Mon Aug 24 09:54:20 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m /usr/local/freesurfer/7.1.0/bin/recon-all -all -i /autofs/cluster/cagndicom/MRI/MIND/bay3/CREST-E_data/BRUA84m/DICOM_ScanDirs/004_MEMPRAGE_vb17_MEMPRAGE_vb17_RMS/TrioTim-35162-20140918-112347-050000_MR.1.3.12.2.1107.5.2.32.35162.2014091811320811074534462 -s BRUA84m subjid BRUA84m setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Actual FREESURFER_HOME /autofs/cluster/freesurfer/centos7_x86_64/7.1.0 build-stamp.txt: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b Linux c3po.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize unlimited coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 131070 memorylocked 64 kbytes maxproc 766451 maxlocks unlimited maxsignal 766451 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 187G 2.1G 183G 67M 2.1G 184G Swap: 127G 0B 127G ######################################## program versions used 7.1.0 (freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b) 7.1.0 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:20-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:20-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:20-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:20-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:20-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:21-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 7.1.0 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 7.1.0 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:22-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:23-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:24-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:24-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:24-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:24-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:24-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:24-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 mri_motion_correct.fsl 7.1.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.1.0 TimeStamp: 2020/08/24-13:54:24-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: yh896 Machine: c3po.nmr.mgh.harvard.edu Platform: Linux PlatformVersion: 3.10.0-1062.4.3.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 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 ####################################### GCADIR /usr/local/freesurfer/7.1.0/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /usr/local/freesurfer/7.1.0/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m mri_convert /autofs/cluster/cagndicom/MRI/MIND/bay3/CREST-E_data/BRUA84m/DICOM_ScanDirs/004_MEMPRAGE_vb17_MEMPRAGE_vb17_RMS/TrioTim-35162-20140918-112347-050000_MR.1.3.12.2.1107.5.2.32.35162.2014091811320811074534462 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig/001.mgz mri_convert /autofs/cluster/cagndicom/MRI/MIND/bay3/CREST-E_data/BRUA84m/DICOM_ScanDirs/004_MEMPRAGE_vb17_MEMPRAGE_vb17_RMS/TrioTim-35162-20140918-112347-050000_MR.1.3.12.2.1107.5.2.32.35162.2014091811320811074534462 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig/001.mgz reading from /autofs/cluster/cagndicom/MRI/MIND/bay3/CREST-E_data/BRUA84m/DICOM_ScanDirs/004_MEMPRAGE_vb17_MEMPRAGE_vb17_RMS/TrioTim-35162-20140918-112347-050000_MR.1.3.12.2.1107.5.2.32.35162.2014091811320811074534462... Getting Series No INFO: Found 178 files in /autofs/cluster/cagndicom/MRI/MIND/bay3/CREST-E_data/BRUA84m/DICOM_ScanDirs/004_MEMPRAGE_vb17_MEMPRAGE_vb17_RMS INFO: Scanning for Series Number 4 Scanning Directory INFO: found 176 files in series INFO: loading series header info. RunNo = 3 INFO: sorting. sdfiSameSlicePos() eps = 0.000001 INFO: (256 256 176), nframes = 1, ismosaic=0 sdfi->UseSliceScaleFactor 0 INFO: rescale not needed datatype = 4, short=4, float=3 PE Dir ROW ROW AutoAlign matrix detected AutoAlign Matrix --------------------- 0.95689 -0.27087 0.10478 5.31728; 0.27550 0.96076 -0.03227 -5.26450; -0.09193 0.05974 0.99397 -3.24909; 0.00000 0.00000 0.00000 1.00000; FileName /autofs/cluster/cagndicom/MRI/MIND/bay3/CREST-E_data/BRUA84m/DICOM_ScanDirs/004_MEMPRAGE_vb17_MEMPRAGE_vb17_RMS/TrioTim-35162-20140918-112347-050000_MR.1.3.12.2.1107.5.2.32.35162.2014091811320811074534462 Identification NumarisVer syngo MR B17 ScannerModel TrioTim PatientName BRUA84m Date and time StudyDate 20140918 StudyTime 112347.050000 SeriesTime 113210.604000 AcqTime 112615.530000 Acquisition parameters PulseSeq tfl3d4_ns Protocol MEMPRAGE-vb17 PhEncDir ROW EchoNo 1 FlipAngle 7 EchoTime 1.64 InversionTime 1200 RepetitionTime 2530 PhEncFOV 256 ReadoutFOV 256 Image information RunNo 3 SeriesNo 4 ImageNo 1 NImageRows 256 NImageCols 256 NFrames 1 SliceArraylSize 1 IsMosaic 0 ImgPos 36.1554 153.0538 142.2068 VolRes 1.0000 1.0000 1.0000 VolDim 256 256 176 Vc 0.2871 -0.9450 -0.1568 Vr 0.0437 0.1764 -0.9833 Vs -0.9569 -0.2755 -0.0919 VolCenter -5.7084 30.4389 -11.8224 TransferSyntaxUID 1.2.840.10008.1.2.1 UseSliceScaleFactor 0 (slice 0: 1) IsDWI = 0 INFO: no Siemens slice order reversal detected (good!). TR=2530.00, TE=1.64, TI=1200.00, flip angle=7.00 i_ras = (0.287132, -0.944969, -0.156809) j_ras = (0.0436729, 0.176447, -0.983341) k_ras = (-0.956895, -0.2755, -0.0919329) writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig/001.mgz... @#@FSTIME 2020:08:24:09:54:24 mri_convert N 2 e 25.25 S 7.29 U 10.94 P 72% M 27664 F 1 R 142895 W 0 c 433 w 11258 I 70832 O 21112 L 0.22 0.06 0.06 @#@FSLOADPOST 2020:08:24:09:54:49 mri_convert N 2 0.56 0.15 0.09 #-------------------------------------------- #@# MotionCor Mon Aug 24 09:54:50 EDT 2020 Found 1 runs /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... Only one run found so motion correction will not be performed. I'll copy the run to rawavg and continue. cp /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig/001.mgz /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m mri_convert /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz --conform mri_convert /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz --conform reading from /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz... TR=2530.00, TE=1.64, TI=1200.00, flip angle=7.00 i_ras = (0.287132, -0.944969, -0.156809) j_ras = (0.0436729, 0.176447, -0.983341) k_ras = (-0.956895, -0.2755, -0.0919329) changing data type from short to uchar (noscale = 0)... MRIchangeType: Building histogram 0 695 1000, flo=0, fhi=0.999, dest_type=0 Reslicing using trilinear interpolation writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz... @#@FSTIME 2020:08:24:09:54:53 mri_convert N 3 e 3.38 S 0.02 U 3.26 P 97% M 37224 F 0 R 3433 W 0 c 7 w 460 I 0 O 14000 L 0.52 0.15 0.09 @#@FSLOADPOST 2020:08:24:09:54:57 mri_convert N 3 0.48 0.15 0.09 mri_add_xform_to_header -c /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/transforms/talairach.xfm /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz INFO: extension is mgz @#@FSTIME 2020:08:24:09:54:57 mri_add_xform_to_header N 4 e 1.37 S 0.01 U 1.18 P 87% M 19688 F 5 R 1451 W 0 c 2 w 485 I 5736 O 14000 L 0.48 0.15 0.09 @#@FSLOADPOST 2020:08:24:09:54:58 mri_add_xform_to_header N 4 0.48 0.15 0.09 #-------------------------------------------- #@# Talairach Mon Aug 24 09:54:58 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 /usr/bin/bc /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri /usr/local/freesurfer/7.1.0/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.1.0 Linux c3po.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux Mon Aug 24 09:54:58 EDT 2020 Found /dev/shm , will use for temp dir tmpdir is /dev/shm/tmp.mri_nu_correct.mni.143351 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o /dev/shm/tmp.mri_nu_correct.mni.143351/nu0.mgz Using shrink factor: 4 mri_convert /dev/shm/tmp.mri_nu_correct.mni.143351/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert /dev/shm/tmp.mri_nu_correct.mni.143351/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from /dev/shm/tmp.mri_nu_correct.mni.143351/nu0.mgz... TR=2530.00, TE=1.64, TI=1200.00, flip angle=7.00 i_ras = (-1, 0, 0) j_ras = (-7.45058e-09, -1.11759e-08, -1) k_ras = (-2.98023e-08, 1, -7.45058e-09) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon Aug 24 09:58:00 EDT 2020 mri_nu_correct.mni done @#@FSTIME 2020:08:24:09:54:58 mri_nu_correct.mni N 12 e 181.69 S 0.17 U 180.93 P 99% M 485236 F 6 R 27280 W 0 c 142 w 677 I 6536 O 11968 L 0.48 0.15 0.09 @#@FSLOADPOST 2020:08:24:09:58:00 mri_nu_correct.mni N 12 0.97 0.53 0.25 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... Started at Mon Aug 24 09:58:00 EDT 2020 Ended at Mon Aug 24 09:58:24 EDT 2020 talairach_avi done @#@FSTIME 2020:08:24:09:58:00 talairach_avi N 4 e 23.62 S 0.94 U 13.45 P 60% M 253796 F 6 R 33890 W 0 c 584 w 12363 I 270760 O 296040 L 0.90 0.53 0.25 @#@FSLOADPOST 2020:08:24:09:58:24 talairach_avi N 4 0.78 0.52 0.25 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /usr/local/freesurfer/7.1.0/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.1.0 --src: orig.mgz src image (geometry). --trg: /usr/local/freesurfer/7.1.0/average/mni305.cor.mgz trg image (geometry). --inmni: transforms/talairach.xfm input MNI/XFM transform. --outlta: transforms/talairach.xfm.lta output LTA. --s: fsaverage subject name --ltavox2vox: output LTA as VOX_TO_VOX transform. LTA read, type : 1 1.04304 0.27570 0.10592 1.71647; -0.35497 0.94851 0.42193 -22.67401; 0.02722 -0.46957 1.18321 9.12511; 0.00000 0.00000 0.00000 1.00000; setting subject to fsaverage Writing LTA to file transforms/talairach.xfm.lta... lta_convert successful. #-------------------------------------------- #@# Talairach Failure Detection Mon Aug 24 09:58:26 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.2792, pval=0.0254 >= threshold=0.0050) @#@FSTIME 2020:08:24:09:58:26 talairach_afd N 4 e 0.10 S 0.00 U 0.00 P 9% M 2180 F 4 R 644 W 0 c 1 w 25 I 4288 O 0 L 0.72 0.51 0.25 @#@FSLOADPOST 2020:08:24:09:58:26 talairach_afd N 4 0.72 0.51 0.25 awk -f /usr/local/freesurfer/7.1.0/bin/extract_talairach_avi_QA.awk /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/transforms/talairach_avi.log tal_QC_AZS /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/transforms/talairach_avi.log TalAviQA: 0.97312 z-score: -1 #-------------------------------------------- #@# Nu Intensity Correction Mon Aug 24 09:58:26 EDT 2020 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 --ants-n4 /usr/bin/bc /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri /usr/local/freesurfer/7.1.0/bin/mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 --ants-n4 nIters 2 mri_nu_correct.mni 7.1.0 Linux c3po.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux Mon Aug 24 09:58:26 EDT 2020 Found /dev/shm , will use for temp dir tmpdir is /dev/shm/tmp.mri_nu_correct.mni.143864 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz Using shrink factor: 4 mri_binarize --i /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz --min -1 --o /dev/shm/tmp.mri_nu_correct.mni.143864/ones.mgz 7.1.0 cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri cmdline mri_binarize --i /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz --min -1 --o /dev/shm/tmp.mri_nu_correct.mni.143864/ones.mgz sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 input /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz frame 0 nErode3d 0 nErode2d 0 output /dev/shm/tmp.mri_nu_correct.mni.143864/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 16777215 voxels in final mask Count: 16777215 16777215.000000 16777216 99.999994 mri_binarize done mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.143864/ones.mgz --i orig.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.143864/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.143864/input.mean.dat 7.1.0 cwd cmdline mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.143864/ones.mgz --i orig.