 0.827 curvature mean = 0.001, std = 0.984 2 Reading smoothwm curvature mean = 0.006, std = 1.117 curvature mean = 0.042, std = 0.246 curvature mean = -0.018, std = 0.080 curvature mean = 0.044, std = 0.300 curvature mean = -0.017, std = 0.111 curvature mean = 0.045, std = 0.326 curvature mean = -0.011, std = 0.164 curvature mean = 0.045, std = 0.337 curvature mean = -0.004, std = 0.266 MRISregister() return, current seed 0 -01: dt=0.0000, 450 negative triangles 139: dt=0.9900, 450 negative triangles 140: dt=0.9405, 557 negative triangles expanding nbhd size to 1 141: dt=0.9900, 507 negative triangles 142: dt=0.9900, 437 negative triangles 143: dt=0.9900, 397 negative triangles 144: dt=0.9900, 407 negative triangles 145: dt=0.9900, 398 negative triangles 146: dt=0.9900, 372 negative triangles 147: dt=0.9900, 375 negative triangles 148: dt=0.9900, 360 negative triangles 149: dt=0.9900, 349 negative triangles 150: dt=0.9900, 338 negative triangles 151: dt=0.9900, 317 negative triangles 152: dt=0.9900, 298 negative triangles 153: dt=0.9900, 288 negative triangles 154: dt=0.9900, 281 negative triangles 155: dt=0.9900, 274 negative triangles 156: dt=0.9900, 256 negative triangles 157: dt=0.9900, 245 negative triangles 158: dt=0.9900, 233 negative triangles 159: dt=0.9900, 228 negative triangles 160: dt=0.9900, 223 negative triangles 161: dt=0.9900, 214 negative triangles 162: dt=0.9900, 207 negative triangles 163: dt=0.9900, 192 negative triangles 164: dt=0.9900, 178 negative triangles 165: dt=0.9900, 176 negative triangles 166: dt=0.9900, 172 negative triangles 167: dt=0.9900, 169 negative triangles 168: dt=0.9900, 164 negative triangles 169: dt=0.9900, 151 negative triangles 170: dt=0.9900, 152 negative triangles 171: dt=0.9900, 149 negative triangles 172: dt=0.9900, 149 negative triangles 173: dt=0.9900, 140 negative triangles 174: dt=0.9900, 137 negative triangles 175: dt=0.9900, 129 negative triangles 176: dt=0.9900, 125 negative triangles 177: dt=0.9900, 116 negative triangles 178: dt=0.9900, 113 negative triangles 179: dt=0.9900, 113 negative triangles 180: dt=0.9900, 108 negative triangles 181: dt=0.9900, 101 negative triangles 182: dt=0.9900, 102 negative triangles 183: dt=0.9900, 96 negative triangles 184: dt=0.9900, 92 negative triangles 185: dt=0.9900, 88 negative triangles 186: dt=0.9900, 87 negative triangles 187: dt=0.9900, 80 negative triangles 188: dt=0.9900, 75 negative triangles 189: dt=0.9900, 74 negative triangles 190: dt=0.9900, 77 negative triangles 191: dt=0.9900, 71 negative triangles 192: dt=0.9900, 64 negative triangles 193: dt=0.9900, 61 negative triangles 194: dt=0.9900, 60 negative triangles 195: dt=0.9900, 58 negative triangles 196: dt=0.9900, 52 negative triangles 197: dt=0.9900, 52 negative triangles 198: dt=0.9900, 52 negative triangles 199: dt=0.9900, 52 negative triangles 200: dt=0.9900, 51 negative triangles 201: dt=0.9900, 47 negative triangles 202: dt=0.9900, 42 negative triangles 203: dt=0.9900, 43 negative triangles 204: dt=0.9900, 43 negative triangles 205: dt=0.9900, 45 negative triangles 206: dt=0.9900, 40 negative triangles 207: dt=0.9900, 40 negative triangles 208: dt=0.9900, 41 negative triangles 209: dt=0.9900, 39 negative triangles 210: dt=0.9900, 37 negative triangles 211: dt=0.9900, 37 negative triangles 212: dt=0.9900, 37 negative triangles 213: dt=0.9900, 28 negative triangles 214: dt=0.9900, 28 negative triangles 215: dt=0.9900, 27 negative triangles 216: dt=0.9900, 27 negative triangles 217: dt=0.9900, 26 negative triangles 218: dt=0.9900, 26 negative triangles 219: dt=0.9900, 26 negative triangles 220: dt=0.9900, 24 negative triangles 221: dt=0.9900, 26 negative triangles 222: dt=0.9900, 24 negative triangles 223: dt=0.9900, 24 negative triangles 224: dt=0.9900, 22 negative triangles 225: dt=0.9900, 20 negative triangles 226: dt=0.9900, 21 negative triangles 227: dt=0.9900, 22 negative triangles 228: dt=0.9900, 19 negative triangles 229: dt=0.9900, 19 negative triangles 230: dt=0.9900, 20 negative triangles 231: dt=0.9900, 18 negative triangles 232: dt=0.9900, 20 negative triangles 233: dt=0.9900, 20 negative triangles 234: dt=0.9900, 18 negative triangles 235: dt=0.9900, 19 negative triangles 236: dt=0.9900, 19 negative triangles 237: dt=0.9900, 16 negative triangles 238: dt=0.9900, 16 negative triangles 239: dt=0.9900, 14 negative triangles 240: dt=0.9900, 14 negative triangles 241: dt=0.9900, 11 negative triangles 242: dt=0.9900, 12 negative triangles 243: dt=0.9900, 10 negative triangles 244: dt=0.9900, 8 negative triangles 245: dt=0.9900, 8 negative triangles 246: dt=0.9900, 8 negative triangles 247: dt=0.9900, 7 negative triangles 248: dt=0.9900, 5 negative triangles 249: dt=0.9900, 5 negative triangles 250: dt=0.9900, 6 negative triangles 251: dt=0.9900, 4 negative triangles 252: dt=0.9900, 5 negative triangles 253: dt=0.9900, 4 negative triangles 254: dt=0.9900, 5 negative triangles 255: dt=0.9900, 3 negative triangles 256: dt=0.9900, 2 negative triangles 257: dt=0.9900, 4 negative triangles 258: dt=0.9900, 3 negative triangles 259: dt=0.9900, 3 negative triangles 260: dt=0.9900, 3 negative triangles 261: dt=0.9900, 2 negative triangles 262: dt=0.9900, 1 negative triangles 263: dt=0.9900, 1 negative triangles 264: dt=0.9900, 1 negative triangles 265: dt=0.9900, 1 negative triangles 266: dt=0.9900, 1 negative triangles 267: dt=0.9900, 1 negative triangles 268: dt=0.9900, 1 negative triangles 269: dt=0.9900, 1 negative triangles 270: dt=0.9900, 1 negative triangles 271: dt=0.9900, 1 negative triangles 272: dt=0.9405, 1 negative triangles 273: dt=0.9405, 1 negative triangles 274: dt=0.9405, 1 negative triangles 275: dt=0.9405, 1 negative triangles 276: dt=0.9405, 1 negative triangles 277: dt=0.9405, 1 negative triangles 278: dt=0.9405, 1 negative triangles 279: dt=0.9405, 1 negative triangles 280: dt=0.9405, 1 negative triangles 281: dt=0.9405, 1 negative triangles 282: dt=0.8935, 1 negative triangles 283: dt=0.8935, 1 negative triangles 284: dt=0.8935, 1 negative triangles 285: dt=0.8935, 1 negative triangles 286: dt=0.8935, 1 negative triangles 287: dt=0.8935, 1 negative triangles 288: dt=0.8935, 1 negative triangles 289: dt=0.8935, 1 negative triangles 290: dt=0.8935, 1 negative triangles 291: dt=0.8935, 1 negative triangles 292: dt=0.8488, 1 negative triangles 293: dt=0.8488, 1 negative triangles 294: dt=0.8488, 1 negative triangles 295: dt=0.8488, 1 negative triangles 296: dt=0.8488, 1 negative triangles 297: dt=0.8488, 1 negative triangles 298: dt=0.8488, 1 negative triangles 299: dt=0.8488, 1 negative triangles 300: dt=0.8488, 1 negative triangles 301: dt=0.8488, 1 negative triangles 302: dt=0.8064, 1 negative triangles 303: dt=0.8064, 1 negative triangles 304: dt=0.8064, 1 negative triangles 305: dt=0.8064, 1 negative triangles 306: dt=0.8064, 1 negative triangles 307: dt=0.8064, 1 negative triangles 308: dt=0.8064, 1 negative triangles 309: dt=0.8064, 1 negative triangles 310: dt=0.8064, 1 negative triangles 311: dt=0.8064, 1 negative triangles 312: dt=0.7660, 1 negative triangles 313: dt=0.7660, 1 negative triangles 314: dt=0.7660, 1 negative triangles 315: dt=0.7660, 1 negative triangles 316: dt=0.7660, 1 negative triangles 317: dt=0.7660, 1 negative triangles 318: dt=0.7660, 1 negative triangles 319: dt=0.7660, 1 negative triangles 320: dt=0.7660, 1 negative triangles 321: dt=0.7660, 1 negative triangles 322: dt=0.7277, 1 negative triangles 323: dt=0.7277, 1 negative triangles 324: dt=0.7277, 1 negative triangles 325: dt=0.7277, 1 negative triangles 326: dt=0.7277, 1 negative triangles 327: dt=0.7277, 1 negative triangles 328: dt=0.7277, 1 negative triangles 329: dt=0.7277, 1 negative triangles 330: dt=0.7277, 1 negative triangles 331: dt=0.7277, 1 negative triangles 332: dt=0.6914, 1 negative triangles 333: dt=0.6914, 1 negative triangles 334: dt=0.6914, 1 negative triangles 335: dt=0.6914, 1 negative triangles 336: dt=0.6914, 1 negative triangles 337: dt=0.6914, 1 negative triangles 338: dt=0.6914, 1 negative triangles 339: dt=0.6914, 1 negative triangles 340: dt=0.6914, 1 negative triangles 341: dt=0.6914, 1 negative triangles 342: dt=0.6568, 1 negative triangles 343: dt=0.6568, 1 negative triangles 344: dt=0.6568, 1 negative triangles 345: dt=0.6568, 1 negative triangles 346: dt=0.6568, 1 negative triangles 347: dt=0.6568, 1 negative triangles 348: dt=0.6568, 1 negative triangles 349: dt=0.6568, 1 negative triangles 350: dt=0.6568, 1 negative triangles 351: dt=0.6568, 1 negative triangles 352: dt=0.6239, 1 negative triangles 353: dt=0.6239, 1 negative triangles 354: dt=0.6239, 1 negative triangles 355: dt=0.6239, 1 negative triangles 356: dt=0.6239, 1 negative triangles 357: dt=0.6239, 1 negative triangles 358: dt=0.6239, 1 negative triangles 359: dt=0.6239, 1 negative triangles 360: dt=0.6239, 1 negative triangles 361: dt=0.6239, 1 negative triangles 362: dt=0.5927, 1 negative triangles 363: dt=0.5927, 1 negative triangles 364: dt=0.5927, 1 negative triangles 365: dt=0.5927, 1 negative triangles 366: dt=0.5927, 1 negative triangles 367: dt=0.5927, 1 negative triangles 368: dt=0.5927, 1 negative triangles 369: dt=0.5927, 1 negative triangles 370: dt=0.5927, 1 negative triangles 371: dt=0.5927, 1 negative triangles 372: dt=0.5631, 1 negative triangles 373: dt=0.5631, 1 negative triangles 374: dt=0.5631, 1 negative triangles 375: dt=0.5631, 1 negative triangles 376: dt=0.5631, 1 negative triangles 377: dt=0.5631, 1 negative triangles 378: dt=0.5631, 1 negative triangles 379: dt=0.5631, 1 negative triangles 380: dt=0.5631, 1 negative triangles 381: dt=0.5631, 1 negative triangles 382: dt=0.5350, 1 negative triangles 383: dt=0.5350, 1 negative triangles 384: dt=0.5350, 1 negative triangles 385: dt=0.5350, 1 negative triangles 386: dt=0.5350, 1 negative triangles 387: dt=0.5350, 1 negative triangles 388: dt=0.5350, 1 negative triangles 389: dt=0.5350, 1 negative triangles 390: dt=0.5350, 1 negative triangles 391: dt=0.5350, 1 negative triangles 392: dt=0.5082, 1 negative triangles 393: dt=0.5082, 1 negative triangles 394: dt=0.5082, 1 negative triangles 395: dt=0.5082, 1 negative triangles 396: dt=0.5082, 1 negative triangles 397: dt=0.5082, 1 negative triangles 398: dt=0.5082, 1 negative triangles 399: dt=0.5082, 1 negative triangles 400: dt=0.5082, 1 negative triangles 401: dt=0.5082, 1 negative triangles 402: dt=0.4828, 1 negative triangles 403: dt=0.4828, 1 negative triangles 404: dt=0.4828, 1 negative triangles 405: dt=0.4828, 1 negative triangles 406: dt=0.4828, 1 negative triangles 407: dt=0.4828, 1 negative triangles 408: dt=0.4828, 1 negative triangles 409: dt=0.4828, 1 negative triangles 410: dt=0.4828, 1 negative triangles 411: dt=0.4828, 1 negative triangles 412: dt=0.4587, 1 negative triangles 413: dt=0.4587, 1 negative triangles 414: dt=0.4587, 1 negative triangles 415: dt=0.4587, 1 negative triangles 416: dt=0.4587, 1 negative triangles 417: dt=0.4587, 1 negative triangles 418: dt=0.4587, 1 negative triangles 419: dt=0.4587, 1 negative triangles 420: dt=0.4587, 1 negative triangles 421: dt=0.4587, 1 negative triangles 422: dt=0.4357, 1 negative triangles 423: dt=0.4357, 1 negative triangles 424: dt=0.4357, 1 negative triangles 425: dt=0.4357, 1 negative triangles 426: dt=0.4357, 1 negative triangles 427: dt=0.4357, 1 negative triangles 428: dt=0.4357, 1 negative triangles 429: dt=0.4357, 1 negative triangles 430: dt=0.4357, 1 negative triangles 431: dt=0.4357, 1 negative triangles 432: dt=0.4139, 1 negative triangles 433: dt=0.4139, 1 negative triangles 434: dt=0.4139, 1 negative triangles 435: dt=0.4139, 1 negative triangles 436: dt=0.4139, 1 negative triangles 437: dt=0.4139, 1 negative triangles 438: dt=0.4139, 1 negative triangles 439: dt=0.4139, 1 negative triangles 440: dt=0.4139, 1 negative triangles 441: dt=0.4139, 1 negative triangles 442: dt=0.3932, 1 negative triangles 443: dt=0.3932, 1 negative triangles 444: dt=0.3932, 1 negative triangles 445: dt=0.3932, 1 negative triangles 446: dt=0.3932, 1 negative triangles 447: dt=0.3932, 1 negative triangles 448: dt=0.3932, 1 negative triangles 449: dt=0.3932, 1 negative triangles 450: dt=0.3932, 1 negative triangles 451: dt=0.3932, 1 negative triangles 452: dt=0.3736, 1 negative triangles 453: dt=0.3736, 1 negative triangles 454: dt=0.3736, 1 negative triangles 455: dt=0.3736, 1 negative triangles 456: dt=0.3736, 1 negative triangles 457: dt=0.3736, 1 negative triangles 458: dt=0.3736, 1 negative triangles 459: dt=0.3736, 1 negative triangles 460: dt=0.3736, 1 negative triangles 461: dt=0.3736, 1 negative triangles 462: dt=0.3549, 1 negative triangles 463: dt=0.3549, 1 negative triangles 464: dt=0.3549, 1 negative triangles 465: dt=0.3549, 1 negative triangles 466: dt=0.3549, 1 negative triangles 467: dt=0.3549, 1 negative triangles 468: dt=0.3549, 1 negative triangles 469: dt=0.3549, 1 negative triangles 470: dt=0.3549, 1 negative triangles 471: dt=0.3549, 1 negative triangles 472: dt=0.3372, 1 negative triangles 473: dt=0.3372, 1 negative triangles 474: dt=0.3372, 1 negative triangles 475: dt=0.3372, 1 negative triangles 476: dt=0.3372, 1 negative triangles 477: dt=0.3372, 1 negative triangles 478: dt=0.3372, 1 negative triangles 479: dt=0.3372, 1 negative triangles 480: dt=0.3372, 1 negative triangles 481: dt=0.3372, 1 negative triangles 482: dt=0.3203, 1 negative triangles 483: dt=0.3203, 1 negative triangles 484: dt=0.3203, 1 negative triangles 485: dt=0.3203, 1 negative triangles 486: dt=0.3203, 1 negative triangles 487: dt=0.3203, 1 negative triangles 488: dt=0.3203, 1 negative triangles 489: dt=0.3203, 1 negative triangles 490: dt=0.3203, 1 negative triangles 491: dt=0.3203, 1 negative triangles 492: dt=0.3043, 1 negative triangles 493: dt=0.3043, 1 negative triangles 494: dt=0.3043, 1 negative triangles 495: dt=0.3043, 1 negative triangles 496: dt=0.3043, 1 negative triangles 497: dt=0.3043, 1 negative triangles 498: dt=0.3043, 1 negative triangles 499: dt=0.3043, 1 negative triangles 500: dt=0.3043, 1 negative triangles 501: dt=0.3043, 1 negative triangles 502: dt=0.2891, 1 negative triangles 503: dt=0.2891, 1 negative triangles 504: dt=0.2891, 1 negative triangles 505: dt=0.2891, 1 negative triangles 506: dt=0.2891, 1 negative triangles 507: dt=0.2891, 1 negative triangles 508: dt=0.2891, 1 negative triangles 509: dt=0.2891, 1 negative triangles 510: dt=0.2891, 1 negative triangles 511: dt=0.2891, 1 negative triangles 512: dt=0.2746, 1 negative triangles 513: dt=0.2746, 1 negative triangles 514: dt=0.2746, 1 negative triangles 515: dt=0.2746, 1 negative triangles 516: dt=0.2746, 1 negative triangles 517: dt=0.2746, 1 negative triangles 518: dt=0.2746, 1 negative triangles 519: dt=0.2746, 1 negative triangles 520: dt=0.2746, 1 negative triangles 521: dt=0.2746, 1 negative triangles 522: dt=0.2609, 1 negative triangles 523: dt=0.2609, 1 negative triangles 524: dt=0.2609, 1 negative triangles 525: dt=0.2609, 1 negative triangles 526: dt=0.2609, 1 negative triangles 527: dt=0.2609, 1 negative triangles 528: dt=0.2609, 1 negative triangles 529: dt=0.2609, 1 negative triangles 530: dt=0.2609, 1 negative triangles 531: dt=0.2609, 1 negative triangles 532: dt=0.2478, 1 negative triangles 533: dt=0.2478, 1 negative triangles 534: dt=0.2478, 1 negative triangles 535: dt=0.2478, 1 negative triangles 536: dt=0.2478, 1 negative triangles 537: dt=0.2478, 1 negative triangles 538: dt=0.2478, 1 negative triangles 539: dt=0.2478, 1 negative triangles 540: dt=0.2478, 1 negative triangles 541: dt=0.2478, 1 negative triangles 542: dt=0.2354, 1 negative triangles 543: dt=0.2354, 1 negative triangles 544: dt=0.2354, 1 negative triangles 545: dt=0.2354, 1 negative triangles 546: dt=0.2354, 1 negative triangles 547: dt=0.2354, 1 negative triangles 548: dt=0.2354, 1 negative triangles 549: dt=0.2354, 1 negative triangles 550: dt=0.2354, 1 negative triangles 551: dt=0.2354, 1 negative triangles 552: dt=0.2237, 1 negative triangles 553: dt=0.2237, 1 negative triangles 554: dt=0.2237, 1 negative triangles 555: dt=0.2237, 1 negative triangles 556: dt=0.2237, 1 negative triangles 557: dt=0.2237, 1 negative triangles 558: dt=0.2237, 1 negative triangles 559: dt=0.2237, 1 negative triangles 560: dt=0.2237, 1 negative triangles 561: dt=0.2237, 1 negative triangles 562: dt=0.2125, 1 negative triangles 563: dt=0.2125, 1 negative triangles 564: dt=0.2125, 1 negative triangles 565: dt=0.2125, 1 negative triangles 566: dt=0.2125, 1 negative triangles 567: dt=0.2125, 1 negative triangles 568: dt=0.2125, 1 negative triangles 569: dt=0.2125, 1 negative triangles 570: dt=0.2125, 1 negative triangles 571: dt=0.2125, 1 negative triangles 572: dt=0.2019, 1 negative triangles 573: dt=0.2019, 1 negative triangles 574: dt=0.2019, 1 negative triangles 575: dt=0.2019, 1 negative triangles 576: dt=0.2019, 1 negative triangles 577: dt=0.2019, 1 negative triangles 578: dt=0.2019, 1 negative triangles 579: dt=0.2019, 1 negative triangles 580: dt=0.2019, 1 negative triangles 581: dt=0.2019, 1 negative triangles 582: dt=0.1918, 1 negative triangles 583: dt=0.1918, 1 negative triangles 584: dt=0.1918, 1 negative triangles 585: dt=0.1918, 1 negative triangles 586: dt=0.1918, 1 negative triangles 587: dt=0.1918, 1 negative triangles 588: dt=0.1918, 1 negative triangles 589: dt=0.1918, 1 negative triangles 590: dt=0.1918, 1 negative triangles 591: dt=0.1918, 1 negative triangles 592: dt=0.1822, 1 negative triangles 593: dt=0.1822, 1 negative triangles 594: dt=0.1822, 1 negative triangles 595: dt=0.1822, 1 negative triangles 596: dt=0.1822, 1 negative triangles 597: dt=0.1822, 1 negative triangles 598: dt=0.1822, 1 negative triangles 599: dt=0.1822, 1 negative triangles 600: dt=0.1822, 1 negative triangles 601: dt=0.1822, 1 negative triangles 602: dt=0.1731, 1 negative triangles 603: dt=0.1731, 1 negative triangles 604: dt=0.1731, 1 negative triangles 605: dt=0.1731, 1 negative triangles 606: dt=0.1731, 1 negative triangles 607: dt=0.1731, 1 negative triangles 608: dt=0.1731, 1 negative triangles 609: dt=0.1731, 1 negative triangles 610: dt=0.1731, 1 negative triangles 611: dt=0.1731, 1 negative triangles 612: dt=0.1644, 1 negative triangles 613: dt=0.1644, 1 negative triangles 614: dt=0.1644, 1 negative triangles 615: dt=0.1644, 1 negative triangles 616: dt=0.1644, 1 negative triangles 617: dt=0.1644, 1 negative triangles 618: dt=0.1644, 1 negative triangles 619: dt=0.1644, 1 negative triangles 620: dt=0.1644, 1 negative triangles 621: dt=0.1644, 1 negative triangles 622: dt=0.1562, 1 negative triangles 623: dt=0.1562, 1 negative triangles 624: dt=0.1562, 1 negative triangles 625: dt=0.1562, 1 negative triangles 626: dt=0.1562, 1 negative triangles 627: dt=0.1562, 1 negative triangles 628: dt=0.1562, 1 negative triangles 629: dt=0.1562, 1 negative triangles 630: dt=0.1562, 1 negative triangles 631: dt=0.1562, 1 negative triangles 632: dt=0.1484, 1 negative triangles 633: dt=0.1484, 1 negative triangles 634: dt=0.1484, 1 negative triangles 635: dt=0.1484, 1 negative triangles 636: dt=0.1484, 1 negative triangles 637: dt=0.1484, 1 negative triangles 638: dt=0.1484, 1 negative triangles 639: dt=0.1484, 1 negative triangles 640: dt=0.1484, 1 negative triangles 641: dt=0.1484, 1 negative triangles 642: dt=0.1410, 1 negative triangles 643: dt=0.1410, 1 negative triangles 644: dt=0.1410, 1 negative triangles 645: dt=0.1410, 1 negative triangles 646: dt=0.1410, 1 negative triangles 647: dt=0.1410, 1 negative triangles 648: dt=0.1410, 1 negative triangles 649: dt=0.1410, 1 negative triangles 650: dt=0.1410, 1 negative triangles 651: dt=0.1410, 1 negative triangles 652: dt=0.1339, 1 negative triangles 653: dt=0.1339, 1 negative triangles 654: dt=0.1339, 1 negative triangles 655: dt=0.1339, 1 negative triangles 656: dt=0.1339, 1 negative triangles 657: dt=0.1339, 1 negative triangles 658: dt=0.1339, 1 negative triangles 659: dt=0.1339, 1 negative triangles 660: dt=0.1339, 1 negative triangles 661: dt=0.1339, 1 negative triangles 662: dt=0.1272, 1 negative triangles 663: dt=0.1272, 1 negative triangles 664: dt=0.1272, 1 negative triangles 665: dt=0.1272, 1 negative triangles 666: dt=0.1272, 1 negative triangles 667: dt=0.1272, 1 negative triangles 668: dt=0.1272, 1 negative triangles 669: dt=0.1272, 1 negative triangles 670: dt=0.1272, 1 negative triangles 671: dt=0.1272, 1 negative triangles 672: dt=0.1209, 1 negative triangles 673: dt=0.1209, 1 negative triangles 674: dt=0.1209, 1 negative triangles 675: dt=0.1209, 1 negative triangles 676: dt=0.1209, 1 negative triangles 677: dt=0.1209, 1 negative triangles 678: dt=0.1209, 1 negative triangles 679: dt=0.1209, 1 negative triangles 680: dt=0.1209, 1 negative triangles 681: dt=0.1209, 1 negative triangles 682: dt=0.1148, 1 negative triangles 683: dt=0.1148, 1 negative triangles 684: dt=0.1148, 1 negative triangles 685: dt=0.1148, 1 negative triangles 686: dt=0.1148, 1 negative triangles 687: dt=0.1148, 1 negative triangles 688: dt=0.1148, 1 negative triangles 689: dt=0.1148, 1 negative triangles 690: dt=0.1148, 1 negative triangles 691: dt=0.1148, 1 negative triangles 692: dt=0.1091, 1 negative triangles 693: dt=0.1091, 1 negative triangles 694: dt=0.1091, 1 negative triangles 695: dt=0.1091, 1 negative triangles 696: dt=0.1091, 1 negative triangles 697: dt=0.1091, 1 negative triangles 698: dt=0.1091, 1 negative triangles 699: dt=0.1091, 1 negative triangles 700: dt=0.1091, 1 negative triangles 701: dt=0.1091, 1 negative triangles 702: dt=0.1036, 1 negative triangles 703: dt=0.1036, 1 negative triangles 704: dt=0.1036, 1 negative triangles 705: dt=0.1036, 1 negative triangles 706: dt=0.1036, 1 negative triangles 707: dt=0.1036, 1 negative triangles 708: dt=0.1036, 1 negative triangles 709: dt=0.1036, 1 negative triangles 710: dt=0.1036, 1 negative triangles 711: dt=0.1036, 1 negative triangles 712: dt=0.0984, 1 negative triangles 713: dt=0.0984, 1 negative triangles 714: dt=0.0984, 1 negative triangles 715: dt=0.0984, 1 negative triangles 716: dt=0.0984, 1 negative triangles 717: dt=0.0984, 1 negative triangles 718: dt=0.0984, 1 negative triangles 719: dt=0.0984, 1 negative triangles 720: dt=0.0984, 1 negative triangles 721: dt=0.0984, 1 negative triangles 722: dt=0.0935, 1 negative triangles 723: dt=0.0935, 1 negative triangles 724: dt=0.0935, 1 negative triangles 725: dt=0.0935, 1 negative triangles 726: dt=0.0935, 1 negative triangles 727: dt=0.0935, 1 negative triangles 728: dt=0.0935, 1 negative triangles 729: dt=0.0935, 1 negative triangles 730: dt=0.0935, 1 negative triangles 731: dt=0.0935, 1 negative triangles 732: dt=0.0888, 1 negative triangles 733: dt=0.0888, 1 negative triangles 734: dt=0.0888, 1 negative triangles 735: dt=0.0888, 1 negative triangles 736: dt=0.0888, 1 negative triangles 737: dt=0.0888, 1 negative triangles 738: dt=0.0888, 1 negative triangles 739: dt=0.0888, 1 negative triangles 740: dt=0.0888, 1 negative triangles 741: dt=0.0888, 1 negative triangles 742: dt=0.0844, 1 negative triangles 743: dt=0.0844, 1 negative triangles 744: dt=0.0844, 1 negative triangles 745: dt=0.0844, 1 negative triangles 746: dt=0.0844, 1 negative triangles 747: dt=0.0844, 1 negative triangles 748: dt=0.0844, 1 negative triangles 749: dt=0.0844, 1 negative triangles 750: dt=0.0844, 1 negative triangles 751: dt=0.0844, 1 negative triangles 752: dt=0.0802, 1 negative triangles 753: dt=0.0802, 1 negative triangles 754: dt=0.0802, 1 negative triangles 755: dt=0.0802, 1 negative triangles 756: dt=0.0802, 1 negative triangles 757: dt=0.0802, 1 negative triangles 758: dt=0.0802, 1 negative triangles 759: dt=0.0802, 1 negative triangles 760: dt=0.0802, 1 negative triangles 761: dt=0.0802, 1 negative triangles 762: dt=0.0762, 1 negative triangles 763: dt=0.0762, 1 negative triangles 764: dt=0.0762, 1 negative triangles 765: dt=0.0762, 1 negative triangles 766: dt=0.0762, 1 negative triangles 767: dt=0.0762, 1 negative triangles 768: dt=0.0762, 1 negative triangles 769: dt=0.0762, 1 negative triangles 770: dt=0.0762, 1 negative triangles 771: dt=0.0762, 1 negative triangles 772: dt=0.0724, 1 negative triangles 773: dt=0.0724, 1 negative triangles 774: dt=0.0724, 1 negative triangles 775: dt=0.0724, 1 negative triangles 776: dt=0.0724, 1 negative triangles 777: dt=0.0724, 1 negative triangles 778: dt=0.0724, 1 negative triangles 779: dt=0.0724, 1 negative triangles 780: dt=0.0724, 1 negative triangles 781: dt=0.0724, 1 negative triangles 782: dt=0.0687, 1 negative triangles 783: dt=0.0687, 1 negative triangles 784: dt=0.0687, 1 negative triangles 785: dt=0.0687, 1 negative triangles 786: dt=0.0687, 1 negative triangles 787: dt=0.0687, 1 negative triangles 788: dt=0.0687, 1 negative triangles 789: dt=0.0687, 1 negative triangles 790: dt=0.0687, 1 negative triangles 791: dt=0.0687, 1 negative triangles 792: dt=0.0653, 1 negative triangles 793: dt=0.0653, 1 negative triangles 794: dt=0.0653, 1 negative triangles 795: dt=0.0653, 1 negative triangles 796: dt=0.0653, 1 negative triangles 797: dt=0.0653, 1 negative triangles 798: dt=0.0653, 1 negative triangles 799: dt=0.0653, 1 negative triangles 800: dt=0.0653, 1 negative triangles 801: dt=0.0653, 1 negative triangles 802: dt=0.0620, 1 negative triangles 803: dt=0.0620, 1 negative triangles 804: dt=0.0620, 1 negative triangles 805: dt=0.0620, 1 negative triangles 806: dt=0.0620, 1 negative triangles 807: dt=0.0620, 1 negative triangles 808: dt=0.0620, 1 negative triangles 809: dt=0.0620, 1 negative triangles 810: dt=0.0620, 1 negative triangles 811: dt=0.0620, 1 negative triangles 812: dt=0.0589, 1 negative triangles 813: dt=0.0589, 1 negative triangles 814: dt=0.0589, 1 negative triangles 815: dt=0.0589, 1 negative triangles 816: dt=0.0589, 1 negative triangles 817: dt=0.0589, 1 negative triangles 818: dt=0.0589, 1 negative triangles 819: dt=0.0589, 1 negative triangles 820: dt=0.0589, 1 negative triangles 821: dt=0.0589, 1 negative triangles 822: dt=0.0560, 1 negative triangles 823: dt=0.0560, 1 negative triangles 824: dt=0.0560, 1 negative triangles 825: dt=0.0560, 1 negative triangles 826: dt=0.0560, 1 negative triangles 827: dt=0.0560, 1 negative triangles 828: dt=0.0560, 1 negative triangles 829: dt=0.0560, 1 negative triangles 830: dt=0.0560, 1 negative triangles 831: dt=0.0560, 1 negative triangles 832: dt=0.0532, 1 negative triangles 833: dt=0.0532, 1 negative triangles 834: dt=0.0532, 1 negative triangles 835: dt=0.0532, 1 negative triangles 836: dt=0.0532, 1 negative triangles 837: dt=0.0532, 1 negative triangles 838: dt=0.0532, 1 negative triangles 839: dt=0.0532, 1 negative triangles 840: dt=0.0532, 1 negative triangles 841: dt=0.0532, 1 negative triangles 842: dt=0.0505, 1 negative triangles 843: dt=0.0505, 1 negative triangles 844: dt=0.0505, 1 negative triangles 845: dt=0.0505, 1 negative triangles 846: dt=0.0505, 1 negative triangles 847: dt=0.0505, 1 negative triangles 848: dt=0.0505, 1 negative triangles 849: dt=0.0505, 1 negative triangles 850: dt=0.0505, 1 negative triangles 851: dt=0.0505, 1 negative triangles 852: dt=0.0480, 1 negative triangles 853: dt=0.0480, 1 negative triangles 854: dt=0.0480, 1 negative triangles 855: dt=0.0480, 1 negative triangles 856: dt=0.0480, 1 negative triangles 857: dt=0.0480, 1 negative triangles 858: dt=0.0480, 1 negative triangles 859: dt=0.0480, 1 negative triangles 860: dt=0.0480, 1 negative triangles 861: dt=0.0480, 1 negative triangles 862: dt=0.0456, 1 negative triangles 863: dt=0.0456, 1 negative triangles 864: dt=0.0456, 1 negative triangles 865: dt=0.0456, 1 negative triangles 866: dt=0.0456, 1 negative triangles 867: dt=0.0456, 1 negative triangles 868: dt=0.0456, 1 negative triangles 869: dt=0.0456, 1 negative triangles 870: dt=0.0456, 1 negative triangles 871: dt=0.0456, 1 negative triangles 872: dt=0.0433, 1 negative triangles 873: dt=0.0433, 1 negative triangles 874: dt=0.0433, 1 negative triangles 875: dt=0.0433, 1 negative triangles 876: dt=0.0433, 1 negative triangles 877: dt=0.0433, 1 negative triangles 878: dt=0.0433, 1 negative triangles 879: dt=0.0433, 1 negative triangles 880: dt=0.0433, 1 negative triangles 881: dt=0.0433, 1 negative triangles 882: dt=0.0412, 1 negative triangles 883: dt=0.0412, 1 negative triangles 884: dt=0.0412, 1 negative triangles 885: dt=0.0412, 1 negative triangles 886: dt=0.0412, 1 negative triangles 887: dt=0.0412, 1 negative triangles 888: dt=0.0412, 1 negative triangles 889: dt=0.0412, 1 negative triangles 890: dt=0.0412, 1 negative triangles 891: dt=0.0412, 1 negative triangles 892: dt=0.0391, 1 negative triangles 893: dt=0.0391, 1 negative triangles 894: dt=0.0391, 1 negative triangles 895: dt=0.0391, 1 negative triangles 896: dt=0.0391, 1 negative triangles 897: dt=0.0391, 1 negative triangles 898: dt=0.0391, 1 negative triangles 899: dt=0.0391, 1 negative triangles 900: dt=0.0391, 1 negative triangles 901: dt=0.0391, 1 negative triangles 902: dt=0.0371, 1 negative triangles 903: dt=0.0371, 1 negative triangles 904: dt=0.0371, 1 negative triangles 905: dt=0.0371, 1 negative triangles 906: dt=0.0371, 1 negative triangles 907: dt=0.0371, 1 negative triangles 908: dt=0.0371, 1 negative triangles 909: dt=0.0371, 1 negative triangles 910: dt=0.0371, 1 negative triangles 911: dt=0.0371, 1 negative triangles 912: dt=0.0353, 1 negative triangles 913: dt=0.0353, 1 negative triangles 914: dt=0.0353, 1 negative triangles 915: dt=0.0353, 1 negative triangles 916: dt=0.0353, 1 negative triangles 917: dt=0.0353, 1 negative triangles 918: dt=0.0353, 1 negative triangles 919: dt=0.0353, 1 negative triangles 920: dt=0.0353, 1 negative triangles 921: dt=0.0353, 1 negative triangles 922: dt=0.0335, 1 negative triangles 923: dt=0.0335, 1 negative triangles 924: dt=0.0335, 1 negative triangles 925: dt=0.0335, 1 negative triangles 926: dt=0.0335, 1 negative triangles 927: dt=0.0335, 1 negative triangles 928: dt=0.0335, 1 negative triangles 929: dt=0.0335, 1 negative triangles 930: dt=0.0335, 1 negative triangles 931: dt=0.0335, 1 negative triangles 932: dt=0.0319, 1 negative triangles 933: dt=0.0319, 1 negative triangles 934: dt=0.0319, 1 negative triangles 935: dt=0.0319, 1 negative triangles 936: dt=0.0319, 1 negative triangles 937: dt=0.0319, 1 negative triangles 938: dt=0.0319, 1 negative triangles 939: dt=0.0319, 1 negative triangles 940: dt=0.0319, 1 negative triangles 941: dt=0.0319, 1 negative triangles 942: dt=0.0303, 1 negative triangles 943: dt=0.0303, 1 negative triangles 944: dt=0.0303, 1 negative triangles 945: dt=0.0303, 1 negative triangles 946: dt=0.0303, 1 negative triangles 947: dt=0.0303, 1 negative triangles 948: dt=0.0303, 1 negative triangles 949: dt=0.0303, 1 negative triangles 950: dt=0.0303, 1 negative triangles 951: dt=0.0303, 1 negative triangles 952: dt=0.0287, 1 negative triangles 953: dt=0.0287, 1 negative triangles 954: dt=0.0287, 1 negative triangles 955: dt=0.0287, 1 negative triangles 956: dt=0.0287, 1 negative triangles 957: dt=0.0287, 1 negative triangles 958: dt=0.0287, 1 negative triangles 959: dt=0.0287, 1 negative triangles 960: dt=0.0287, 1 negative triangles 961: dt=0.0287, 1 negative triangles 962: dt=0.0273, 1 negative triangles 963: dt=0.0273, 1 negative triangles 964: dt=0.0273, 1 negative triangles 965: dt=0.0273, 1 negative triangles 966: dt=0.0273, 1 negative triangles 967: dt=0.0273, 1 negative triangles 968: dt=0.0273, 1 negative triangles 969: dt=0.0273, 1 negative triangles 970: dt=0.0273, 1 negative triangles 971: dt=0.0273, 1 negative triangles 972: dt=0.0259, 1 negative triangles 973: dt=0.0259, 1 negative triangles 974: dt=0.0259, 1 negative triangles 975: dt=0.0259, 1 negative triangles 976: dt=0.0259, 1 negative triangles 977: dt=0.0259, 1 negative triangles 978: dt=0.0259, 1 negative triangles 979: dt=0.0259, 1 negative triangles 980: dt=0.0259, 1 negative triangles 981: dt=0.0259, 1 negative triangles 982: dt=0.0246, 1 negative triangles 983: dt=0.0246, 1 negative triangles 984: dt=0.0246, 1 negative triangles 985: dt=0.0246, 1 negative triangles 986: dt=0.0246, 1 negative triangles 987: dt=0.0246, 1 negative triangles 988: dt=0.0246, 1 negative triangles 989: dt=0.0246, 1 negative triangles 990: dt=0.0246, 1 negative triangles 991: dt=0.0246, 1 negative triangles 992: dt=0.0234, 1 negative triangles 993: dt=0.0234, 1 negative triangles 994: dt=0.0234, 1 negative triangles 995: dt=0.0234, 1 negative triangles 996: dt=0.0234, 1 negative triangles 997: dt=0.0234, 1 negative triangles 998: dt=0.0234, 1 negative triangles 999: dt=0.0234, 1 negative triangles 1000: dt=0.0234, 1 negative triangles 1001: dt=0.0234, 1 negative triangles 1002: dt=0.0222, 1 negative triangles 1003: dt=0.0222, 1 negative triangles 1004: dt=0.0222, 1 negative triangles 1005: dt=0.0222, 1 negative triangles 1006: dt=0.0222, 1 negative triangles 1007: dt=0.0222, 1 negative triangles 1008: dt=0.0222, 1 negative triangles 1009: dt=0.0222, 1 negative triangles 1010: dt=0.0222, 1 negative triangles 1011: dt=0.0222, 1 negative triangles 1012: dt=0.0211, 1 negative triangles 1013: dt=0.0211, 1 negative triangles 1014: dt=0.0211, 1 negative triangles 1015: dt=0.0211, 1 negative triangles 1016: dt=0.0211, 1 negative triangles 1017: dt=0.0211, 1 negative triangles 1018: dt=0.0211, 1 negative triangles 1019: dt=0.0211, 1 negative triangles 1020: dt=0.0211, 1 negative triangles 1021: dt=0.0211, 1 negative triangles 1022: dt=0.0201, 1 negative triangles 1023: dt=0.0201, 1 negative triangles 1024: dt=0.0201, 1 negative triangles 1025: dt=0.0201, 1 negative triangles 1026: dt=0.0201, 1 negative triangles 1027: dt=0.0201, 1 negative triangles 1028: dt=0.0201, 1 negative triangles 1029: dt=0.0201, 1 negative triangles 1030: dt=0.0201, 1 negative triangles 1031: dt=0.0201, 1 negative triangles 1032: dt=0.0191, 1 negative triangles 1033: dt=0.0191, 1 negative triangles 1034: dt=0.0191, 1 negative triangles 1035: dt=0.0191, 1 negative triangles 1036: dt=0.0191, 1 negative triangles 1037: dt=0.0191, 1 negative triangles 1038: dt=0.0191, 1 negative triangles 1039: dt=0.0191, 1 negative triangles 1040: dt=0.0191, 1 negative triangles 1041: dt=0.0191, 1 negative triangles 1042: dt=0.0181, 1 negative triangles 1043: dt=0.0181, 1 negative triangles 1044: dt=0.0181, 1 negative triangles 1045: dt=0.0181, 1 negative triangles 1046: dt=0.0181, 1 negative triangles 1047: dt=0.0181, 1 negative triangles 1048: dt=0.0181, 1 negative triangles 1049: dt=0.0181, 1 negative triangles 1050: dt=0.0181, 1 negative triangles 1051: dt=0.0181, 1 negative triangles 1052: dt=0.0172, 1 negative triangles 1053: dt=0.0172, 1 negative triangles 1054: dt=0.0172, 1 negative triangles 1055: dt=0.0172, 1 negative triangles 1056: dt=0.0172, 1 negative triangles 1057: dt=0.0172, 1 negative triangles 1058: dt=0.0172, 1 negative triangles 1059: dt=0.0172, 1 negative triangles 1060: dt=0.0172, 1 negative triangles 1061: dt=0.0172, 1 negative triangles 1062: dt=0.0164, 1 negative triangles 1063: dt=0.0164, 1 negative triangles 1064: dt=0.0164, 1 negative triangles 1065: dt=0.0164, 1 negative triangles 1066: dt=0.0164, 1 negative triangles 1067: dt=0.0164, 1 negative triangles 1068: dt=0.0164, 1 negative triangles 1069: dt=0.0164, 1 negative triangles 1070: dt=0.0164, 1 negative triangles 1071: dt=0.0164, 1 negative triangles 1072: dt=0.0155, 1 negative triangles 1073: dt=0.0155, 1 negative triangles 1074: dt=0.0155, 1 negative triangles 1075: dt=0.0155, 1 negative triangles 1076: dt=0.0155, 1 negative triangles 1077: dt=0.0155, 1 negative triangles 1078: dt=0.0155, 1 negative triangles 1079: dt=0.0155, 1 negative triangles 1080: dt=0.0155, 1 negative triangles 1081: dt=0.0155, 1 negative triangles 1082: dt=0.0148, 1 negative triangles 1083: dt=0.0148, 1 negative triangles 1084: dt=0.0148, 1 negative triangles 1085: dt=0.0148, 1 negative triangles 1086: dt=0.0148, 1 negative triangles 1087: dt=0.0148, 1 negative triangles 1088: dt=0.0148, 1 negative triangles 1089: dt=0.0148, 1 negative triangles 1090: dt=0.0148, 1 negative triangles 1091: dt=0.0148, 1 negative triangles 1092: dt=0.0140, 1 negative triangles 1093: dt=0.0140, 1 negative triangles 1094: dt=0.0140, 1 negative triangles 1095: dt=0.0140, 1 negative triangles 1096: dt=0.0140, 1 negative triangles 1097: dt=0.0140, 1 negative triangles 1098: dt=0.0140, 1 negative triangles 1099: dt=0.0140, 1 negative triangles 1100: dt=0.0140, 1 negative triangles 1101: dt=0.0140, 1 negative triangles 1102: dt=0.0133, 1 negative triangles 1103: dt=0.0133, 1 negative triangles 1104: dt=0.0133, 1 negative triangles 1105: dt=0.0133, 1 negative triangles 1106: dt=0.0133, 1 negative triangles 1107: dt=0.0133, 1 negative triangles 1108: dt=0.0133, 1 negative triangles 1109: dt=0.0133, 1 negative triangles 1110: dt=0.0133, 1 negative triangles 1111: dt=0.0133, 1 negative triangles 1112: dt=0.0127, 1 negative triangles 1113: dt=0.0127, 1 negative triangles 1114: dt=0.0127, 1 negative triangles 1115: dt=0.0127, 1 negative triangles 1116: dt=0.0127, 1 negative triangles 1117: dt=0.0127, 1 negative triangles 1118: dt=0.0127, 1 negative triangles 1119: dt=0.0127, 1 negative triangles 1120: dt=0.0127, 1 negative triangles 1121: dt=0.0127, 1 negative triangles 1122: dt=0.0120, 1 negative triangles 1123: dt=0.0120, 1 negative triangles 1124: dt=0.0120, 1 negative triangles 1125: dt=0.0120, 1 negative triangles 1126: dt=0.0120, 1 negative triangles 1127: dt=0.0120, 1 negative triangles 1128: dt=0.0120, 1 negative triangles 1129: dt=0.0120, 1 negative triangles 1130: dt=0.0120, 1 negative triangles 1131: dt=0.0120, 1 negative triangles 1132: dt=0.0114, 1 negative triangles 1133: dt=0.0114, 1 negative triangles 1134: dt=0.0114, 1 negative triangles 1135: dt=0.0114, 1 negative triangles 1136: dt=0.0114, 1 negative triangles 1137: dt=0.0114, 1 negative triangles 1138: dt=0.0114, 1 negative triangles writing registered surface to ../surf/lh.sphere.reg... 1139: dt=0.0114, 1 negative triangles 1140: 1 negative triangles registration took 0.91 hours mris_register utimesec 3280.558279 mris_register stimesec 0.581911 mris_register ru_maxrss 194004 mris_register ru_ixrss 0 mris_register ru_idrss 0 mris_register ru_isrss 0 mris_register ru_minflt 25144 mris_register ru_majflt 0 mris_register ru_nswap 0 mris_register ru_inblock 0 mris_register ru_oublock 7600 mris_register ru_msgsnd 0 mris_register ru_msgrcv 0 mris_register ru_nsignals 0 mris_register ru_nvcsw 6 mris_register ru_nivcsw 3857 FSRUNTIME@ mris_register 0.9123 hours 1 threads #-------------------------------------------- #@# Surf Reg rh Fri Dec 18 06:53:18 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_register -curv -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /export/apps/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg using smoothwm