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.143864/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.143864/input.mean.dat sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 whitesurfname white UseRobust 0 Loading /dev/shm/tmp.mri_nu_correct.mni.143864/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 /dev/shm/tmp.mri_nu_correct.mni.143864/input.mean.dat mri_segstats done mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.143864/ones.mgz --i /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.143864/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.143864/output.mean.dat 7.1.0 cwd cmdline mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.143864/ones.mgz --i /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.143864/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.143864/output.mean.dat sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 whitesurfname white UseRobust 0 Loading /dev/shm/tmp.mri_nu_correct.mni.143864/ones.mgz Loading /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.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 /dev/shm/tmp.mri_nu_correct.mni.143864/output.mean.dat mri_segstats done mris_calc -o /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz mul 1.64200468467306179106 Saving result to '/dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz' (type = MGH ) [ ok ] mri_convert /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz nu.mgz --like orig.mgz mri_convert /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz nu.mgz --like orig.mgz reading from /dev/shm/tmp.mri_nu_correct.mni.143864/nu0.mgz... TR=2530.00, TE=1.64, TI=1200.00, flip angle=7.00 i_ras = (-1, 0, 0) j_ras = (-7.45058e-09, -1.11759e-08, -1) k_ras = (-2.98023e-08, 1, -7.45058e-09) INFO: transform src into the like-volume: orig.mgz writing to nu.mgz... mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz type change took 0 minutes and 5 seconds. mapping (19, 187) to ( 3, 110) Mon Aug 24 10:01:48 EDT 2020 mri_nu_correct.mni done @#@FSTIME 2020:08:24:09:58:26 mri_nu_correct.mni N 9 e 201.27 S 0.55 U 200.00 P 99% M 610276 F 9 R 178359 W 0 c 180 w 1205 I 8928 O 37184 L 0.72 0.51 0.25 @#@FSLOADPOST 2020:08:24:10:01:48 mri_nu_correct.mni N 9 0.95 0.75 0.40 mri_add_xform_to_header -c /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/transforms/talairach.xfm nu.mgz nu.mgz INFO: extension is mgz @#@FSTIME 2020:08:24:10:01:48 mri_add_xform_to_header N 4 e 0.49 S 0.01 U 0.42 P 89% M 19772 F 0 R 1488 W 0 c 2 w 246 I 0 O 7408 L 0.95 0.75 0.40 @#@FSLOADPOST 2020:08:24:10:01:48 mri_add_xform_to_header N 4 0.95 0.75 0.40 #-------------------------------------------- #@# Intensity Normalization Mon Aug 24 10:01:48 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_normalize -g 1 -seed 1234 -mprage nu.mgz T1.mgz using max gradient = 1.000 setting seed for random number genererator to 1234 assuming input volume is MGH (Van der Kouwe) MP-RAGE reading mri_src from nu.mgz... normalizing image... talairach transform 1.04304 0.27570 0.10592 1.71647; -0.35497 0.94851 0.42193 -22.67401; 0.02722 -0.46957 1.18321 9.12511; 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 = 19 Starting OpenSpline(): npoints = 19 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 109 gm peak at 65 (65), valley at 34 (34) csf peak at 33, setting threshold to 54 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 63 (63), valley at 32 (32) csf peak at 32, setting threshold to 52 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 1 minutes and 34 seconds. @#@FSTIME 2020:08:24:10:01:48 mri_normalize N 7 e 94.19 S 0.09 U 93.81 P 99% M 579272 F 2 R 11234 W 0 c 54 w 230 I 1728 O 7136 L 0.95 0.75 0.40 @#@FSLOADPOST 2020:08:24:10:03:23 mri_normalize N 7 0.99 0.82 0.45 #-------------------------------------------- #@# Skull Stripping Mon Aug 24 10:03:23 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_em_register -skull nu.mgz /usr/local/freesurfer/7.1.0/average/RB_all_withskull_2020_01_02.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 '/usr/local/freesurfer/7.1.0/average/RB_all_withskull_2020_01_02.gca'... GCAread took 0 minutes and 1 seconds. average std = 23.0 using min determinant for regularization = 52.8 0 singular and 9205 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 8.9 or > 556.0 total sample mean = 77.3 (1403 zeros) ************************************************ spacing=8, using 3292 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 3292, 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=27.9 skull bounding box = (49, 44, 14) --> (197, 255, 206) finding center of left hemi white matter using (98, 114, 110) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 108, using box (80,88,86) --> (116, 140,133) to find MRI wm before smoothing, mri peak at 108 robust fit to distribution - 108 +- 3.9 after smoothing, mri peak at 108, scaling input intensities by 1.000 scaling channel 0 by 1 initial log_p = -4.534 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.493594 @ (10.526, -10.526, 10.526) max log p = -4.473889 @ (-5.263, 5.263, -5.263) max log p = -4.447461 @ (2.632, 7.895, -2.632) max log p = -4.439511 @ (1.316, -11.842, 3.947) max log p = -4.432193 @ (-4.605, 9.868, -7.237) max log p = -4.424487 @ (0.329, -1.645, 4.276) max log p = -4.424487 @ (0.000, 0.000, 0.000) max log p = -4.424487 @ (0.000, 0.000, 0.000) Found translation: (4.9, -1.0, 3.6): log p = -4.424 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.112, old_max_log_p =-4.424 (thresh=-4.4) 1.10638 0.02601 -0.30388 13.35394; 0.11446 1.01326 0.35835 -53.09213; 0.27296 -0.40480 0.94260 28.65895; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 21 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.012, old_max_log_p =-4.112 (thresh=-4.1) 1.11186 0.15805 -0.25450 -3.66906; -0.03325 1.07629 0.42456 -42.75700; 0.27296 -0.40480 0.94260 28.65895; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 20 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.989, old_max_log_p =-4.012 (thresh=-4.0) 1.02847 0.14619 -0.23541 5.98881; -0.03575 1.15701 0.45641 -56.62204; 0.27296 -0.40480 0.94260 28.65895; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 20 seconds. **************************************** Nine parameter search. iteration 3 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.989, old_max_log_p =-3.989 (thresh=-4.0) 1.02847 0.14619 -0.23541 5.98881; -0.03575 1.15701 0.45641 -56.62204; 0.27296 -0.40480 0.94260 28.65895; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 19 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.914, old_max_log_p =-3.989 (thresh=-4.0) 1.02909 0.10826 -0.25022 8.80692; -0.00204 1.13940 0.44005 -56.49524; 0.27789 -0.41210 0.95961 25.29492; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 18 seconds. **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.909, old_max_log_p =-3.914 (thresh=-3.9) 1.02877 0.14502 -0.23467 4.15757; -0.02712 1.14219 0.48813 -58.98686; 0.27260 -0.44074 0.92699 33.32649; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 18 seconds. **************************************** Nine parameter search. iteration 6 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.909, old_max_log_p =-3.909 (thresh=-3.9) 1.02877 0.14502 -0.23467 4.15757; -0.02712 1.14219 0.48813 -58.98686; 0.27260 -0.44074 0.92699 33.32649; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 18 seconds. **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.887, old_max_log_p =-3.909 (thresh=-3.9) 1.03269 0.10801 -0.25152 9.47172; 0.00879 1.14402 0.48831 -63.72050; 0.27235 -0.44958 0.92190 34.61467; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 16 seconds. **************************************** Nine parameter search. iteration 8 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.881, old_max_log_p =-3.887 (thresh=-3.9) 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 16 seconds. **************************************** Nine parameter search. iteration 9 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.881, old_max_log_p =-3.881 (thresh=-3.9) 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 3292 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; nsamples 3292 Quasinewton: input matrix 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 012: -log(p) = -0.0 tol 0.000010 Resulting transform: 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.881 (old=-4.534) transform before final EM align: 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 364986 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; nsamples 364986 Quasinewton: input matrix 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 