curvature for final alignment cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts cmdline mris_register -curv -rusage /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /export/apps/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading surface from ../surf/rh.sphere... reading template parameterization from /export/apps/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=clust, 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=clust, 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 = 3.426 curvature mean = 0.035, std = 0.818 curvature mean = -0.005, std = 0.856 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (0.00, 0.00, 16.00) sse = 340197.1, tmin=0.6438 d=32.00 min @ (0.00, -8.00, -8.00) sse = 326633.6, tmin=1.3024 d=16.00 min @ (4.00, 0.00, 0.00) sse = 322031.0, tmin=1.9711 d=8.00 min @ (0.00, 0.00, 2.00) sse = 320268.5, tmin=2.6446 d=2.00 min @ (0.00, 0.50, 0.00) sse = 320170.9, tmin=3.9957 d=1.00 min @ (-0.25, 0.00, 0.25) sse = 320143.4, tmin=4.6721 d=0.50 min @ (0.12, 0.12, 0.12) sse = 320135.4, tmin=5.3570 tol=1.0e+00, sigma=0.5, host=clust, 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 5.36 min curvature mean = -0.015, std = 0.802 curvature mean = 0.002, std = 0.931 curvature mean = -0.023, std = 0.810 curvature mean = 0.002, std = 0.967 curvature mean = -0.023, std = 0.813 curvature mean = 0.001, std = 0.983 2 Reading smoothwm curvature mean = 0.010, std = 0.507 curvature mean = 0.037, std = 0.240 curvature mean = -0.049, std = 0.164 curvature mean = 0.042, std = 0.293 curvature mean = -0.043, std = 0.243 curvature mean = 0.043, std = 0.316 curvature mean = -0.028, std = 0.341 curvature mean = 0.044, std = 0.327 curvature mean = -0.011, std = 0.491 MRISregister() return, current seed 0 -01: dt=0.0000, 527 negative triangles 134: dt=0.9900, 527 negative triangles expanding nbhd size to 1 135: dt=0.9900, 646 negative triangles 136: dt=0.9900, 533 negative triangles 137: dt=0.9900, 523 negative triangles 138: dt=0.9900, 516 negative triangles 139: dt=0.9900, 521 negative triangles 140: dt=0.9900, 513 negative triangles 141: dt=0.9900, 494 negative triangles 142: dt=0.9900, 496 negative triangles 143: dt=0.9900, 474 negative triangles 144: dt=0.9900, 451 negative triangles 145: dt=0.9900, 436 negative triangles 146: dt=0.9900, 436 negative triangles 147: dt=0.9900, 424 negative triangles 148: dt=0.9900, 406 negative triangles 149: dt=0.9900, 381 negative triangles 150: dt=0.9900, 378 negative triangles 151: dt=0.9900, 371 negative triangles 152: dt=0.9900, 352 negative triangles 153: dt=0.9900, 346 negative triangles 154: dt=0.9900, 332 negative triangles 155: dt=0.9900, 327 negative triangles 156: dt=0.9900, 321 negative triangles 157: dt=0.9900, 304 negative triangles 158: dt=0.9900, 288 negative triangles 159: dt=0.9900, 272 negative triangles 160: dt=0.9900, 277 negative triangles 161: dt=0.9900, 268 negative triangles 162: dt=0.9900, 268 negative triangles 163: dt=0.9900, 258 negative triangles 164: dt=0.9900, 249 negative triangles 165: dt=0.9900, 232 negative triangles 166: dt=0.9900, 233 negative triangles 167: dt=0.9900, 217 negative triangles 168: dt=0.9900, 216 negative triangles 169: dt=0.9900, 219 negative triangles 170: dt=0.9900, 217 negative triangles 171: dt=0.9900, 204 negative triangles 172: dt=0.9900, 192 negative triangles 173: dt=0.9900, 182 negative triangles 174: dt=0.9900, 182 negative triangles 175: dt=0.9900, 178 negative triangles 176: dt=0.9900, 176 negative triangles 177: dt=0.9900, 167 negative triangles 178: dt=0.9900, 169 negative triangles 179: dt=0.9900, 160 negative triangles 180: dt=0.9900, 169 negative triangles 181: dt=0.9900, 154 negative triangles 182: dt=0.9900, 151 negative triangles 183: dt=0.9900, 145 negative triangles 184: dt=0.9900, 143 negative triangles 185: dt=0.9900, 143 negative triangles 186: dt=0.9900, 147 negative triangles 187: dt=0.9900, 139 negative triangles 188: dt=0.9900, 139 negative triangles 189: dt=0.9900, 135 negative triangles 190: dt=0.9900, 135 negative triangles 191: dt=0.9900, 132 negative triangles 192: dt=0.9900, 132 negative triangles 193: dt=0.9900, 126 negative triangles 194: dt=0.9900, 123 negative triangles 195: dt=0.9900, 123 negative triangles 196: dt=0.9900, 127 negative triangles 197: dt=0.9900, 122 negative triangles 198: dt=0.9900, 120 negative triangles 199: dt=0.9900, 113 negative triangles 200: dt=0.9900, 116 negative triangles 201: dt=0.9900, 118 negative triangles 202: dt=0.9900, 116 negative triangles 203: dt=0.9900, 110 negative triangles 204: dt=0.9900, 108 negative triangles 205: dt=0.9900, 105 negative triangles 206: dt=0.9900, 110 negative triangles 207: dt=0.9900, 104 negative triangles 208: dt=0.9900, 105 negative triangles 209: dt=0.9900, 103 negative triangles 210: dt=0.9900, 102 negative triangles 211: dt=0.9900, 97 negative triangles 212: dt=0.9900, 96 negative triangles 213: dt=0.9900, 96 negative triangles 214: dt=0.9900, 99 negative triangles 215: dt=0.9900, 99 negative triangles 216: dt=0.9900, 94 negative triangles 217: dt=0.9900, 90 negative triangles 218: dt=0.9900, 92 negative triangles 219: dt=0.9900, 91 negative triangles 220: dt=0.9900, 87 negative triangles 221: dt=0.9900, 83 negative triangles 222: dt=0.9900, 85 negative triangles 223: dt=0.9900, 81 negative triangles 224: dt=0.9900, 83 negative triangles 225: dt=0.9900, 82 negative triangles 226: dt=0.9900, 79 negative triangles 227: dt=0.9900, 75 negative triangles 228: dt=0.9900, 77 negative triangles 229: dt=0.9900, 77 negative triangles 230: dt=0.9900, 74 negative triangles 231: dt=0.9900, 73 negative triangles 232: dt=0.9900, 69 negative triangles 233: dt=0.9900, 64 negative triangles 234: dt=0.9900, 67 negative triangles 235: dt=0.9900, 66 negative triangles 236: dt=0.9900, 64 negative triangles 237: dt=0.9900, 69 negative triangles 238: dt=0.9900, 66 negative triangles 239: dt=0.9900, 63 negative triangles 240: dt=0.9900, 61 negative triangles 241: dt=0.9900, 61 negative triangles 242: dt=0.9900, 56 negative triangles 243: dt=0.9900, 61 negative triangles 244: dt=0.9900, 57 negative triangles 245: dt=0.9900, 57 negative triangles 246: dt=0.9900, 54 negative triangles 247: dt=0.9900, 54 negative triangles 248: dt=0.9900, 53 negative triangles 249: dt=0.9900, 55 negative triangles 250: dt=0.9900, 52 negative triangles 251: dt=0.9900, 52 negative triangles 252: dt=0.9900, 55 negative triangles 253: dt=0.9900, 53 negative triangles 254: dt=0.9900, 52 negative triangles 255: dt=0.9900, 49 negative triangles 256: dt=0.9900, 51 negative triangles 257: dt=0.9900, 47 negative triangles 258: dt=0.9900, 46 negative triangles 259: dt=0.9900, 45 negative triangles 260: dt=0.9900, 45 negative triangles 261: dt=0.9900, 47 negative triangles 262: dt=0.9900, 47 negative triangles 263: dt=0.9900, 47 negative triangles 264: dt=0.9900, 48 negative triangles 265: dt=0.9900, 45 negative triangles 266: dt=0.9900, 43 negative triangles 267: dt=0.9900, 43 negative triangles 268: dt=0.9900, 42 negative triangles 269: dt=0.9900, 41 negative triangles 270: dt=0.9900, 39 negative triangles 271: dt=0.9900, 39 negative triangles 272: dt=0.9900, 38 negative triangles 273: dt=0.9900, 37 negative triangles 274: dt=0.9900, 35 negative triangles 275: dt=0.9900, 35 negative triangles 276: dt=0.9900, 33 negative triangles 277: dt=0.9900, 35 negative triangles 278: dt=0.9900, 31 negative triangles 279: dt=0.9900, 27 negative triangles 280: dt=0.9900, 24 negative triangles 281: dt=0.9900, 22 negative triangles 282: dt=0.9900, 21 negative triangles 283: dt=0.9900, 16 negative triangles 284: dt=0.9900, 16 negative triangles 285: dt=0.9900, 15 negative triangles 286: dt=0.9900, 15 negative triangles 287: dt=0.9900, 11 negative triangles 288: dt=0.9900, 10 negative triangles 289: dt=0.9900, 10 negative triangles 290: dt=0.9900, 12 negative triangles 291: dt=0.9900, 14 negative triangles 292: dt=0.9900, 15 negative triangles 293: dt=0.9900, 14 negative triangles 294: dt=0.9900, 9 negative triangles 295: dt=0.9900, 7 negative triangles 296: dt=0.9900, 5 negative triangles 297: dt=0.9900, 4 negative triangles 298: dt=0.9900, 6 negative triangles 299: dt=0.9900, 4 negative triangles 300: dt=0.9900, 4 negative triangles 301: dt=0.9900, 3 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.76 hours mris_register utimesec 2747.187364 mris_register stimesec 0.569913 mris_register ru_maxrss 191160 mris_register ru_ixrss 0 mris_register ru_idrss 0 mris_register ru_isrss 0 mris_register ru_minflt 24937 mris_register ru_majflt 0 mris_register ru_nswap 0 mris_register ru_inblock 0 mris_register ru_oublock 7448 mris_register ru_msgsnd 0 mris_register ru_msgrcv 0 mris_register ru_nsignals 0 mris_register ru_nvcsw 0 mris_register ru_nivcsw 3040 FSRUNTIME@ mris_register 0.7640 hours 1 threads #-------------------------------------------- #@# Jacobian white lh Fri Dec 18 07:39:08 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white #-------------------------------------------- #@# Jacobian white rh Fri Dec 18 07:39:10 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white #-------------------------------------------- #@# AvgCurv lh Fri Dec 18 07:39:11 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mrisp_paint -a 5 /export/apps/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /export/apps/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... #-------------------------------------------- #@# AvgCurv rh Fri Dec 18 07:39:12 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mrisp_paint -a 5 /export/apps/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /export/apps/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... #----------------------------------------- #@# Cortical Parc lh Fri Dec 18 07:39:13 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh ../surf/lh.sphere.reg /export/apps/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /export/apps/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 2220 labels changed using aseg relabeling using gibbs priors... 000: 2809 changed, 107884 examined... 001: 737 changed, 12099 examined... 002: 182 changed, 3964 examined... 003: 60 changed, 1039 examined... 004: 34 changed, 356 examined... 005: 9 changed, 196 examined... 006: 6 changed, 59 examined... 007: 6 changed, 33 examined... 008: 2 changed, 26 examined... 009: 0 changed, 8 examined... 261 labels changed using aseg 000: 131 total segments, 72 labels (685 vertices) changed 001: 66 total segments, 12 labels (13 vertices) changed 002: 53 total segments, 2 labels (5 vertices) changed 003: 51 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 13 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 3919 vertices marked for relabeling... 3919 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 9 seconds. #----------------------------------------- #@# Cortical Parc rh Fri Dec 18 07:39:22 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh ../surf/rh.sphere.reg /export/apps/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /export/apps/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.004 0 singular and 309 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1983 labels changed using aseg relabeling using gibbs priors... 000: 2596 changed, 105809 examined... 001: 650 changed, 11265 examined... 002: 162 changed, 3611 examined... 003: 57 changed, 989 examined... 004: 18 changed, 319 examined... 005: 6 changed, 118 examined... 006: 3 changed, 37 examined... 007: 1 changed, 18 examined... 008: 0 changed, 7 examined... 189 labels changed using aseg 000: 113 total segments, 73 labels (596 vertices) changed 001: 47 total segments, 8 labels (17 vertices) changed 002: 39 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 7 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 4214 vertices marked for relabeling... 4214 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 8 seconds. #-------------------------------------------- #@# Make Pial Surf lh Fri Dec 18 07:39:30 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh using white.preaparc starting white location... using white.preaparc starting pial locations... using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/filled.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/brain.finalsurfs.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/../mri/aseg.presurf.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... 9003 bright wm thresholded. 1549 bright non-wm voxels segmented. reading original surface position from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.orig... computing class statistics... border white: 350087 voxels (2.09%) border gray 258529 voxels (1.54%) WM (96.0): 96.6 +- 8.2 [70.0 --> 110.0] GM (68.0) : 67.2 +- 14.8 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 46.2 (was 70) setting MAX_BORDER_WHITE to 114.2 (was 105) setting MIN_BORDER_WHITE to 61.0 (was 85) setting MAX_CSF to 31.5 (was 40) setting MAX_GRAY to 97.8 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 46.2 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 16.7 (was 40) using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=106+-7.8, GM=61+-13.0 mean inside = 93.4, mean outside = 70.7 smoothing surface for 5 iterations... reading initial white vertex positions from white.preaparc... reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.91 +- 0.31 (0.03-->9.62) (max @ vno 77067 --> 103404) face area 0.34 +- 0.21 (0.00-->7.80) mean absolute distance = 0.76 +- 1.25 3404 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group deleting segment 0 with 4 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 1 with 4 points - only 0.00% unknown deleting segment 3 with 13 points - only 7.69% unknown removing 3 vertex label from ripped group deleting segment 4 with 3 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 5 with 3 points - only 0.00% unknown mean border=87.5, 767 (765) missing vertices, mean dist -0.3 [0.8 (%63.2)->0.6 (%36.8))] %69 local maxima, %25 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.92 +- 0.32 (0.04-->9.42) (max @ vno 77067 --> 103404) face area 0.34 +- 0.21 (0.00-->8.17) mean absolute distance = 0.55 +- 1.06 4580 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1980363.6, rms=8.372 001: dt: 0.5000, sse=1237369.4, rms=5.798 (30.746%) 002: dt: 0.5000, sse=1070712.8, rms=5.077 (12.426%) 003: dt: 0.5000, sse=1044684.8, rms=4.905 (3.390%) 004: dt: 0.5000, sse=997834.8, rms=4.715 (3.881%) rms = 4.68, time step reduction 1 of 3 to 0.250... 005: dt: 0.5000, sse=991123.5, rms=4.677 (0.794%) 006: dt: 0.2500, sse=792431.5, rms=3.400 (27.310%) 007: dt: 0.2500, sse=756613.5, rms=3.099 (8.864%) 008: dt: 0.2500, sse=752553.3, rms=3.028 (2.269%) 009: dt: 0.2500, sse=760878.1, rms=2.968 (1.991%) rms = 2.95, time step reduction 2 of 3 to 0.125... 010: dt: 0.2500, sse=730735.8, rms=2.945 (0.762%) 011: dt: 0.1250, sse=719650.6, rms=2.848 (3.318%) rms = 2.83, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=714360.6, rms=2.832 (0.569%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 9 points - only 0.00% unknown deleting segment 1 with 20 points - only 35.00% unknown deleting segment 2 with 13 points - only 7.69% unknown removing 4 vertex label from ripped group deleting segment 3 with 4 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 4 with 3 points - only 0.00% unknown mean border=86.6, 846 (373) missing vertices, mean dist -0.2 [0.9 (%40.6)->0.3 (%59.4))] %75 local maxima, %19 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=clust, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.92 +- 0.32 (0.05-->9.30) (max @ vno 77067 --> 103404) face area 0.35 +- 0.22 (0.00-->8.64) mean absolute distance = 0.45 +- 0.82 4477 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1142426.1, rms=5.301 013: dt: 0.5000, sse=915258.6, rms=4.022 (24.124%) rms = 4.15, time step reduction 1 of 3 to 0.250... 014: dt: 0.2500, sse=778810.8, rms=3.106 (22.774%) 015: dt: 0.2500, sse=741535.9, rms=2.648 (14.740%) 016: dt: 0.2500, sse=718247.4, rms=2.491 (5.922%) 017: dt: 0.2500, sse=712300.8, rms=2.429 (2.508%) rms = 2.39, time step reduction 2 of 3 to 0.125... 018: dt: 0.2500, sse=693602.0, rms=2.389 (1.656%) 019: dt: 0.1250, sse=684388.9, rms=2.280 (4.527%) rms = 2.26, time step reduction 3 of 3 to 0.062... 020: dt: 0.1250, sse=677978.3, rms=2.263 (0.748%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 20 points - only 35.00% unknown deleting segment 1 with 13 points - only 7.69% unknown removing 4 vertex label from ripped group deleting segment 2 with 4 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 3 with 3 points - only 0.00% unknown mean border=85.9, 937 (277) missing vertices, mean dist -0.2 [0.8 (%39.9)->0.2 (%60.1))] %80 local maxima, %14 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=clust, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.91 +- 0.32 (0.05-->9.24) (max @ vno 77067 --> 103404) face area 0.35 +- 0.22 (0.00-->8.65) mean absolute distance = 0.37 +- 0.65 3907 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=831030.1, rms=3.608 rms = 3.79, time step reduction 1 of 3 to 0.250... 021: dt: 0.2500, sse=732389.8, rms=2.863 (20.641%) 022: dt: 0.2500, sse=696349.2, rms=2.376 (17.009%) 023: dt: 0.2500, sse=687917.6, rms=2.247 (5.432%) 024: dt: 0.2500, sse=675048.9, rms=2.145 (4.522%) rms = 2.13, time step reduction 2 of 3 to 0.125... 025: dt: 0.2500, sse=665367.1, rms=2.131 (0.676%) 026: dt: 0.1250, sse=653148.9, rms=2.014 (5.483%) rms = 1.99, time step reduction 3 of 3 to 0.062... 027: dt: 0.1250, sse=654552.4, rms=1.993 (1.034%) positioning took 0.5 minutes inhibiting deformation at non-cortical midline structures... deleting segment 1 with 20 points - only 35.00% unknown deleting segment 2 with 13 points - only 7.69% unknown removing 4 vertex label from ripped group deleting segment 3 with 4 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 4 with 3 points - only 0.00% unknown mean border=85.3, 1005 (228) missing vertices, mean dist -0.1 [0.5 (%44.8)->0.2 (%55.2))] %82 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=clust, 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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=695219.2, rms=2.484 rms = 2.79, time step reduction 1 of 3 to 0.250... 028: dt: 0.2500, sse=643727.6, rms=1.989 (19.926%) 029: dt: 0.2500, sse=659529.1, rms=1.734 (12.832%) rms = 1.69, time step reduction 2 of 3 to 0.125... 030: dt: 0.2500, sse=620241.4, rms=1.688 (2.641%) 031: dt: 0.1250, sse=610679.9, rms=1.593 (5.618%) rms = 1.55, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=607167.3, rms=1.555 (2.380%) positioning took 0.4 minutes generating cortex label... 4 non-cortical segments detected only using segment with 5755 vertices erasing segment 1 (vno[0] = 41649) erasing segment 2 (vno[0] = 44122) erasing segment 3 (vno[0] = 61779) writing cortex label to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.cortex.label... writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.curv writing smoothed area to lh.area writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.area vertex spacing 0.91 +- 0.32 (0.03-->9.12) (max @ vno 77067 --> 103404) face area 0.35 +- 0.22 (0.00-->8.19) repositioning cortical surface to gray/csf boundary. smoothing T1 volume with sigma = 2.000 averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 1 vertex label from ripped group deleting segment 1 with 1 points - only 0.00% unknown deleting segment 2 with 32 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 3 with 1 points - only 0.00% unknown deleting segment 4 with 46 points - only 0.00% unknown smoothing surface for 5 iterations... reading initial pial vertex positions from white.preaparc... mean border=52.4, 873 (873) missing vertices, mean dist 1.1 [0.0 (%0.0)->2.9 (%100.0))] %11 local maxima, %24 large gradients and %59 min vals, 92 gradients ignored perforing initial smooth deformation to move away from white surface tol=1.0e-04, sigma=2.0, host=clust, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=27713554.0, rms=36.650 001: dt: 0.0500, sse=24461718.0, rms=34.385 (6.179%) 002: dt: 0.0500, sse=22155660.0, rms=32.684 (4.947%) 003: dt: 0.0500, sse=20366912.0, rms=31.301 (4.233%) 004: dt: 0.0500, sse=18887868.0, rms=30.109 (3.808%) 005: dt: 0.0500, sse=17618918.0, rms=29.047 (3.526%) 006: dt: 0.0500, sse=16494980.0, rms=28.073 (3.353%) 007: dt: 0.0500, sse=15478825.0, rms=27.162 (3.244%) 008: dt: 0.0500, sse=14548187.0, rms=26.301 (3.172%) 009: dt: 0.0500, sse=13686013.0, rms=25.476 (3.134%) 010: dt: 0.0500, sse=12881746.0, rms=24.683 (3.116%) positioning took 0.6 minutes mean border=52.0, 1135 (678) missing vertices, mean dist 0.9 [0.2 (%0.1)->2.3 (%99.9))] %10 local maxima, %24 large gradients and %59 min vals, 84 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=14534497.0, rms=26.265 011: dt: 0.0500, sse=13749529.0, rms=25.516 (2.852%) 012: dt: 0.0500, sse=13014096.0, rms=24.793 (2.831%) 013: dt: 0.0500, sse=12322800.0, rms=24.095 (2.818%) 014: dt: 0.0500, sse=11673620.0, rms=23.420 (2.802%) 015: dt: 0.0500, sse=11065189.0, rms=22.769 (2.779%) 016: dt: 0.0500, sse=10497050.0, rms=22.144 (2.745%) 017: dt: 0.0500, sse=9968885.0, rms=21.546 (2.698%) 018: dt: 0.0500, sse=9481325.0, rms=20.980 (2.630%) 019: dt: 0.0500, sse=9032045.0, rms=20.443 (2.555%) 020: dt: 0.0500, sse=8623018.0, rms=19.943 (2.449%) positioning took 0.6 minutes mean border=51.5, 1654 (599) missing vertices, mean dist 0.7 [0.1 (%2.8)->1.9 (%97.2))] %10 local maxima, %24 large gradients and %59 min vals, 79 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=8796200.0, rms=20.146 021: dt: 0.0500, sse=8377750.5, rms=19.627 (2.580%) 022: dt: 0.0500, sse=7997129.5, rms=19.142 (2.471%) 023: dt: 0.0500, sse=7637309.5, rms=18.672 (2.455%) 024: dt: 0.0500, sse=7311396.0, rms=18.236 (2.335%) 025: dt: 0.0500, sse=7021610.5, rms=17.839 (2.175%) 026: dt: 0.0500, sse=6766018.0, rms=17.482 (2.004%) 027: dt: 0.0500, sse=6526166.5, rms=17.139 (1.957%) 028: dt: 0.0500, sse=6302228.5, rms=16.814 (1.901%) 029: dt: 0.0500, sse=6094903.5, rms=16.506 (1.828%) 030: dt: 0.0500, sse=5902344.5, rms=16.216 (1.761%) positioning took 0.7 minutes mean border=51.4, 2160 (557) missing vertices, mean dist 0.5 [0.1 (%22.2)->1.9 (%77.8))] %10 local maxima, %24 large gradients and %59 min vals, 71 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, 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=6012063.0, rms=16.368 031: dt: 0.5000, sse=4980914.0, rms=14.746 (9.909%) 032: dt: 0.5000, sse=4290420.5, rms=13.533 (8.227%) 033: dt: 0.5000, sse=3750989.5, rms=12.521 (7.476%) 034: dt: 0.5000, sse=3275534.5, rms=11.536 (7.867%) 035: dt: 0.5000, sse=2899697.8, rms=10.713 (7.138%) 036: dt: 0.5000, sse=2582440.0, rms=9.944 (7.179%) 037: dt: 0.5000, sse=2370817.5, rms=9.414 (5.325%) 038: dt: 0.5000, sse=2205164.5, rms=8.956 (4.867%) 039: dt: 0.5000, sse=2106986.8, rms=8.691 (2.961%) 040: dt: 0.5000, sse=2022693.2, rms=8.433 (2.970%) 041: dt: 0.5000, sse=1975909.4, rms=8.305 (1.517%) 042: dt: 0.5000, sse=1923449.8, rms=8.131 (2.087%) 043: dt: 0.5000, sse=1899446.9, rms=8.069 (0.764%) 044: dt: 0.5000, sse=1866359.0, rms=7.953 (1.434%) rms = 7.94, time step reduction 1 of 3 to 0.250... 045: dt: 0.5000, sse=1859481.5, rms=7.943 (0.134%) 046: dt: 0.2500, sse=1713833.5, rms=7.433 (6.424%) 047: dt: 0.2500, sse=1644882.0, rms=7.208 (3.015%) rms = 7.30, time step reduction 2 of 3 to 0.125... 048: dt: 0.1250, sse=1615941.5, rms=7.103 (1.457%) 049: dt: 0.1250, sse=1583424.0, rms=6.981 (1.725%) rms = 6.97, time step reduction 3 of 3 to 0.062... 050: dt: 0.1250, sse=1579759.9, rms=6.966 (0.214%) positioning took 1.9 minutes mean border=49.5, 10165 (405) missing vertices, mean dist 0.2 [0.1 (%44.3)->1.0 (%55.7))] %12 local maxima, %21 large gradients and %52 min vals, 73 gradients ignored tol=1.0e-04, sigma=1.0, host=clust, 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=1825367.6, rms=7.597 051: dt: 0.5000, sse=1678652.2, rms=7.130 (6.152%) rms = 7.11, time step reduction 1 of 3 to 0.250... 052: dt: 0.5000, sse=1666746.1, rms=7.106 (0.329%) 053: dt: 0.2500, sse=1466253.5, rms=6.329 (10.935%) 054: dt: 0.2500, sse=1440960.0, rms=6.233 (1.524%) rms = 6.29, time step reduction 2 of 3 to 0.125... 055: dt: 0.1250, sse=1395032.9, rms=6.040 (3.094%) 056: dt: 0.1250, sse=1337247.8, rms=5.787 (4.183%) 057: dt: 0.1250, sse=1324986.0, rms=5.734 (0.919%) rms = 5.71, time step reduction 3 of 3 to 0.062... 058: dt: 0.1250, sse=1320034.9, rms=5.712 (0.377%) positioning took 0.9 minutes mean border=48.6, 11333 (362) missing vertices, mean dist 0.2 [0.1 (%61.1)->1.2 (%38.9))] %13 local maxima, %18 large gradients and %53 min vals, 78 gradients ignored tol=1.0e-04, sigma=0.5, host=clust, 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=1415605.8, rms=6.146 rms = 6.77, time step reduction 1 of 3 to 0.250... 059: dt: 0.2500, sse=1364348.2, rms=5.934 (3.449%) rms = 5.93, time step reduction 2 of 3 to 0.125... 060: dt: 0.2500, sse=1360927.5, rms=5.927 (0.120%) 061: dt: 0.1250, sse=1345883.1, rms=5.854 (1.224%) rms = 5.83, time step reduction 3 of 3 to 0.062... 062: dt: 0.1250, sse=1339184.4, rms=5.828 (0.446%) positioning took 0.5 minutes mean border=48.2, 13931 (348) missing vertices, mean dist 0.1 [0.1 (%59.4)->0.7 (%40.6))] %13 local maxima, %17 large gradients and %52 min vals, 91 gradients ignored tol=1.0e-04, sigma=0.2, host=clust, 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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... writing smoothed curvature to lh.curv.pial 000: dt: 0.0000, sse=1361823.5, rms=5.921 rms = 6.25, time step reduction 1 of 3 to 0.250... 063: dt: 0.2500, sse=1326632.1, rms=5.773 (2.488%) 064: dt: 0.2500, sse=1291255.2, rms=5.636 (2.373%) 065: dt: 0.2500, sse=1275027.6, rms=5.569 (1.190%) 066: dt: 0.2500, sse=1259057.0, rms=5.509 (1.088%) rms = 5.56, time step reduction 2 of 3 to 0.125... 067: dt: 0.1250, sse=1243123.0, rms=5.432 (1.394%) 068: dt: 0.1250, sse=1222305.5, rms=5.331 (1.857%) rms = 5.29, time step reduction 3 of 3 to 0.062... 069: dt: 0.1250, sse=1213149.0, rms=5.290 (0.764%) positioning took 0.9 minutes writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.curv.pial writing smoothed area to lh.area.pial writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.area.pial vertex spacing 0.97 +- 0.42 (0.06-->9.48) (max @ vno 77067 --> 103404) face area 0.37 +- 0.29 (0.00-->9.55) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 107884 vertices processed 25000 of 107884 vertices processed 50000 of 107884 vertices processed 75000 of 107884 vertices processed 100000 of 107884 vertices processed 0 of 107884 vertices processed 25000 of 107884 vertices processed 50000 of 107884 vertices processed 75000 of 107884 vertices processed 100000 of 107884 vertices processed thickness calculation complete, 297:684 truncations. 57721 vertices at 0 distance 79833 vertices at 1 distance 41052 vertices at 2 distance 16383 vertices at 3 distance 5638 vertices at 4 distance 1814 vertices at 5 distance 662 vertices at 6 distance 275 vertices at 7 distance 174 vertices at 8 distance 107 vertices at 9 distance 67 vertices at 10 distance 41 vertices at 11 distance 40 vertices at 12 distance 42 vertices at 13 distance 46 vertices at 14 distance 33 vertices at 15 distance 23 vertices at 16 distance 17 vertices at 17 distance 21 vertices at 18 distance 2 vertices at 19 distance 11 vertices at 20 distance writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.thickness positioning took 11.0 minutes #-------------------------------------------- #@# Make Pial Surf rh Fri Dec 18 07:50:29 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh using white.preaparc starting white location... using white.preaparc starting pial locations... using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/filled.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/brain.finalsurfs.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/../mri/aseg.presurf.mgz... reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... 9003 bright wm thresholded. 1549 bright non-wm voxels segmented. reading original surface position from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.orig... computing class statistics... border white: 350087 voxels (2.09%) border gray 258529 voxels (1.54%) WM (96.0): 96.6 +- 8.2 [70.0 --> 110.0] GM (68.0) : 67.2 +- 14.8 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 44.2 (was 70) setting MAX_BORDER_WHITE to 114.2 (was 105) setting MIN_BORDER_WHITE to 59.0 (was 85) setting MAX_CSF to 29.5 (was 40) setting MAX_GRAY to 97.8 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 44.2 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 14.7 (was 40) using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=106+-8.7, GM=59+-12.2 mean inside = 93.8, mean outside = 71.0 smoothing surface for 5 iterations... reading initial white vertex positions from white.preaparc... reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.91 +- 0.32 (0.01-->9.77) (max @ vno 103185 --> 103323) face area 0.34 +- 0.21 (0.00-->7.28) mean absolute distance = 0.75 +- 1.25 3453 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 1 vertex label from ripped group removing 2 vertex label from ripped group removing 3 vertex label from ripped group deleting segment 3 with 3 points - only 0.00% unknown deleting segment 4 with 22 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 5 with 1 points - only 0.00% unknown mean border=86.9, 396 (395) missing vertices, mean dist -0.3 [0.8 (%65.1)->0.6 (%34.9))] %72 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.93 +- 0.33 (0.08-->9.87) (max @ vno 103185 --> 103323) face area 0.34 +- 0.21 (0.00-->6.72) mean absolute distance = 0.53 +- 1.03 4650 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=2010798.4, rms=8.565 001: dt: 0.5000, sse=1245971.8, rms=5.925 (30.821%) 002: dt: 0.5000, sse=1067013.9, rms=5.117 (13.629%) 003: dt: 0.5000, sse=1041291.8, rms=4.990 (2.484%) 004: dt: 0.5000, sse=992414.8, rms=4.761 (4.594%) rms = 4.77, time step reduction 1 of 3 to 0.250... 005: dt: 0.2500, sse=821947.6, rms=3.745 (21.349%) 006: dt: 0.2500, sse=760542.9, rms=3.277 (12.480%) 007: dt: 0.2500, sse=743163.8, rms=3.132 (4.423%) 008: dt: 0.2500, sse=743584.6, rms=3.036 (3.087%) 009: dt: 0.2500, sse=724218.7, rms=2.983 (1.724%) rms = 2.94, time step reduction 2 of 3 to 0.125... 010: dt: 0.2500, sse=720189.0, rms=2.941 (1.433%) 011: dt: 0.1250, sse=705235.1, rms=2.816 (4.231%) rms = 2.78, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=704239.4, rms=2.785 (1.116%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group deleting segment 0 with 3 points - only 0.00% unknown deleting segment 1 with 15 points - only 0.00% unknown deleting segment 2 with 24 points - only 0.00% unknown mean border=85.7, 523 (160) missing vertices, mean dist -0.1 [0.9 (%38.2)->0.3 (%61.8))] %77 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=clust, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.92 +- 0.32 (0.09-->9.79) (max @ vno 103185 --> 103323) face area 0.35 +- 0.22 (0.00-->7.23) mean absolute distance = 0.43 +- 0.80 4702 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1170847.9, rms=5.488 013: dt: 0.5000, sse=932600.5, rms=4.210 (23.282%) rms = 4.31, time step reduction 1 of 3 to 0.250... 014: dt: 0.2500, sse=777260.0, rms=3.224 (23.427%) 015: dt: 0.2500, sse=723087.2, rms=2.715 (15.775%) 016: dt: 0.2500, sse=697398.8, rms=2.526 (6.960%) 017: dt: 0.2500, sse=692771.9, rms=2.442 (3.313%) 018: dt: 0.2500, sse=683794.7, rms=2.385 (2.343%) rms = 2.36, time step reduction 2 of 3 to 0.125... 019: dt: 0.2500, sse=681109.3, rms=2.358 (1.128%) 020: dt: 0.1250, sse=666266.9, rms=2.216 (6.027%) rms = 2.19, time step reduction 3 of 3 to 0.062... 021: dt: 0.1250, sse=662624.7, rms=2.185 (1.404%) positioning took 0.6 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group deleting segment 0 with 3 points - only 0.00% unknown deleting segment 1 with 15 points - only 0.00% unknown deleting segment 2 with 27 points - only 0.00% unknown mean border=84.8, 647 (116) missing vertices, mean dist -0.1 [0.8 (%38.6)->0.2 (%61.4))] %81 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=clust, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.92 +- 0.32 (0.05-->9.81) (max @ vno 103185 --> 103323) face area 0.35 +- 0.22 (0.00-->7.15) mean absolute distance = 0.37 +- 0.66 4073 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=815328.1, rms=3.585 rms = 3.87, time step reduction 1 of 3 to 0.250... 022: dt: 0.2500, sse=714521.9, rms=2.783 (22.378%) 023: dt: 0.2500, sse=673104.5, rms=2.263 (18.685%) 024: dt: 0.2500, sse=656290.7, rms=2.134 (5.691%) 025: dt: 0.2500, sse=645954.2, rms=2.064 (3.275%) rms = 2.05, time step reduction 2 of 3 to 0.125... 026: dt: 0.2500, sse=646815.6, rms=2.045 (0.926%) 027: dt: 0.1250, sse=633202.1, rms=1.914 (6.431%) rms = 1.89, time step reduction 3 of 3 to 0.062... 028: dt: 0.1250, sse=630916.7, rms=1.890 (1.242%) positioning took 0.5 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group deleting segment 0 with 3 points - only 0.00% unknown deleting segment 1 with 15 points - only 0.00% unknown deleting segment 2 with 29 points - only 0.00% unknown mean border=84.3, 742 (94) missing vertices, mean dist -0.1 [0.5 (%44.5)->0.2 (%55.5))] %82 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=clust, 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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=677164.8, rms=2.462 rms = 2.89, time step reduction 1 of 3 to 0.250... 029: dt: 0.2500, sse=631480.9, rms=1.937 (21.304%) 030: dt: 0.2500, sse=622717.0, rms=1.685 (12.994%) rms = 1.64, time step reduction 2 of 3 to 0.125... 031: dt: 0.2500, sse=612188.5, rms=1.640 (2.700%) 032: dt: 0.1250, sse=600585.9, rms=1.536 (6.313%) rms = 1.50, time step reduction 3 of 3 to 0.062... 033: dt: 0.1250, sse=598264.8, rms=1.499 (2.407%) positioning took 0.4 minutes generating cortex label... 8 non-cortical segments detected only using segment with 5405 vertices erasing segment 1 (vno[0] = 30860) erasing segment 2 (vno[0] = 32630) erasing segment 3 (vno[0] = 34994) erasing segment 4 (vno[0] = 50598) erasing segment 5 (vno[0] = 77176) erasing segment 6 (vno[0] = 81022) erasing segment 7 (vno[0] = 101718) writing cortex label to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.cortex.label... writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.curv writing smoothed area to rh.area writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.area vertex spacing 0.91 +- 0.33 (0.01-->9.74) (max @ vno 103185 --> 103323) face area 0.35 +- 0.21 (0.00-->6.82) repositioning cortical surface to gray/csf boundary. smoothing T1 volume with sigma = 2.000 averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 1 vertex label from ripped group deleting segment 0 with 1 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 2 with 2 points - only 50.00% unknown removing 3 vertex label from ripped group deleting segment 5 with 7 points - only 0.00% unknown deleting segment 6 with 14 points - only 0.00% unknown smoothing surface for 5 iterations... reading initial pial vertex positions from white.preaparc... mean border=51.3, 519 (519) missing vertices, mean dist 1.0 [0.0 (%0.0)->3.0 (%100.0))] % 9 local maxima, %24 large gradients and %61 min vals, 52 gradients ignored perforing initial smooth deformation to move away from white surface tol=1.0e-04, sigma=2.0, host=clust, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=27672686.0, rms=36.874 001: dt: 0.0500, sse=24350896.0, rms=34.541 (6.326%) 002: dt: 0.0500, sse=21985068.0, rms=32.779 (5.103%) 003: dt: 0.0500, sse=20144346.0, rms=31.339 (4.393%) 004: dt: 0.0500, sse=18623680.0, rms=30.097 (3.962%) 005: dt: 0.0500, sse=17314652.0, rms=28.985 (3.694%) 006: dt: 0.0500, sse=16155446.0, rms=27.964 (3.524%) 007: dt: 0.0500, sse=15109391.0, rms=27.009 (3.415%) 008: dt: 0.0500, sse=14152787.0, rms=26.105 (3.346%) 009: dt: 0.0500, sse=13268956.0, rms=25.241 (3.309%) 010: dt: 0.0500, sse=12447000.0, rms=24.411 (3.291%) positioning took 0.6 minutes mean border=50.8, 865 (379) missing vertices, mean dist 0.8 [0.0 (%0.0)->2.3 (%100.0))] % 9 local maxima, %24 large gradients and %61 min vals, 52 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=14191845.0, rms=26.125 011: dt: 0.0500, sse=13388914.0, rms=25.343 (2.993%) 012: dt: 0.0500, sse=12637135.0, rms=24.589 (2.977%) 013: dt: 0.0500, sse=11932217.0, rms=23.860 (2.965%) 014: dt: 0.0500, sse=11272552.0, rms=23.157 (2.947%) 015: dt: 0.0500, sse=10657042.0, rms=22.481 (2.919%) 016: dt: 0.0500, sse=10084222.0, rms=21.833 (2.882%) 017: dt: 0.0500, sse=9553279.0, rms=21.215 (2.832%) 018: dt: 0.0500, sse=9064051.0, rms=20.629 (2.763%) 019: dt: 0.0500, sse=8614961.0, rms=20.075 (2.681%) 020: dt: 0.0500, sse=8206888.0, rms=19.559 (2.571%) positioning took 0.6 minutes mean border=50.3, 1395 (326) missing vertices, mean dist 0.7 [0.1 (%2.2)->1.9 (%97.8))] % 8 local maxima, %24 large gradients and %61 min vals, 47 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=8409092.0, rms=19.808 021: dt: 0.0500, sse=7997541.0, rms=19.281 (2.664%) 022: dt: 0.0500, sse=7624079.0, rms=18.789 (2.549%) 023: dt: 0.0500, sse=7274486.0, rms=18.317 (2.512%) 024: dt: 0.0500, sse=6959230.0, rms=17.881 (2.382%) 025: dt: 0.0500, sse=6680623.5, rms=17.486 (2.207%) 026: dt: 0.0500, sse=6435220.0, rms=17.131 (2.032%) 027: dt: 0.0500, sse=6208047.5, rms=16.795 (1.959%) 028: dt: 0.0500, sse=5997389.5, rms=16.478 (1.889%) 029: dt: 0.0500, sse=5804166.0, rms=16.181 (1.799%) 030: dt: 0.0500, sse=5626590.5, rms=15.904 (1.714%) positioning took 0.7 minutes mean border=50.2, 1977 (300) missing vertices, mean dist 0.5 [0.1 (%22.2)->1.9 (%77.8))] % 8 local maxima, %24 large gradients and %61 min vals, 42 gradients ignored tol=1.0e-04, sigma=2.0, host=clust, 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=5700838.0, rms=16.006 031: dt: 0.5000, sse=4763663.0, rms=14.481 (9.529%) 032: dt: 0.5000, sse=4136252.0, rms=13.344 (7.849%) 033: dt: 0.5000, sse=3672073.8, rms=12.454 (6.674%) 034: dt: 0.5000, sse=3248696.2, rms=11.562 (7.161%) 035: dt: 0.5000, sse=2906572.5, rms=10.806 (6.539%) 036: dt: 0.5000, sse=2578295.8, rms=10.005 (7.410%) 037: dt: 0.5000, sse=2343646.5, rms=9.411 (5.939%) 038: dt: 0.5000, sse=2152360.0, rms=8.874 (5.704%) 039: dt: 0.5000, sse=2048129.5, rms=8.585 (3.253%) 040: dt: 0.5000, sse=1963651.2, rms=8.321 (3.075%) 041: dt: 0.5000, sse=1925416.2, rms=8.214 (1.287%) 042: dt: 0.5000, sse=1887129.6, rms=8.083 (1.602%) rms = 8.06, time step reduction 1 of 3 to 0.250... 