6 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 014: -log(p) = 4.2 tol 0.000000 final transform: 1.02922 0.11155 -0.25875 10.23664; 0.00879 1.14402 0.48831 -64.18925; 0.28112 -0.44921 0.92089 33.11166; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach_with_skull.lta... #VMPC# mri_em_register VmPeak 904308 FSRUNTIME@ mri_em_register 0.2342 hours 1 threads registration took 14 minutes and 3 seconds. @#@FSTIME 2020:08:24:10:03:23 mri_em_register N 4 e 843.29 S 1.09 U 840.10 P 99% M 626216 F 2 R 114677 W 0 c 227 w 76 I 151648 O 32 L 0.99 0.82 0.45 @#@FSLOADPOST 2020:08:24:10:17:26 mri_em_register N 4 1.01 1.00 0.79 mri_watershed -T1 -brain_atlas /usr/local/freesurfer/7.1.0/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=125 y=112 z=102 r=85 first estimation of the main basin volume: 2600066 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=137, y=110, z=62, 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=8788605259 voxels, voxel volume =1.000 = 8788605259 mmm3 = 8788604.928 cm3 done. PostAnalyze...Basin Prior 4 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=123,y=116, z=97, r=9465 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=3, CSF_MAX=12 , nb = 43650 RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=45 , nb = 3132 LEFT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=42 , nb = 2646 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=3, CSF_MAX=11 , nb = 18684 LEFT_BRAIN CSF_MIN=0, CSF_intensity=4, CSF_MAX=12 , nb = 18918 OTHER CSF_MIN=1, CSF_intensity=25, CSF_MAX=110 , nb = 270 Problem with the least square interpolation in GM_MIN calculation. CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 12, 21, 47, 70 after analyzing : 12, 38, 47, 46 RIGHT_CER before analyzing : 45, 43, 43, 85 after analyzing : 26, 43, 43, 53 LEFT_CER before analyzing : 42, 51, 57, 81 after analyzing : 42, 55, 57, 61 RIGHT_BRAIN before analyzing : 11, 18, 44, 70 after analyzing : 11, 35, 44, 43 LEFT_BRAIN before analyzing : 12, 21, 48, 70 after analyzing : 12, 39, 48, 46 OTHER before analyzing : 110, 26, 22, 27 after analyzing : 25, 26, 26, 26 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...63 iterations *********************VALIDATION********************* curvature mean = -0.014, std = 0.013 curvature mean = 65.697, std = 6.759 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 6.13, sigma = 11.44 after rotation: sse = 6.13, sigma = 11.44 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 10.83, its var is 22.79 before Erosion-Dilatation 10.50% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...49 iterations mri_strip_skull: done peeling brain Brain Size = 1429722 voxels, voxel volume = 1.000 mm3 = 1429722 mmm3 = 1429.722 cm3 MRImask(): AllowDiffGeom = 1 ****************************** Saving brainmask.auto.mgz done mri_watershed utimesec 14.027125 mri_watershed stimesec 0.290816 mri_watershed ru_maxrss 812872 mri_watershed ru_ixrss 0 mri_watershed ru_idrss 0 mri_watershed ru_isrss 0 mri_watershed ru_minflt 187083 mri_watershed ru_majflt 3 mri_watershed ru_nswap 0 mri_watershed ru_inblock 10104 mri_watershed ru_oublock 2312 mri_watershed ru_msgsnd 0 mri_watershed ru_msgrcv 0 mri_watershed ru_nsignals 0 mri_watershed ru_nvcsw 157 mri_watershed ru_nivcsw 13 mri_watershed done @#@FSTIME 2020:08:24:10:17:27 mri_watershed N 6 e 14.65 S 0.34 U 14.02 P 98% M 812872 F 3 R 187091 W 0 c 13 w 159 I 10104 O 2312 L 1.01 1.00 0.79 @#@FSLOADPOST 2020:08:24:10:17:41 mri_watershed N 6 1.01 1.00 0.79 cp brainmask.auto.mgz brainmask.mgz #------------------------------------- #@# EM Registration Mon Aug 24 10:17:42 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_em_register -uns 3 -mask brainmask.mgz nu.mgz /usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.