043: dt: 0.5000, sse=1876578.5, rms=8.059 (0.292%) 044: dt: 0.2500, sse=1741906.4, rms=7.588 (5.848%) 045: dt: 0.2500, sse=1681232.0, rms=7.392 (2.583%) rms = 7.46, time step reduction 2 of 3 to 0.125... 046: dt: 0.1250, sse=1658165.5, rms=7.309 (1.127%) 047: dt: 0.1250, sse=1632446.6, rms=7.212 (1.320%) rms = 7.20, time step reduction 3 of 3 to 0.062... 048: dt: 0.1250, sse=1630597.1, rms=7.204 (0.116%) positioning took 1.7 minutes mean border=48.6, 10031 (215) missing vertices, mean dist 0.2 [0.1 (%46.6)->1.1 (%53.4))] %10 local maxima, %21 large gradients and %54 min vals, 47 gradients ignored tol=1.0e-04, sigma=1.0, host=clust, 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=1806589.5, rms=7.596 049: dt: 0.5000, sse=1671807.8, rms=7.161 (5.728%) rms = 7.15, time step reduction 1 of 3 to 0.250... 050: dt: 0.5000, sse=1663966.4, rms=7.154 (0.092%) 051: dt: 0.2500, sse=1485723.1, rms=6.457 (9.745%) 052: dt: 0.2500, sse=1457355.1, rms=6.349 (1.666%) rms = 6.37, time step reduction 2 of 3 to 0.125... 053: dt: 0.1250, sse=1420114.2, rms=6.193 (2.466%) 054: dt: 0.1250, sse=1370957.6, rms=5.980 (3.439%) 055: dt: 0.1250, sse=1358809.6, rms=5.928 (0.861%) rms = 5.91, time step reduction 3 of 3 to 0.062... 056: dt: 0.1250, sse=1353752.6, rms=5.907 (0.365%) positioning took 0.8 minutes mean border=47.5, 11354 (191) missing vertices, mean dist 0.2 [0.1 (%60.7)->1.3 (%39.3))] %11 local maxima, %18 large gradients and %55 min vals, 63 gradients ignored tol=1.0e-04, sigma=0.5, host=clust, 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=1468592.2, rms=6.404 rms = 6.88, time step reduction 1 of 3 to 0.250... 057: dt: 0.2500, sse=1422058.1, rms=6.216 (2.938%) rms = 6.20, time step reduction 2 of 3 to 0.125... 058: dt: 0.2500, sse=1417588.9, rms=6.204 (0.197%) 059: dt: 0.1250, sse=1404592.8, rms=6.141 (1.010%) rms = 6.12, time step reduction 3 of 3 to 0.062... 060: dt: 0.1250, sse=1399964.5, rms=6.125 (0.271%) positioning took 0.5 minutes mean border=47.0, 14571 (178) missing vertices, mean dist 0.1 [0.1 (%59.5)->0.7 (%40.5))] %11 local maxima, %17 large gradients and %53 min vals, 70 gradients ignored tol=1.0e-04, sigma=0.2, host=clust, 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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... writing smoothed curvature to rh.curv.pial 000: dt: 0.0000, sse=1421949.2, rms=6.211 rms = 6.38, time step reduction 1 of 3 to 0.250... 061: dt: 0.2500, sse=1384681.4, rms=6.059 (2.439%) 062: dt: 0.2500, sse=1340028.8, rms=5.890 (2.803%) 063: dt: 0.2500, sse=1314399.4, rms=5.784 (1.796%) 064: dt: 0.2500, sse=1291577.6, rms=5.693 (1.567%) rms = 5.70, time step reduction 2 of 3 to 0.125... 065: dt: 0.1250, sse=1278287.5, rms=5.630 (1.117%) 066: dt: 0.1250, sse=1258317.2, rms=5.535 (1.686%) rms = 5.49, time step reduction 3 of 3 to 0.062... 067: dt: 0.1250, sse=1247838.0, rms=5.489 (0.823%) positioning took 0.9 minutes writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.curv.pial writing smoothed area to rh.area.pial writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.area.pial vertex spacing 0.98 +- 0.41 (0.05-->10.32) (max @ vno 103185 --> 103323) face area 0.38 +- 0.28 (0.00-->8.96) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 105809 vertices processed 25000 of 105809 vertices processed 50000 of 105809 vertices processed 75000 of 105809 vertices processed 100000 of 105809 vertices processed 0 of 105809 vertices processed 25000 of 105809 vertices processed 50000 of 105809 vertices processed 75000 of 105809 vertices processed 100000 of 105809 vertices processed thickness calculation complete, 142:391 truncations. 56798 vertices at 0 distance 80857 vertices at 1 distance 39789 vertices at 2 distance 15371 vertices at 3 distance 5179 vertices at 4 distance 1511 vertices at 5 distance 484 vertices at 6 distance 193 vertices at 7 distance 88 vertices at 8 distance 56 vertices at 9 distance 37 vertices at 10 distance 23 vertices at 11 distance 27 vertices at 12 distance 23 vertices at 13 distance 15 vertices at 14 distance 17 vertices at 15 distance 20 vertices at 16 distance 19 vertices at 17 distance 12 vertices at 18 distance 14 vertices at 19 distance 19 vertices at 20 distance writing curvature file /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.thickness positioning took 10.8 minutes #-------------------------------------------- #@# Surf Volume lh Fri Dec 18 08:01:17 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf mris_calc -o lh.area.mid lh.area add lh.area.pial Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o lh.area.mid lh.area.mid div 2 Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.volume masking with /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.cortex.label Total face volume 122827 Total vertex volume 122184 (mask=0) #@# ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh 122184 vertexvol Done #-------------------------------------------- #@# Surf Volume rh Fri Dec 18 08:01:19 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf mris_calc -o rh.area.mid rh.area add rh.area.pial Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o rh.area.mid rh.area.mid div 2 Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.volume masking with /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.cortex.label Total face volume 120639 Total vertex volume 120008 (mask=0) #@# ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh 120008 vertexvol Done #-------------------------------------------- #@# Cortical ribbon mask Fri Dec 18 08:01:21 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon ID473151317_WFL_Y26_GDM_T1W_ROC_RAS SUBJECTS_DIR is /state/partition1/home/pccui/Workspace/freesurfer 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 = 1184 writing volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/ribbon.mgz mris_volmask took 2.93 minutes writing ribbon files #----------------------------------------- #@# Parcellation Stats lh Fri Dec 18 08:04:16 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 122827 Total vertex volume 122184 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 924 661 1134 2.026 0.447 0.138 0.044 14 1.9 bankssts 358 191 208 1.404 0.586 0.101 0.028 3 0.5 caudalanteriorcingulate 2819 1985 3135 1.708 0.814 0.130 0.041 48 6.0 caudalmiddlefrontal 1228 794 1643 1.844 1.282 0.094 0.020 14 1.0 cuneus 1256 795 2194 2.256 0.896 0.163 0.078 32 4.9 entorhinal 3861 2672 4594 1.734 0.909 0.118 0.036 37 6.4 fusiform 5001 3276 4804 1.531 0.595 0.121 0.041 69 9.8 inferiorparietal 4183 2751 5965 2.196 0.713 0.127 0.046 49 8.9 inferiortemporal 53 34 43 1.954 1.012 0.139 0.053 1 0.0 isthmuscingulate 6414 4316 8230 1.831 0.812 0.110 0.035 95 9.9 lateraloccipital 3057 2174 4159 2.067 0.787 0.152 0.051 46 7.2 lateralorbitofrontal 3863 2603 3872 1.492 0.724 0.152 0.069 83 13.2 lingual 2047 1509 2052 1.432 0.605 0.158 0.051 36 4.6 medialorbitofrontal 3099 2006 4356 2.260 0.881 0.143 0.057 61 8.3 middletemporal 1083 800 1825 2.051 0.873 0.161 0.069 24 3.4 parahippocampal 2281 1658 2641 1.519 0.646 0.147 0.047 46 4.7 paracentral 1169 907 1360 1.514 0.799 0.115 0.026 14 1.4 parsopercularis 1120 718 1264 1.715 0.414 0.103 0.023 6 1.2 parsorbitalis 1391 924 1628 1.741 0.667 0.125 0.040 19 2.6 parstriangularis 1341 913 2232 2.296 1.400 0.114 0.125 64 11.8 pericalcarine 4963 3524 6635 1.805 0.819 0.118 0.030 66 6.8 postcentral 538 335 276 0.964 0.350 0.123 0.030 7 0.7 posteriorcingulate 5852 4168 6924 1.684 0.788 0.129 0.045 149 11.3 precentral 3692 2618 3336 1.420 0.800 0.120 0.037 50 6.1 precuneus 1081 797 970 1.465 0.661 0.173 0.067 26 3.2 rostralanteriorcingulate 7731 5330 9411 1.843 0.780 0.134 0.041 116 14.4 rostralmiddlefrontal 10949 7335 12499 1.638 0.775 0.114 0.036 165 17.9 superiorfrontal 8379 5767 9913 1.639 0.863 0.129 0.033 148 12.3 superiorparietal 3006 2248 4482 1.972 0.842 0.131 0.033 44 4.5 superiortemporal 3848 3034 4681 1.611 0.760 0.142 0.036 69 6.2 supramarginal 355 212 436 2.092 0.692 0.121 0.028 3 0.5 frontalpole 711 447 1016 2.008 0.547 0.088 0.018 2 0.6 temporalpole 189 122 244 1.955 0.971 0.124 0.044 4 0.3 transversetemporal 3770 2839 3987 1.674 0.724 0.162 0.061 71 10.1 insula mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 122827 Total vertex volume 122184 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 924 550 1134 2.026 0.447 0.079 0.030 34 1.2 bankssts 358 181 208 1.404 0.586 0.096 0.028 3 0.5 caudalanteriorcingulate 2819 1988 3135 1.708 0.814 0.100 0.037 56 4.7 caudalmiddlefrontal 1228 967 1643 1.844 1.282 0.113 0.029 11 1.9 cuneus 1256 1069 2194 2.256 0.896 0.184 0.077 50 4.3 entorhinal 3861 2858 4594 1.734 0.909 0.104 0.026 26 5.1 fusiform 5001 3280 4804 1.531 0.595 0.075 0.028 110 6.3 inferiorparietal 4183 2864 5965 2.196 0.713 0.077 0.020 28 3.6 inferiortemporal 53 41 43 1.954 1.012 0.133 0.067 1 0.1 isthmuscingulate 6414 4729 8230 1.831 0.812 0.077 0.038 112 7.4 lateraloccipital 3057 2117 4159 2.067 0.787 0.101 0.031 44 3.8 lateralorbitofrontal 3863 3052 3872 1.492 0.724 0.138 0.060 93 12.2 lingual 2047 1537 2052 1.432 0.605 0.118 0.042 51 3.5 medialorbitofrontal 3099 1910 4356 2.260 0.881 0.076 0.029 93 3.8 middletemporal 1083 1087 1825 2.051 0.873 0.212 0.071 37 3.0 parahippocampal 2281 1881 2641 1.519 0.646 0.129 0.038 29 3.8 paracentral 1169 1022 1360 1.514 0.799 0.118 0.029 17 1.7 parsopercularis 1120 823 1264 1.715 0.414 0.076 0.012 3 0.7 parsorbitalis 1391 1036 1628 1.741 0.667 0.110 0.037 29 2.6 parstriangularis 1341 997 2232 2.296 1.400 0.104 0.031 14 2.1 pericalcarine 4963 4278 6635 1.805 0.819 0.120 0.042 164 11.3 postcentral 538 318 276 0.964 0.350 0.108 0.032 8 0.8 posteriorcingulate 5852 4613 6924 1.684 0.788 0.120 0.040 190 11.4 precentral 3692 2747 3336 1.420 0.800 0.122 0.054 162 10.9 precuneus 1081 648 970 1.465 0.661 0.120 0.065 28 2.2 rostralanteriorcingulate 7731 5667 9411 1.843 0.780 0.101 0.033 173 11.3 rostralmiddlefrontal 10949 8502 12499 1.638 0.775 0.123 0.043 234 22.7 superiorfrontal 8379 6575 9913 1.639 0.863 0.116 0.035 230 14.4 superiorparietal 3006 2526 4482 1.972 0.842 0.105 0.025 40 3.3 superiortemporal 3848 3297 4681 1.611 0.760 0.111 0.030 70 4.9 supramarginal 355 244 436 2.092 0.692 0.081 0.023 2 0.3 frontalpole 711 621 1016 2.008 0.547 0.122 0.029 5 1.2 temporalpole 189 126 244 1.955 0.971 0.100 0.026 3 0.2 transversetemporal 3770 2375 3987 1.674 0.724 0.139 0.056 155 8.6 insula #----------------------------------------- #@# Parcellation Stats rh Fri Dec 18 08:04:56 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 120639 Total vertex volume 120008 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 746 497 795 1.658 0.389 0.106 0.042 18 1.8 bankssts 423 281 294 1.346 0.567 0.113 0.030 3 0.5 caudalanteriorcingulate 2900 2016 3664 1.774 0.870 0.124 0.036 47 5.1 caudalmiddlefrontal 1788 1224 1995 1.720 0.780 0.125 0.050 29 4.0 cuneus 1497 995 2621 2.166 0.736 0.145 0.062 27 4.3 entorhinal 3203 2166 3416 1.571 0.753 0.120 0.042 42 6.3 fusiform 4655 3067 4453 1.513 0.452 0.108 0.034 55 7.6 inferiorparietal 3474 2460 5397 2.253 0.883 0.141 0.051 45 9.2 inferiortemporal 32 25 16 0.770 0.437 0.041 0.014 0 0.0 isthmuscingulate 4735 3221 5251 1.687 0.679 0.116 0.035 58 7.1 lateraloccipital 2599 1892 3215 1.860 0.718 0.155 0.055 38 6.8 lateralorbitofrontal 1513 1031 1139 1.244 0.530 0.119 0.035 17 2.4 lingual 2040 1408 2015 1.418 0.576 0.131 0.037 25 2.9 medialorbitofrontal 2945 2036 4469 2.328 0.885 0.149 0.050 47 7.3 middletemporal 570 369 1023 2.404 0.866 0.101 0.033 7 0.8 parahippocampal 2212 1532 2025 1.422 0.543 0.133 0.041 35 4.1 paracentral 1327 1015 1604 1.756 1.011 0.168 0.050 30 2.9 parsopercularis 1175 799 1312 1.622 0.409 0.119 0.027 12 1.5 parsorbitalis 1753 1172 1845 1.642 0.581 0.122 0.036 30 2.1 parstriangularis 1097 694 1428 1.885 1.075 0.116 0.043 17 2.1 pericalcarine 5190 3712 7052 1.739 0.866 0.116 0.024 56 5.1 postcentral 736 474 441 1.126 0.444 0.120 0.042 9 1.1 posteriorcingulate 5423 3889 6111 1.590 0.675 0.125 0.037 103 9.8 precentral 3875 2875 3664 1.474 0.835 0.126 0.038 63 5.8 precuneus 497 395 603 1.779 1.180 0.199 0.067 8 1.8 rostralanteriorcingulate 8679 6149 10894 1.753 0.833 0.139 0.042 152 16.0 rostralmiddlefrontal 10571 7528 14078 1.763 0.889 0.121 0.033 152 16.0 superiorfrontal 9649 6640 10950 1.628 0.766 0.134 0.041 175 19.0 superiorparietal 3527 2292 4541 2.060 0.912 0.144 0.048 61 7.6 superiortemporal 4411 3044 5097 1.621 0.850 0.136 0.040 77 8.4 supramarginal 438 281 563 1.920 0.691 0.123 0.041 4 0.8 frontalpole 810 503 1247 2.095 0.591 0.107 0.025 6 0.9 temporalpole 266 232 364 1.634 0.648 0.128 0.031 3 0.4 transversetemporal 5161 3628 6381 1.798 0.860 0.141 0.054 82 12.7 insula mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 120639 Total vertex volume 120008 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 746 498 795 1.658 0.389 0.055 0.019 7 0.3 bankssts 423 268 294 1.346 0.567 0.111 0.036 3 0.9 caudalanteriorcingulate 2900 2327 3664 1.774 0.870 0.105 0.030 42 3.8 caudalmiddlefrontal 1788 1339 1995 1.720 0.780 0.122 0.058 44 5.8 cuneus 1497 1471 2621 2.166 0.736 0.176 0.065 41 4.5 entorhinal 3203 2341 3416 1.571 0.753 0.115 0.033 32 4.7 fusiform 4655 3096 4453 1.513 0.452 0.059 0.015 42 2.9 inferiorparietal 3474 2467 5397 2.253 0.883 0.099 0.029 41 4.8 inferiortemporal 32 27 16 0.770 0.437 0.103 0.033 0 0.0 isthmuscingulate 4735 3458 5251 1.687 0.679 0.080 0.023 44 4.1 lateraloccipital 2599 1723 3215 1.860 0.718 0.102 0.033 40 3.9 lateralorbitofrontal 1513 1072 1139 1.244 0.530 0.116 0.041 17 2.6 lingual 2040 1561 2015 1.418 0.576 0.115 0.033 31 3.1 medialorbitofrontal 2945 2003 4469 2.328 0.885 0.077 0.023 49 3.0 middletemporal 570 509 1023 2.404 0.866 0.182 0.065 9 1.8 parahippocampal 2212 1604 2025 1.422 0.543 0.114 0.031 24 3.0 paracentral 1327 1014 1604 1.756 1.011 0.112 0.039 23 1.7 parsopercularis 1175 901 1312 1.622 0.409 0.083 0.015 7 0.8 parsorbitalis 1753 1222 1845 1.642 0.581 0.085 0.029 48 2.4 parstriangularis 1097 833 1428 1.885 1.075 0.131 0.061 13 1.8 pericalcarine 5190 4619 7052 1.739 0.866 0.120 0.029 82 7.1 postcentral 736 453 441 1.126 0.444 0.101 0.030 9 0.9 posteriorcingulate 5423 4321 6111 1.590 0.675 0.122 0.039 131 11.4 precentral 3875 2912 3664 1.474 0.835 0.119 0.036 79 6.2 precuneus 497 301 603 1.779 1.180 0.111 0.036 5 0.6 rostralanteriorcingulate 8679 7042 10894 1.753 0.833 0.125 0.048 209 15.5 rostralmiddlefrontal 10571 8969 14078 1.763 0.889 0.136 0.041 199 20.7 superiorfrontal 9649 7364 10950 1.628 0.766 0.109 0.044 283 21.3 superiorparietal 3527 2369 4541 2.060 0.912 0.094 0.029 80 3.9 superiortemporal 4411 3390 5097 1.621 0.850 0.124 0.036 126 6.7 supramarginal 438 332 563 1.920 0.691 0.085 0.012 5 0.3 frontalpole 810 691 1247 2.095 0.591 0.118 0.029 7 1.1 temporalpole 266 239 364 1.634 0.648 0.095 0.021 5 0.2 transversetemporal 5161 3860 6381 1.798 0.860 0.147 0.057 160 11.8 insula #----------------------------------------- #@# Cortical Parc 2 lh Fri Dec 18 08:05:35 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh ../surf/lh.sphere.reg /export/apps/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /export/apps/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 2.9 using min determinant for regularization = 0.086 0 singular and 762 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1514 labels changed using aseg relabeling using gibbs priors... 000: 7716 changed, 107884 examined... 001: 1818 changed, 30210 examined... 002: 507 changed, 9417 examined... 003: 234 changed, 2856 examined... 004: 100 changed, 1317 examined... 005: 51 changed, 575 examined... 006: 26 changed, 284 examined... 007: 13 changed, 153 examined... 008: 7 changed, 82 examined... 009: 5 changed, 36 examined... 010: 6 changed, 36 examined... 011: 6 changed, 33 examined... 012: 4 changed, 42 examined... 013: 3 changed, 20 examined... 014: 3 changed, 21 examined... 015: 3 changed, 13 examined... 016: 2 changed, 12 examined... 017: 3 changed, 11 examined... 018: 2 changed, 11 examined... 019: 2 changed, 15 examined... 020: 1 changed, 11 examined... 021: 1 changed, 7 examined... 022: 0 changed, 7 examined... 229 labels changed using aseg 000: 293 total segments, 210 labels (2800 vertices) changed 001: 99 total segments, 17 labels (77 vertices) changed 002: 83 total segments, 1 labels (22 vertices) changed 003: 82 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 35 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 3109 vertices marked for relabeling... 3109 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 12 seconds. #----------------------------------------- #@# Cortical Parc 2 rh Fri Dec 18 08:05:46 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh ../surf/rh.sphere.reg /export/apps/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /export/apps/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 719 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1503 labels changed using aseg relabeling using gibbs priors... 000: 7789 changed, 105809 examined... 001: 1756 changed, 30632 examined... 002: 528 changed, 9243 examined... 003: 242 changed, 2991 examined... 004: 137 changed, 1380 examined... 005: 71 changed, 716 examined... 006: 30 changed, 383 examined... 007: 29 changed, 180 examined... 008: 6 changed, 128 examined... 009: 2 changed, 27 examined... 010: 0 changed, 12 examined... 149 labels changed using aseg 000: 258 total segments, 167 labels (1908 vertices) changed 001: 98 total segments, 7 labels (26 vertices) changed 002: 91 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 32 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 3598 vertices marked for relabeling... 3598 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 11 seconds. #----------------------------------------- #@# Parcellation Stats 2 lh Fri Dec 18 08:05:58 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 122827 Total vertex volume 122184 (mask=0) reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2008.txt) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 1149 752 1353 2.071 0.698 0.134 0.045 17 2.4 G&S_frontomargin 1796 1174 2541 1.981 0.841 0.105 0.037 31 2.6 G&S_occipital_inf 1920 1394 2821 1.764 0.839 0.158 0.057 57 5.1 G&S_paracentral 913 598 1130 1.912 0.573 0.107 0.024 13 1.1 G&S_subcentral 617 408 917 2.079 0.809 0.128 0.031 7 0.8 G&S_transv_frontopol 2252 1549 1618 1.251 0.534 0.144 0.050 40 4.7 G&S_cingul-Ant 1280 812 887 1.232 0.508 0.119 0.032 21 1.5 G&S_cingul-Mid-Ant 1196 733 707 1.141 0.398 0.131 0.042 25 2.0 G&S_cingul-Mid-Post 34 17 12 0.992 0.116 0.072 0.015 0 0.0 G_cingul-Post-dorsal 6 6 6 1.532 1.533 0.050 0.024 0 0.0 G_cingul-Post-ventral 1098 725 1843 2.101 1.376 0.095 0.020 14 1.0 G_cuneus 667 489 697 1.437 0.773 0.091 0.018 6 0.4 G_front_inf-Opercular 354 249 450 1.670 0.384 0.120 0.022 2 0.4 G_front_inf-Orbital 955 643 1323 1.869 0.710 0.114 0.027 8 1.2 G_front_inf-Triangul 3538 2267 4910 2.100 0.723 0.100 0.022 25 3.4 G_front_middle 7630 5075 9715 1.777 0.796 0.111 0.037 107 13.4 G_front_sup 363 358 455 1.823 0.693 0.217 0.071 8 1.3 G_Ins_lg&S_cent_ins 253 217 329 1.745 0.650 0.138 0.069 4 0.3 G_insular_short 1656 1088 1539 1.495 0.287 0.097 0.023 14 1.8 G_occipital_middle 889 547 1029 1.818 0.675 0.118 0.042 20 1.4 G_occipital_sup 1366 931 1536 1.578 1.008 0.100 0.022 7 1.5 G_oc-temp_lat-fusifor 3006 2078 3843 1.632 0.852 0.155 0.070 64 11.4 G_oc-temp_med-Lingual 2972 2122 4556 1.979 0.847 0.176 0.077 74 11.1 G_oc-temp_med-Parahip 2314 1439 2961 1.980 0.711 0.124 0.036 27 3.6 G_orbital 1998 1298 2376 1.704 0.760 0.124 0.038 29 3.6 G_pariet_inf-Angular 1645 1304 2543 1.871 0.771 0.129 0.031 21 2.2 G_pariet_inf-Supramar 3868 2630 5895 1.919 0.938 0.115 0.027 53 4.8 G_parietal_sup 2126 1427 3817 2.199 0.855 0.097 0.016 11 1.4 G_postcentral 2182 1476 3278 1.950 0.782 0.103 0.024 28 2.5 G_precentral 1956 1387 1949 1.437 0.732 0.118 0.030 20 2.3 G_precuneus 651 471 979 1.730 0.639 0.131 0.034 7 0.9 G_rectus 1466 989 1517 1.630 0.757 0.151 0.064 25 3.7 G_subcallosal 127 94 232 1.822 0.787 0.124 0.029 2 0.2 G_temp_sup-G_T_transv 1127 780 1652 2.052 0.769 0.131 0.036 19 1.9 G_temp_sup-Lateral 786 517 1457 2.296 1.041 0.092 0.019 4 0.6 G_temp_sup-Plan_polar 434 370 524 1.570 0.457 0.117 0.018 4 0.3 G_temp_sup-Plan_tempo 2362 1490 3280 2.138 0.738 0.131 0.055 34 6.2 G_temporal_inf 1596 1041 2369 2.340 0.851 0.141 0.057 31 4.7 G_temporal_middle 106 91 115 1.183 0.645 0.229 0.144 3 0.7 Lat_Fis-ant-Horizont 551 436 480 1.513 0.771 0.153 0.037 9 0.9 Lat_Fis-post 1658 1117 2420 2.146 1.092 0.104 0.024 12 1.7 Pole_occipital 1858 1185 2382 1.968 0.552 0.115 0.031 18 2.7 Pole_temporal 1284 862 2047 2.350 1.297 0.111 0.126 64 11.3 S_calcarine 2355 1821 2407 1.583 0.709 0.146 0.049 52 5.9 S_central 955 707 624 1.003 0.347 0.148 0.056 26 2.7 S_cingul-Marginalis 346 258 355 1.586 0.526 0.143 0.052 6 0.9 S_circular_insula_ant 745 554 862 1.689 0.786 0.118 0.029 11 1.0 S_circular_insula_inf 640 434 594 1.469 0.536 0.126 0.051 13 1.5 S_circular_insula_sup 658 506 933 2.187 0.657 0.148 0.050 6 1.5 S_collat_transv_ant 492 354 414 1.285 0.600 0.116 0.031 7 0.5 S_collat_transv_post 1668 1173 1673 1.550 0.697 0.125 0.038 22 2.7 S_front_inf 1650 1225 1869 1.629 0.807 0.153 0.048 32 3.5 S_front_middle 3017 2300 3349 1.576 0.793 0.149 0.049 64 7.5 S_front_sup 195 126 179 1.577 0.337 0.095 0.026 1 0.1 S_interm_prim-Jensen 2492 1873 1686 1.141 0.497 0.157 0.044 64 4.9 S_intrapariet&P_trans 1064 695 907 1.507 0.400 0.140 0.067 26 3.5 S_oc_middle&Lunatus 811 532 837 1.709 0.725 0.124 0.035 10 1.2 S_oc_sup&transversal 384 264 411 1.640 0.229 0.098 0.018 2 0.3 S_occipital_ant 839 581 1241 2.261 0.776 0.115 0.042 10 1.6 S_oc-temp_lat 1659 1146 1576 1.453 0.847 0.136 0.054 28 3.4 S_oc-temp_med&Lingual 398 257 349 1.569 0.557 0.155 0.060 11 0.9 S_orbital_lateral 568 481 577 1.624 0.630 0.190 0.061 13 1.8 S_orbital_med-olfact 1265 973 1822 2.205 0.718 0.166 0.056 17 3.5 S_orbital-H_Shaped 1332 876 1246 1.604 0.879 0.112 0.030 15 1.7 S_parieto_occipital 54 63 108 2.526 0.943 0.283 0.092 1 0.2 S_pericallosal 3164 2378 2487 1.180 0.541 0.145 0.038 66 5.6 S_postcentral 1294 986 935 1.182 0.570 0.140 0.050 29 3.6 S_precentral-inf-part 1182 883 1003 1.421 0.602 0.155 0.076 55 2.8 S_precentral-sup-part 469 337 360 1.323 0.411 0.174 0.065 10 1.4 S_suborbital 602 443 448 1.323 0.598 0.132 0.043 8 1.1 S_subparietal 1070 710 1642 2.435 0.893 0.143 0.052 16 2.5 S_temporal_inf 4181 2855 4590 1.794 0.655 0.137 0.052 77 10.0 S_temporal_sup 94 67 214 2.846 0.462 0.095 0.023 1 0.1 S_temporal_transverse #----------------------------------------- #@# Parcellation Stats 2 rh Fri Dec 18 08:06:17 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh white computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 120639 Total vertex volume 120008 (mask=0) reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2008.txt) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 714 493 786 1.729 0.680 0.131 0.037 10 0.9 G&S_frontomargin 800 502 1093 2.082 1.054 0.119 0.048 10 1.8 G&S_occipital_inf 1645 1145 2110 1.633 0.670 0.141 0.050 31 4.1 G&S_paracentral 801 536 878 1.750 0.617 0.123 0.032 15 0.8 G&S_subcentral 1045 709 1607 2.092 0.936 0.130 0.042 13 2.0 G&S_transv_frontopol 2587 1785 1886 1.252 0.529 0.143 0.043 40 4.5 G&S_cingul-Ant 1438 988 1006 1.245 0.496 0.127 0.053 37 3.6 G&S_cingul-Mid-Ant 1172 830 815 1.240 0.503 0.151 0.053 23 2.5 G&S_cingul-Mid-Post 1 1 1 0.986 0.000 0.007 0.029 0 0.0 G_cingul-Post-dorsal 13 6 9 0.600 1.407 0.030 0.006 0 0.0 G_cingul-Post-ventral 1606 1108 1868 1.709 0.730 0.116 0.036 18 2.5 G_cuneus 785 588 1259 2.107 0.988 0.133 0.033 9 1.1 G_front_inf-Opercular 480 314 599 1.822 0.463 0.108 0.022 3 0.5 G_front_inf-Orbital 754 497 881 1.731 0.582 0.125 0.045 16 0.9 G_front_inf-Triangul 4313 2930 6289 1.967 0.793 0.114 0.026 46 5.0 G_front_middle 6259 4437 9870 1.944 0.931 0.107 0.023 59 6.4 G_front_sup 422 269 854 2.869 0.858 0.109 0.026 3 0.5 G_Ins_lg&S_cent_ins 3044 2167 3708 1.744 0.807 0.138 0.059 46 7.8 G_insular_short 1164 788 1234 1.646 0.334 0.095 0.026 7 1.4 G_occipital_middle 1467 999 1665 1.736 0.612 0.135 0.053 28 3.9 G_occipital_sup 1320 860 1222 1.404 0.812 0.121 0.047 24 2.9 G_oc-temp_lat-fusifor 942 642 683 1.167 0.446 0.123 0.037 11 1.7 G_oc-temp_med-Lingual 2268 1482 3874 2.168 0.806 0.133 0.054 36 5.6 G_oc-temp_med-Parahip 2230 1525 2719 1.788 0.641 0.125 0.038 23 3.9 G_orbital 1610 1026 1547 1.478 0.464 0.108 0.032 17 2.3 G_pariet_inf-Angular 2211 1532 3346 1.888 0.936 0.122 0.033 31 3.7 G_pariet_inf-Supramar 3599 2509 5320 1.930 0.890 0.126 0.034 69 5.5 G_parietal_sup 2154 1455 4071 2.225 0.915 0.101 0.017 12 1.4 G_postcentral 1874 1249 2836 1.989 0.643 0.078 0.012 8 0.8 G_precentral 1882 1388 1660 1.342 0.526 0.134 0.039 32 3.0 G_precuneus 629 443 897 1.745 0.643 0.134 0.040 7 1.0 G_rectus 507 372 513 1.541 0.757 0.172 0.059 8 1.5 G_subcallosal 148 139 272 2.195 0.725 0.138 0.037 1 0.3 G_temp_sup-G_T_transv 1115 725 1595 2.320 1.000 0.138 0.044 15 2.4 G_temp_sup-Lateral 868 576 1301 2.082 0.744 0.128 0.034 10 1.2 G_temp_sup-Plan_polar 756 503 832 1.642 0.560 0.132 0.035 10 1.3 G_temp_sup-Plan_tempo 2048 1378 3483 2.418 0.905 0.135 0.049 27 5.0 G_temporal_inf 1828 1281 2753 2.260 0.954 0.160 0.058 35 5.5 G_temporal_middle 248 173 222 1.635 0.712 0.151 0.044 5 0.6 Lat_Fis-ant-Horizont 31 17 55 3.518 0.606 0.089 0.012 0 0.0 Lat_Fis-ant-Vertical 896 588 645 1.251 0.620 0.160 0.048 24 2.1 Lat_Fis-post 2217 1505 2729 1.727 0.752 0.107 0.036 26 4.0 Pole_occipital 1783 1169 2371 1.986 0.562 0.116 0.030 15 2.6 Pole_temporal 819 507 855 1.816 0.986 0.105 0.037 13 1.1 S_calcarine 2334 1870 1983 1.287 0.492 0.138 0.035 41 4.1 S_central 1248 901 898 1.220 0.429 0.124 0.028 19 1.5 S_cingul-Marginalis 286 246 244 1.235 0.623 0.178 0.046 5 0.6 S_circular_insula_ant 671 472 798 1.889 0.664 0.166 0.073 18 2.7 S_circular_insula_inf 647 425 677 1.494 0.844 0.153 0.052 17 1.6 S_circular_insula_sup 704 598 1061 2.088 0.624 0.187 0.079 10 3.0 S_collat_transv_ant 248 164 168 1.185 0.484 0.105 0.030 2 0.2 S_collat_transv_post 2540 1841 2619 1.483 0.671 0.147 0.044 54 5.1 S_front_inf 2305 1796 2399 1.467 0.848 0.160 0.060 57 6.0 S_front_middle 2828 2033 3603 1.798 0.926 0.137 0.041 48 5.9 S_front_sup 285 175 353 1.916 0.859 0.127 0.050 7 0.5 S_interm_prim-Jensen 3918 2724 3744 1.434 0.622 0.146 0.049 71 9.1 S_intrapariet&P_trans 494 360 489 1.460 0.331 0.130 0.029 6 0.6 S_oc_middle&Lunatus 900 612 851 1.470 0.527 0.123 0.033 15 1.3 S_oc_sup&transversal 513 331 589 2.076 0.581 0.110 0.026 4 0.6 S_occipital_ant 849 571 772 1.483 0.743 0.089 0.025 5 0.8 S_oc-temp_lat 861 608 1033 1.629 0.839 0.133 0.045 9 1.9 S_oc-temp_med&Lingual 234 153 201 1.454 0.299 0.104 0.020 3 0.2 S_orbital_lateral 507 346 602 1.903 0.507 0.126 0.041 5 0.7 S_orbital_med-olfact 1122 833 1471 2.004 0.664 0.171 0.062 18 3.4 S_orbital-H_Shaped 1628 1152 1703 1.771 1.065 0.129 0.044 29 2.9 S_parieto_occipital 72 98 247 3.821 0.632 0.418 0.130 2 0.7 S_pericallosal 3190 2233 1919 1.087 0.346 0.140 0.037 61 5.6 S_postcentral 1046 728 842 1.277 0.519 0.173 0.071 35 3.4 S_precentral-inf-part 1157 897 1049 1.347 0.616 0.170 0.059 41 3.2 S_precentral-sup-part 98 72 61 1.085 0.471 0.109 0.022 1 0.1 S_suborbital 692 514 441 1.045 0.461 0.114 0.045 11 1.3 S_subparietal 433 279 669 2.567 1.007 0.117 0.025 5 0.5 S_temporal_inf 3498 2298 4150 1.919 0.704 0.118 0.041 53 6.8 S_temporal_sup 128 93 154 1.437 0.440 0.174 0.068 5 0.3 S_temporal_transverse #----------------------------------------- #@# Cortical Parc 3 lh Fri Dec 18 08:06:38 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh ../surf/lh.sphere.reg /export/apps/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /export/apps/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1919 labels changed using aseg relabeling using gibbs priors... 000: 1974 changed, 107884 examined... 001: 476 changed, 9139 examined... 002: 144 changed, 2556 examined... 003: 62 changed, 807 examined... 004: 34 changed, 351 examined... 005: 26 changed, 167 examined... 006: 15 changed, 111 examined... 007: 14 changed, 74 examined... 008: 12 changed, 75 examined... 009: 15 changed, 64 examined... 010: 12 changed, 68 examined... 011: 7 changed, 51 examined... 012: 5 changed, 40 examined... 013: 6 changed, 29 examined... 014: 3 changed, 30 examined... 015: 4 changed, 15 examined... 016: 0 changed, 16 examined... 342 labels changed using aseg 000: 108 total segments, 74 labels (968 vertices) changed 001: 42 total segments, 8 labels (12 vertices) changed 002: 34 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 6 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 3003 vertices marked for relabeling... 3003 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 9 seconds. #----------------------------------------- #@# Cortical Parc 3 rh Fri Dec 18 08:06:47 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh ../surf/rh.sphere.reg /export/apps/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /export/apps/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.009 0 singular and 325 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1923 labels changed using aseg relabeling using gibbs priors... 000: 2010 changed, 105809 examined... 001: 460 changed, 9304 examined... 002: 125 changed, 2600 examined... 003: 59 changed, 714 examined... 004: 26 changed, 322 examined... 005: 13 changed, 162 examined... 006: 10 changed, 75 examined... 007: 8 changed, 59 examined... 008: 10 changed, 45 examined... 009: 7 changed, 50 examined... 010: 6 changed, 37 examined... 011: 4 changed, 32 examined... 012: 6 changed, 21 examined... 013: 8 changed, 32 examined... 014: 6 changed, 31 examined... 015: 5 changed, 25 examined... 016: 2 changed, 27 examined... 017: 2 changed, 12 examined... 018: 3 changed, 12 examined... 019: 2 changed, 13 examined... 020: 1 changed, 10 examined... 021: 2 changed, 7 examined... 022: 2 changed, 11 examined... 023: 1 changed, 12 examined... 024: 1 changed, 7 examined... 025: 1 changed, 7 examined... 026: 1 changed, 7 examined... 027: 0 changed, 8 examined... 291 labels changed using aseg 000: 89 total segments, 55 labels (762 vertices) changed 001: 39 total segments, 5 labels (13 vertices) changed 002: 34 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 6 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 3195 vertices marked for relabeling... 3195 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 9 seconds. #----------------------------------------- #@# Parcellation Stats 3 lh Fri Dec 18 08:06:56 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 122827 Total vertex volume 122184 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 1210 729 712 1.128 0.493 0.115 0.033 15 1.5 caudalanteriorcingulate 3039 2137 3395 1.728 0.820 0.133 0.043 54 6.9 caudalmiddlefrontal 1603 1083 2292 1.893 1.215 0.102 0.021 19 1.4 cuneus 1102 703 1869 2.176 0.883 0.170 0.084 31 4.6 entorhinal 3402 2369 3964 1.682 0.959 0.116 0.036 32 5.6 fusiform 5050 3305 4799 1.527 0.589 0.122 0.040 72 9.2 inferiorparietal 4460 2927 6312 2.170 0.702 0.125 0.045 50 9.3 inferiortemporal 61 43 53 1.916 1.032 0.142 0.049 1 0.0 isthmuscingulate 6272 4201 7767 1.798 0.748 0.109 0.035 92 9.6 lateraloccipital 3773 2699 5149 2.126 0.756 0.153 0.048 59 8.5 lateralorbitofrontal 4032 2723 4449 1.576 0.838 0.150 0.068 85 13.6 lingual 1769 1279 2034 1.589 0.646 0.147 0.052 28 3.8 medialorbitofrontal 3918 2581 5481 2.211 0.831 0.135 0.048 63 8.9 middletemporal 1782 1331 2587 1.929 0.834 0.182 0.075 42 6.4 parahippocampal 2777 1977 3116 1.493 0.635 0.138 0.045 49 5.7 paracentral 1077 837 1174 1.437 0.766 0.118 0.027 14 1.4 parsopercularis 829 591 955 1.556 0.512 0.127 0.046 10 1.6 parsorbitalis 1711 1129 2069 1.785 0.655 0.119 0.034 20 2.7 parstriangularis 1354 911 2209 2.291 1.389 0.113 0.125 64 11.8 pericalcarine 5680 4088 7180 1.731 0.810 0.125 0.032 91 8.5 postcentral 843 524 445 0.995 0.336 0.131 0.035 16 1.3 posteriorcingulate 5563 3963 6622 1.682 0.798 0.122 0.041 125 9.5 precentral 3823 2659 3594 1.491 0.870 0.121 0.039 56 6.7 precuneus 2393 1694 2090 1.427 0.661 0.156 0.058 45 5.9 rostralanteriorcingulate 5945 4021 7226 1.838 0.755 0.126 0.039 76 10.6 rostralmiddlefrontal 11235 7657 13572 1.725 0.788 0.120 0.038 184 19.4 superiorfrontal 7180 4936 8527 1.633 0.848 0.128 0.032 124 10.4 superiorparietal 4684 3362 6541 1.952 0.779 0.132 0.038 70 8.4 superiortemporal 3548 2844 4369 1.614 0.782 0.146 0.038 65 5.8 supramarginal 183 119 237 1.933 0.978 0.127 0.045 4 0.3 transversetemporal 1350 1070 1395 1.667 0.620 0.153 0.057 27 3.2 insula #----------------------------------------- #@# Parcellation Stats 3 rh Fri Dec 18 08:07:16 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh white computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 120639 Total vertex volume 120008 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 665 477 454 1.222 0.530 0.143 0.052 12 1.8 caudalanteriorcingulate 3054 2111 3737 1.733 0.871 0.127 0.042 56 6.3 caudalmiddlefrontal 2311 1614 2552 1.660 0.766 0.126 0.045 35 4.7 cuneus 1548 1021 2538 2.050 0.753 0.138 0.054 25 3.6 entorhinal 2873 1950 3022 1.539 0.785 0.122 0.043 39 5.8 fusiform 4635 3060 4417 1.498 0.443 0.108 0.034 55 7.5 inferiorparietal 4035 2814 6001 2.176 0.855 0.138 0.050 53 10.4 inferiortemporal 42 31 21 0.828 0.515 0.048 0.032 0 0.0 isthmuscingulate 4671 3223 5189 1.673 0.648 0.119 0.035 60 7.4 lateraloccipital 5185 3655 6029 1.804 0.696 0.142 0.054 70 12.7 lateralorbitofrontal 1500 1012 1136 1.265 0.546 0.116 0.032 15 2.1 lingual 1739 1205 1941 1.538 0.579 0.139 0.040 24 2.9 medialorbitofrontal 3490 2388 5113 2.272 0.862 0.144 0.051 64 9.1 middletemporal 553 342 1091 2.636 0.752 0.118 0.057 10 1.5 parahippocampal 2258 1582 2083 1.411 0.540 0.130 0.039 34 4.0 paracentral 1569 1170 1845 1.716 0.969 0.170 0.055 43 3.9 parsopercularis 941 666 1109 1.655 0.473 0.133 0.035 12 1.5 parsorbitalis 1824 1215 1840 1.581 0.539 0.116 0.031 24 2.0 parstriangularis 1085 686 1367 1.836 1.061 0.121 0.047 18 2.3 pericalcarine 6017 4294 7639 1.675 0.833 0.122 0.027 76 6.7 postcentral 812 539 493 1.094 0.432 0.119 0.040 9 1.2 posteriorcingulate 5022 3561 5906 1.637 0.680 0.119 0.033 84 7.9 precentral 4117 3058 4087 1.498 0.823 0.130 0.039 69 6.6 precuneus 759 627 890 1.695 1.116 0.190 0.061 11 2.3 rostralanteriorcingulate 6605 4696 8159 1.720 0.803 0.141 0.043 123 12.4 rostralmiddlefrontal 12792 9091 16796 1.764 0.886 0.123 0.034 182 19.2 superiorfrontal 8319 5664 9562 1.657 0.798 0.130 0.040 148 15.7 superiorparietal 5361 3487 7024 2.003 0.828 0.132 0.041 79 9.9 superiortemporal 4075 2790 4855 1.651 0.873 0.132 0.038 69 7.7 supramarginal 200 187 310 1.705 0.658 0.127 0.033 2 0.3 transversetemporal 1872 1344 2801 2.002 1.082 0.146 0.052 35 4.7 insula #----------------------------------------- #@# WM/GM Contrast lh Fri Dec 18 08:07:36 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts pctsurfcon --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --lh-only Log file is /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts/pctsurfcon.log Fri Dec 18 08:07:36 CST 2020 setenv SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer cd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts /export/apps/freesurfer/bin/pctsurfcon $Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $ Linux cluster.hpc.org 2.6.32-279.14.1.el6.x86_64 #1 SMP Tue Nov 6 23:43:09 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /export/apps/freesurfer mri_vol2surf --mov /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168629/lh.wm.mgh --regheader ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --cortex srcvol = /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz as target reference. -------- original matrix ----------- -1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00003; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.cortex.label Reading surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 = 88717 Masking with /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.cortex.label Writing to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168629/lh.wm.mgh Dim: 107884 1 1 mri_vol2surf --mov /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168629/lh.gm.mgh --projfrac 0.3 --regheader ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --cortex srcvol = /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz as target reference. -------- original matrix ----------- -1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00003; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.cortex.label Reading surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Done reading source surface Reading thickness /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 = 89394 Masking with /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.cortex.label Writing to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168629/lh.gm.mgh Dim: 107884 1 1 mri_concat /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168629/lh.wm.mgh /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168629/lh.gm.mgh --paired-diff-norm --mul 100 --o /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.w-g.pct.mgh mri_segstats --in /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.w-g.pct.mgh --annot ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh aparc --sum /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/stats/lh.w-g.pct.stats --snr $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --in /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.w-g.pct.mgh --annot ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh aparc --sum /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/stats/lh.w-g.pct.stats --snr sysname Linux hostname cluster.hpc.org machine x86_64 user pccui UseRobust 0 Constructing seg from annotation Reading annotation /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Seg base 1000 Loading /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.w-g.pct.mgh Vertex Area is 0.690457 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up #----------------------------------------- #@# WM/GM Contrast rh Fri Dec 18 08:07:40 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts pctsurfcon --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --rh-only Log file is /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts/pctsurfcon.log Fri Dec 18 08:07:40 CST 2020 setenv SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer cd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/scripts /export/apps/freesurfer/bin/pctsurfcon $Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $ Linux cluster.hpc.org 2.6.32-279.14.1.el6.x86_64 #1 SMP Tue Nov 6 23:43:09 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /export/apps/freesurfer mri_vol2surf --mov /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168683/rh.wm.mgh --regheader ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --cortex srcvol = /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz as target reference. -------- original matrix ----------- -1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00003; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.cortex.label Reading surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 = 87765 Masking with /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.cortex.label Writing to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168683/rh.wm.mgh Dim: 105809 1 1 mri_vol2surf --mov /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168683/rh.gm.mgh --projfrac 0.3 --regheader ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --cortex srcvol = /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/orig.mgz as target reference. -------- original matrix ----------- -1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00003; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.cortex.label Reading surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Done reading source surface Reading thickness /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 = 88133 Masking with /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.cortex.label Writing to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168683/rh.gm.mgh Dim: 105809 1 1 mri_concat /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168683/rh.wm.mgh /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/tmp.pctsurfcon.168683/rh.gm.mgh --paired-diff-norm --mul 100 --o /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.w-g.pct.mgh mri_segstats --in /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.w-g.pct.mgh --annot ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh aparc --sum /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/stats/rh.w-g.pct.stats --snr $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --in /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.w-g.pct.mgh --annot ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh aparc --sum /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/stats/rh.w-g.pct.stats --snr sysname Linux hostname cluster.hpc.org machine x86_64 user pccui UseRobust 0 Constructing seg from annotation Reading annotation /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Seg base 2000 Loading /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.w-g.pct.mgh Vertex Area is 0.693611 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up #----------------------------------------- #@# Relabel Hypointensities Fri Dec 18 08:07:45 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz reading input surface ../surf/lh.white... relabeling lh hypointensities... 154231 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 156758 voxels changed to hypointensity... 174948 hypointense voxels neighboring cortex changed #----------------------------------------- #@# AParc-to-ASeg aparc Fri Dec 18 08:08:01 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS mri_aparc2aseg --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt relabeling unlikely voxels interior to white matter surface: norm: mri/norm.mgz XFORM: mri/transforms/talairach.m3z GCA: /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca label intensities: mri/aseg.auto_noCCseg.label_intensities.txt SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS outvol /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aparc+aseg.mgz useribbon 0 baseoffset 0 RipUnknown 0 Reading lh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading lh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial Loading lh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Reading rh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading rh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial Loading rh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aseg.presurf.hypos.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice relabeling unlikely voxels in interior of white matter setting orig areas to linear transform determinant scaled 8.85 reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt rescaling Left_Cerebral_White_Matter from 107 --> 103 rescaling Left_Cerebral_Cortex from 61 --> 85 rescaling Left_Lateral_Ventricle from 13 --> 42 rescaling Left_Inf_Lat_Vent from 34 --> 47 rescaling Left_Cerebellum_White_Matter from 86 --> 95 rescaling Left_Cerebellum_Cortex from 60 --> 88 rescaling Left_Thalamus from 94 --> 104 rescaling Left_Thalamus_Proper from 84 --> 99 rescaling Left_Caudate from 75 --> 96 rescaling Left_Putamen from 80 --> 92 rescaling Left_Pallidum from 98 --> 100 rescaling Third_Ventricle from 25 --> 40 rescaling Fourth_Ventricle from 22 --> 31 rescaling Brain_Stem from 81 --> 90 rescaling Left_Hippocampus from 57 --> 83 rescaling Left_Amygdala from 56 --> 84 rescaling CSF from 32 --> 72 rescaling Left_Accumbens_area from 62 --> 77 rescaling Left_VentralDC from 87 --> 95 rescaling Right_Cerebral_White_Matter from 105 --> 102 rescaling Right_Cerebral_Cortex from 58 --> 86 rescaling Right_Lateral_Ventricle from 13 --> 28 rescaling Right_Inf_Lat_Vent from 25 --> 34 rescaling Right_Cerebellum_White_Matter from 87 --> 92 rescaling Right_Cerebellum_Cortex from 59 --> 83 rescaling Right_Thalamus_Proper from 85 --> 95 rescaling Right_Caudate from 62 --> 92 rescaling Right_Putamen from 80 --> 92 rescaling Right_Pallidum from 97 --> 100 rescaling Right_Hippocampus from 53 --> 81 rescaling Right_Amygdala from 55 --> 83 rescaling Right_Accumbens_area from 65 --> 90 rescaling Right_VentralDC from 86 --> 93 rescaling Fifth_Ventricle from 40 --> 60 rescaling WM_hypointensities from 78 --> 76 rescaling non_WM_hypointensities from 40 --> 54 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 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--s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --a2009s relabeling unlikely voxels interior to white matter surface: norm: mri/norm.mgz XFORM: mri/transforms/talairach.m3z GCA: /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca label intensities: mri/aseg.auto_noCCseg.label_intensities.txt SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS outvol /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aparc.a2009s+aseg.mgz useribbon 0 baseoffset 10100 RipUnknown 0 Reading lh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading lh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial Loading lh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2008.txt) Reading rh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading rh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial Loading rh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2008.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aseg.presurf.hypos.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice relabeling unlikely voxels in interior of white matter setting orig areas to linear transform determinant scaled 8.85 reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt rescaling Left_Cerebral_White_Matter from 107 --> 103 rescaling Left_Cerebral_Cortex from 61 --> 85 rescaling Left_Lateral_Ventricle from 13 --> 42 rescaling Left_Inf_Lat_Vent from 34 --> 47 rescaling Left_Cerebellum_White_Matter from 86 --> 95 rescaling Left_Cerebellum_Cortex from 60 --> 88 rescaling Left_Thalamus from 94 --> 104 rescaling Left_Thalamus_Proper from 84 --> 99 rescaling Left_Caudate from 75 --> 96 rescaling Left_Putamen from 80 --> 92 rescaling Left_Pallidum from 98 --> 100 rescaling Third_Ventricle from 25 --> 40 rescaling Fourth_Ventricle from 22 --> 31 rescaling Brain_Stem from 81 --> 90 rescaling Left_Hippocampus from 57 --> 83 rescaling Left_Amygdala from 56 --> 84 rescaling CSF from 32 --> 72 rescaling Left_Accumbens_area from 62 --> 77 rescaling Left_VentralDC from 87 --> 95 rescaling Right_Cerebral_White_Matter from 105 --> 102 rescaling Right_Cerebral_Cortex from 58 --> 86 rescaling Right_Lateral_Ventricle from 13 --> 28 rescaling Right_Inf_Lat_Vent from 25 --> 34 rescaling Right_Cerebellum_White_Matter from 87 --> 92 rescaling Right_Cerebellum_Cortex from 59 --> 83 rescaling Right_Thalamus_Proper from 85 --> 95 rescaling Right_Caudate from 62 --> 92 rescaling Right_Putamen from 80 --> 92 rescaling Right_Pallidum from 97 --> 100 rescaling Right_Hippocampus from 53 --> 81 rescaling Right_Amygdala from 55 --> 83 rescaling Right_Accumbens_area from 65 --> 90 rescaling Right_VentralDC from 86 --> 93 rescaling Fifth_Ventricle from 40 --> 60 rescaling WM_hypointensities from 78 --> 76 rescaling non_WM_hypointensities from 40 --> 54 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 = 235225 Used brute-force search on 0 voxels relabeling unlikely voxels in interior of white matter average std[0] = 7.3 pass 1: 3524 changed. pass 2: 1674 changed. pass 3: 860 changed. pass 4: 461 changed. pass 5: 241 changed. pass 6: 150 changed. pass 7: 112 changed. pass 8: 65 changed. pass 9: 45 changed. pass 10: 41 changed. pass 11: 32 changed. nchanged = 0 Writing output aseg to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aparc.a2009s+aseg.mgz #----------------------------------------- #@# AParc-to-ASeg DKTatlas Fri Dec 18 08:15:59 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS mri_aparc2aseg --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --annot aparc.DKTatlas --o mri/aparc.DKTatlas+aseg.mgz relabeling unlikely voxels interior to white matter surface: norm: mri/norm.mgz XFORM: mri/transforms/talairach.m3z GCA: /export/apps/freesurfer/average/RB_all_2016-05-10.vc700.gca label intensities: mri/aseg.auto_noCCseg.label_intensities.txt SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS outvol mri/aparc.DKTatlas+aseg.mgz useribbon 0 baseoffset 0 RipUnknown 0 Reading lh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading lh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial Loading lh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.aparc.DKTatlas.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Reading rh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading rh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial Loading rh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.aparc.DKTatlas.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aseg.presurf.hypos.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice relabeling unlikely voxels in interior of white matter setting orig areas to linear transform determinant scaled 8.85 reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt rescaling Left_Cerebral_White_Matter from 107 --> 103 rescaling Left_Cerebral_Cortex from 61 --> 85 rescaling Left_Lateral_Ventricle from 13 --> 42 rescaling Left_Inf_Lat_Vent from 34 --> 47 rescaling Left_Cerebellum_White_Matter from 86 --> 95 rescaling Left_Cerebellum_Cortex from 60 --> 88 rescaling Left_Thalamus from 94 --> 104 rescaling Left_Thalamus_Proper from 84 --> 99 rescaling Left_Caudate from 75 --> 96 rescaling Left_Putamen from 80 --> 92 rescaling Left_Pallidum from 98 --> 100 rescaling Third_Ventricle from 25 --> 40 rescaling Fourth_Ventricle from 22 --> 31 rescaling Brain_Stem from 81 --> 90 rescaling Left_Hippocampus from 57 --> 83 rescaling Left_Amygdala from 56 --> 84 rescaling CSF from 32 --> 72 rescaling Left_Accumbens_area from 62 --> 77 rescaling Left_VentralDC from 87 --> 95 rescaling Right_Cerebral_White_Matter from 105 --> 102 rescaling Right_Cerebral_Cortex from 58 --> 86 rescaling Right_Lateral_Ventricle from 13 --> 28 rescaling Right_Inf_Lat_Vent from 25 --> 34 rescaling Right_Cerebellum_White_Matter from 87 --> 92 rescaling Right_Cerebellum_Cortex from 59 --> 83 rescaling Right_Thalamus_Proper from 85 --> 95 rescaling Right_Caudate from 62 --> 92 rescaling Right_Putamen from 80 --> 92 rescaling Right_Pallidum from 97 --> 100 rescaling Right_Hippocampus from 53 --> 81 rescaling Right_Amygdala from 55 --> 83 rescaling Right_Accumbens_area from 65 --> 90 rescaling Right_VentralDC from 86 --> 93 rescaling Fifth_Ventricle from 40 --> 60 rescaling WM_hypointensities from 78 --> 76 rescaling non_WM_hypointensities from 40 --> 54 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 = 235225 Used brute-force search on 0 voxels relabeling unlikely voxels in interior of white matter average std[0] = 7.3 pass 1: 3524 changed. pass 2: 1674 changed. pass 3: 860 changed. pass 4: 461 changed. pass 5: 241 changed. pass 6: 150 changed. pass 7: 112 changed. pass 8: 65 changed. pass 9: 45 changed. pass 10: 41 changed. pass 11: 32 changed. nchanged = 0 Writing output aseg to mri/aparc.DKTatlas+aseg.mgz #----------------------------------------- #@# APas-to-ASeg Fri Dec 18 08:19:58 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri apas2aseg --i aparc+aseg.mgz --o aseg.mgz Fri Dec 18 08:19:58 CST 2020 setenv SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer cd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri /export/apps/freesurfer/bin/apas2aseg --i aparc+aseg.mgz --o aseg.mgz freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c $Id: apas2aseg,v 1.2 2016/02/12 21:43:14 zkaufman Exp $ Linux cluster.hpc.org 2.6.32-279.14.1.el6.x86_64 #1 SMP Tue Nov 6 23:43:09 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux mri_binarize --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42 $Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $ cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri cmdline mri_binarize.bin --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42 sysname Linux hostname cluster.hpc.org machine x86_64 user pccui input aparc+aseg.mgz frame 0 nErode3d 0 nErode2d 0 output aseg.mgz Binarizing based on threshold min -infinity max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Replacing 72 1: 1000 3 2: 2000 42 3: 1001 3 4: 2001 42 5: 1002 3 6: 2002 42 7: 1003 3 8: 2003 42 9: 1004 3 10: 2004 42 11: 1005 3 12: 2005 42 13: 1006 3 14: 2006 42 15: 1007 3 16: 2007 42 17: 1008 3 18: 2008 42 19: 1009 3 20: 2009 42 21: 1010 3 22: 2010 42 23: 1011 3 24: 2011 42 25: 1012 3 26: 2012 42 27: 1013 3 28: 2013 42 29: 1014 3 30: 2014 42 31: 1015 3 32: 2015 42 33: 1016 3 34: 2016 42 35: 1017 3 36: 2017 42 37: 1018 3 38: 2018 42 39: 1019 3 40: 2019 42 41: 1020 3 42: 2020 42 43: 1021 3 44: 2021 42 45: 1022 3 46: 2022 42 47: 1023 3 48: 2023 42 49: 1024 3 50: 2024 42 51: 1025 3 52: 2025 42 53: 1026 3 54: 2026 42 55: 1027 3 56: 2027 42 57: 1028 3 58: 2028 42 59: 1029 3 60: 2029 42 61: 1030 3 62: 2030 42 63: 1031 3 64: 2031 42 65: 1032 3 66: 2032 42 67: 1033 3 68: 2033 42 69: 1034 3 70: 2034 42 71: 1035 3 72: 2035 42 Found 0 values in range Counting number of voxels in first frame Found 0 voxels in final mask Count: 0 0.000000 16777216 0.000000 mri_binarize done Started at Fri Dec 18 08:19:58 CST 2020 Ended at Fri Dec 18 08:20:03 CST 2020 Apas2aseg-Run-Time-Sec 5 apas2aseg Done #-------------------------------------------- #@# ASeg Stats Fri Dec 18 08:20:03 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS 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 /export/apps/freesurfer/ASegStatsLUT.txt --subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /export/apps/freesurfer/ASegStatsLUT.txt --subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS sysname Linux hostname cluster.hpc.org machine x86_64 user pccui UseRobust 0 atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) Computing euler number orig.nofix lheno = -500, rheno = -544 orig.nofix lhholes = 251, rhholes = 273 Loading mri/aseg.mgz Getting Brain Volume Statistics lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 50 segmentations Computing statistics for each segmentation Reporting on 45 segmentations Using PrintSegStat mri_segstats done #----------------------------------------- #@# WMParc Fri Dec 18 08:21:52 CST 2020 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS mri_aparc2aseg --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --labelwm --hypo-as-wm --rip-unknown --volmask --o mri/wmparc.mgz --ctxseg aparc+aseg.mgz SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS outvol mri/wmparc.mgz useribbon 0 baseoffset 0 labeling wm labeling hypo-intensities as wm dmaxctx 5.000000 RipUnknown 1 CtxSeg /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aparc+aseg.mgz Reading lh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading lh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial Loading lh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Reading rh white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading rh pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial Loading rh annotations from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/ribbon.mgz Loading filled from /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/ribbon.mgz Ripping vertices labeled as unkown Ripped 6272 vertices from left hemi Ripped 5892 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 /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aseg.mgz Loading Ctx Seg File /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/aparc+aseg.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 1393878 Used brute-force search on 84549 voxels Fixing Parahip LH WM Found 11 clusters 0 k 1.000000 1 k 1.000000 2 k 2273.000000 3 k 1.000000 4 k 2.000000 5 k 1.000000 6 k 2.000000 7 k 2.000000 8 k 1.000000 9 k 2.000000 10 k 2.000000 Fixing Parahip RH WM Found 8 clusters 0 k 6.000000 1 k 1.000000 2 k 2.000000 3 k 1.000000 4 k 7.000000 5 k 1.000000 6 k 3.000000 7 k 967.000000 Writing output aseg to mri/wmparc.mgz mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --surf-wm-vol --ctab /export/apps/freesurfer/WMParcStatsLUT.txt --etiv $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --surf-wm-vol --ctab /export/apps/freesurfer/WMParcStatsLUT.txt --etiv sysname Linux hostname cluster.hpc.org machine x86_64 user pccui UseRobust 0 atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) Loading mri/wmparc.mgz Getting Brain Volume Statistics lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 390 segmentations Computing statistics for each segmentation Reporting on 70 segmentations Using PrintSegStat mri_segstats done /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label #-------------------------------------------- #@# BA_exvivo Labels lh Fri Dec 18 08:42:15 CST 2020 mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA1_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 174 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 4303 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA2_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 715 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 8624 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3a_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA3a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 337 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 4414 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3b_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA3b_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 321 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 6304 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4a_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA4a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 767 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 6551 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4p_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA4p_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 339 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 4409 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA6_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA6_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 1493 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 15082 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA44_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA44_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 236 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 4417 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA45_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA45_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 482 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 3904 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V1_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.V1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 824 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 5465 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V2_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.V2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 2177 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 10291 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.MT_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.MT_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 389 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 2407 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.entorhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1290 nlabel points Performing mapping from target back to the source label 107884 Number of reverse mapping hits = 347 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 1637 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.perirhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 208 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1407 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 11 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1025 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 198 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 2290 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA3a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 197 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1701 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA3b_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 56 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2052 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA4a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 315 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 2634 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA4p_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 102 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 1651 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA6_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 888 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 7923 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA44_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 52 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 1964 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.BA45_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 78 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1229 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.V1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 576 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 3981 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.V2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 1000 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 4334 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.MT_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 107884 Number of reverse mapping hits = 29 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 542 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 470 nlabel points Performing mapping from target back to the source label 107884 Number of reverse mapping hits = 141 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 611 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./lh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 450 nlabel points Performing mapping from target back to the source label 107884 Number of reverse mapping hits = 82 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 532 mri_label2label: Done mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi lh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose Reading ctab /export/apps/freesurfer/average/colortable_BA.txt Number of ctab entries 15 $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label cmdline mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi lh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname cluster.hpc.org machine x86_64 user pccui subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS hemi lh SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer ColorTable /export/apps/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 72448 unhit vertices Writing annot to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.BA_exvivo.annot mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi lh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose Reading ctab /export/apps/freesurfer/average/colortable_BA.txt Number of ctab entries 15 $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label cmdline mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi lh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname cluster.hpc.org machine x86_64 user pccui subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS hemi lh SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer ColorTable /export/apps/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 87543 unhit vertices Writing annot to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/lh.BA_exvivo.thresh.annot mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh white computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 122827 Total vertex volume 122184 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /export/apps/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 897 582 1684 2.309 0.856 0.092 0.023 9 0.9 BA1_exvivo 4077 2992 3983 1.382 0.726 0.130 0.032 70 5.9 BA2_exvivo 1010 843 983 1.496 0.602 0.210 0.079 36 4.3 BA3a_exvivo 1728 1275 2508 1.838 0.753 0.112 0.021 14 1.4 BA3b_exvivo 1726 1199 2296 1.791 0.778 0.132 0.047 35 4.2 BA4a_exvivo 1039 701 1309 1.794 0.889 0.086 0.016 8 0.6 BA4p_exvivo 8620 5872 10838 1.770 0.755 0.111 0.037 155 13.2 BA6_exvivo 1402 1049 929 1.151 0.493 0.137 0.046 33 3.3 BA44_exvivo 2302 1562 2741 1.751 0.673 0.127 0.038 30 3.7 BA45_exvivo 2542 1651 3923 2.283 1.266 0.120 0.087 81 14.4 V1_exvivo 6823 4658 8346 1.669 0.984 0.126 0.046 120 15.3 V2_exvivo 1812 1152 2027 1.775 0.636 0.114 0.044 39 3.1 MT_exvivo 702 476 1120 2.072 0.654 0.187 0.093 18 3.2 perirhinal_exvivo 756 490 1161 2.204 0.797 0.156 0.074 21 3.1 entorhinal_exvivo mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS lh white computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 122827 Total vertex volume 122184 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /export/apps/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 547 341 1029 2.310 0.739 0.083 0.014 2 0.3 BA1_exvivo 1554 1125 1750 1.498 0.777 0.120 0.027 20 2.1 BA2_exvivo 860 712 711 1.428 0.573 0.224 0.088 34 4.2 BA3a_exvivo 1032 813 1386 1.788 0.762 0.118 0.022 10 0.8 BA3b_exvivo 1577 1083 2142 1.857 0.811 0.134 0.052 35 4.1 BA4a_exvivo 928 653 1140 1.747 0.868 0.098 0.019 9 0.7 BA4p_exvivo 5103 3442 5984 1.671 0.709 0.116 0.046 108 9.7 BA6_exvivo 736 571 499 1.088 0.388 0.115 0.034 9 1.1 BA44_exvivo 744 503 993 1.823 0.625 0.101 0.018 5 0.5 BA45_exvivo 2738 1771 4132 2.243 1.239 0.124 0.090 89 15.7 V1_exvivo 3361 2306 4470 1.752 1.048 0.124 0.046 56 7.7 V2_exvivo 380 256 416 1.670 0.213 0.087 0.014 2 0.3 MT_exvivo 363 239 569 1.965 0.607 0.178 0.085 9 1.3 perirhinal_exvivo 418 256 630 2.248 0.748 0.159 0.071 8 1.6 entorhinal_exvivo #-------------------------------------------- #@# BA_exvivo Labels rh Fri Dec 18 08:45:20 CST 2020 mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA1_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 185 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 4147 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA2_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 778 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 7465 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3a_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA3a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 178 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 4158 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3b_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA3b_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 187 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 4709 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4a_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA4a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 400 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 6147 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4p_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA4p_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 350 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 4823 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA6_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA6_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 1071 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 13327 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA44_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA44_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 735 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 7647 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA45_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA45_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 1056 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 6411 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V1_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.V1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 364 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 5091 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V2_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.V2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 747 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 8763 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.MT_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.MT_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 100 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 2032 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.entorhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1038 nlabel points Performing mapping from target back to the source label 105809 Number of reverse mapping hits = 642 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1680 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.perirhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 486 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 1238 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 68 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 944 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 289 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 2977 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA3a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 119 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1817 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA3b_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 57 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2240 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA4a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 211 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1599 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA4p_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 24 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1513 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA6_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 565 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 7524 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA44_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 43 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1055 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.BA45_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 89 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1267 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.V1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 235 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 3467 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.V2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 227 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 3664 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.MT_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/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 105809 Number of reverse mapping hits = 2 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 270 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 694 nlabel points Performing mapping from target back to the source label 105809 Number of reverse mapping hits = 512 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 1206 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ID473151317_WFL_Y26_GDM_T1W_ROC_RAS trglabel = ./rh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer FREESURFER_HOME /export/apps/freesurfer Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /state/partition1/home/pccui/Workspace/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white Reading target registration /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 291 nlabel points Performing mapping from target back to the source label 105809 Number of reverse mapping hits = 207 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 498 mri_label2label: Done mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi rh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose Reading ctab /export/apps/freesurfer/average/colortable_BA.txt Number of ctab entries 15 $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label cmdline mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi rh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname cluster.hpc.org machine x86_64 user pccui subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS hemi rh SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer ColorTable /export/apps/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 73324 unhit vertices Writing annot to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.BA_exvivo.annot mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi rh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose Reading ctab /export/apps/freesurfer/average/colortable_BA.txt Number of ctab entries 15 $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ cwd /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label cmdline mris_label2annot --s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS --hemi rh --ctab /export/apps/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname cluster.hpc.org machine x86_64 user pccui subject ID473151317_WFL_Y26_GDM_T1W_ROC_RAS hemi rh SUBJECTS_DIR /state/partition1/home/pccui/Workspace/freesurfer ColorTable /export/apps/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 88355 unhit vertices Writing annot to /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/label/rh.BA_exvivo.thresh.annot mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh white computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 120639 Total vertex volume 120008 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /export/apps/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 847 572 1901 2.585 0.916 0.106 0.019 7 0.8 BA1_exvivo 3724 2624 3288 1.289 0.597 0.127 0.031 59 5.2 BA2_exvivo 1033 828 770 1.273 0.425 0.196 0.058 33 3.3 BA3a_exvivo 1550 1143 2254 1.837 0.803 0.124 0.027 14 1.7 BA3b_exvivo 1448 951 1713 1.679 0.700 0.114 0.043 26 2.9 BA4a_exvivo 1046 778 1064 1.371 0.570 0.105 0.021 8 1.2 BA4p_exvivo 7177 5146 9819 1.768 0.826 0.115 0.029 103 9.2 BA6_exvivo 2419 1698 3041 1.740 0.908 0.141 0.049 52 5.1 BA44_exvivo 3731 2585 3890 1.585 0.557 0.140 0.040 79 6.2 BA45_exvivo 1996 1271 2458 1.811 0.882 0.118 0.048 36 4.5 V1_exvivo 4715 3239 4680 1.511 0.824 0.111 0.033 50 6.7 V2_exvivo 1197 774 1402 1.999 0.633 0.104 0.031 10 1.8 MT_exvivo 1091 711 1963 2.223 0.776 0.138 0.068 21 3.3 perirhinal_exvivo 511 323 832 2.324 0.687 0.125 0.039 7 0.8 entorhinal_exvivo mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab ID473151317_WFL_Y26_GDM_T1W_ROC_RAS rh white computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/mri/wm.mgz... reading input surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... reading input pial surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.pial... reading input white surface /state/partition1/home/pccui/Workspace/freesurfer/ID473151317_WFL_Y26_GDM_T1W_ROC_RAS/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 120639 Total vertex volume 120008 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /export/apps/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1972491 mm^3 (det: 0.987637 ) lhCtxGM: 119230.523 118248.000 diff= 982.5 pctdiff= 0.824 rhCtxGM: 117760.820 115491.000 diff= 2269.8 pctdiff= 1.927 lhCtxWM: 580233.437 581121.500 diff= -888.1 pctdiff=-0.153 rhCtxWM: 581171.125 581896.500 diff= -725.4 pctdiff=-0.125 SubCortGMVol 68036.000 SupraTentVol 1484634.905 (1478019.000) diff=6615.905 pctdiff=0.446 SupraTentVolNotVent 1471411.905 (1464796.000) diff=6615.905 pctdiff=0.450 BrainSegVol 1649883.000 (1646473.000) diff=3410.000 pctdiff=0.207 BrainSegVolNotVent 1631974.000 (1633540.905) diff=-1566.905 pctdiff=-0.096 BrainSegVolNotVent 1631974.000 CerebellumVol 167106.000 VentChorVol 13223.000 3rd4th5thCSF 4686.000 CSFVol 1276.000, OptChiasmVol 72.000 MaskVol 2043094.000 655 406 1336 2.520 0.929 0.084 0.011 3 0.3 BA1_exvivo 1955 1403 1936 1.327 0.611 0.120 0.027 27 2.1 BA2_exvivo 934 726 626 1.245 0.396 0.201 0.061 32 3.2 BA3a_exvivo 1210 939 1699 1.789 0.821 0.133 0.028 13 1.3 BA3b_exvivo 963 636 1120 1.564 0.668 0.126 0.052 21 2.4 BA4a_exvivo 812 627 838 1.357 0.568 0.077 0.010 3 0.3 BA4p_exvivo 4316 3143 6094 1.803 0.848 0.119 0.033 72 6.4 BA6_exvivo 476 335 856 2.372 1.021 0.122 0.022 4 0.3 BA44_exvivo 689 488 754 1.667 0.533 0.151 0.061 19 1.3 BA45_exvivo 1927 1204 2350 1.827 0.893 0.118 0.049 35 4.5 V1_exvivo 2241 1600 2437 1.579 0.897 0.105 0.028 19 2.5 V2_exvivo 153 108 165 1.646 0.255 0.111 0.020 1 0.2 MT_exvivo 661 417 1221 2.332 0.828 0.125 0.066 11 2.0 perirhinal_exvivo 462 287 765 2.256 0.621 0.153 0.067 10 1.2 entorhinal_exvivo Started at Wed Dec 16 18:52:47 CST 2020 Ended at Fri Dec 18 08:48:23 CST 2020 #@#%# recon-all-run-time-hours 37.927 recon-all -s ID473151317_WFL_Y26_GDM_T1W_ROC_RAS finished without error at Fri Dec 18 08:48:23 CST 2020