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 '/usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.gca'... GCAread took 0 minutes and 1 seconds. average std = 7.2 using min determinant for regularization = 5.2 0 singular and 884 ill-conditioned covariance matrices regularized reading 'nu.mgz'... MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 5.9 or > 519.0 total sample mean = 79.1 (1017 zeros) ************************************************ spacing=8, using 2841 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 2841, 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=15.9 skull bounding box = (58, 60, 26) --> (187, 191, 168) finding center of left hemi white matter using (101, 104, 97) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (85,88,80) --> (116, 120,114) to find MRI wm before smoothing, mri peak at 108 robust fit to distribution - 107 +- 3.8 after smoothing, mri peak at 107, scaling input intensities by 1.000 scaling channel 0 by 1 initial log_p = -4.099 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.098584 @ (0.000, 0.000, 0.000) max log p = -4.098584 @ (0.000, 0.000, 0.000) max log p = -4.088812 @ (2.632, -2.632, -2.632) max log p = -4.068817 @ (-3.947, 3.947, 6.579) max log p = -4.062635 @ (0.658, -0.658, 0.658) max log p = -4.049509 @ (0.329, 0.329, 0.329) max log p = -4.049509 @ (0.000, 0.000, 0.000) max log p = -4.049509 @ (0.000, 0.000, 0.000) Found translation: (-0.3, 1.0, 4.9): log p = -4.050 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.672, old_max_log_p =-4.050 (thresh=-4.0) 1.11081 0.07704 -0.28750 5.35944; 0.00000 1.19413 0.31997 -54.13113; 0.25882 -0.25000 0.93301 8.33747; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 10 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.652, old_max_log_p =-3.672 (thresh=-3.7) 1.02750 0.07126 -0.26594 14.46764; 0.03378 1.15128 0.43901 -65.31944; 0.27585 -0.43401 0.94951 26.28279; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 10 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.641, old_max_log_p =-3.652 (thresh=-3.6) 1.10457 0.07660 -0.28588 6.04254; 0.03378 1.15128 0.43901 -65.31944; 0.25516 -0.40145 0.87830 32.21815; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 10 seconds. **************************************** Nine parameter search. iteration 3 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.641, old_max_log_p =-3.641 (thresh=-3.6) 1.10457 0.07660 -0.28588 6.04254; 0.03378 1.15128 0.43901 -65.31944; 0.25516 -0.40145 0.87830 32.21815; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 10 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.516, old_max_log_p =-3.641 (thresh=-3.6) 1.05446 0.07854 -0.30653 15.75489; 0.01166 1.21907 0.39425 -62.05066; 0.29690 -0.32630 0.91325 16.57704; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 10 seconds. **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.506, old_max_log_p =-3.516 (thresh=-3.5) 1.04942 0.13729 -0.21685 2.66660; -0.06815 1.22256 0.37942 -51.01235; 0.23178 -0.29622 0.96143 18.39577; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 10 seconds. **************************************** Nine parameter search. iteration 6 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.493, old_max_log_p =-3.506 (thresh=-3.5) 1.02339 0.10483 -0.25559 13.38471; -0.03405 1.22672 0.37110 -54.88743; 0.27098 -0.29703 0.97170 12.67376; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 10 seconds. **************************************** Nine parameter search. iteration 7 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.483, old_max_log_p =-3.493 (thresh=-3.5) 1.00420 0.10286 -0.25080 15.51128; -0.03405 1.22672 0.37110 -54.88743; 0.27098 -0.29703 0.97170 12.67376; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 9 seconds. **************************************** Nine parameter search. iteration 8 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.483, old_max_log_p =-3.483 (thresh=-3.5) 1.00420 0.10286 -0.25080 15.51128; -0.03405 1.22672 0.37110 -54.88743; 0.27098 -0.29703 0.97170 12.67376; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 9 seconds. **************************************** Nine parameter search. iteration 9 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.438, old_max_log_p =-3.483 (thresh=-3.5) 1.00079 0.10816 -0.26687 16.40095; -0.02954 1.21883 0.38604 -55.50114; 0.28891 -0.31645 0.96465 13.85793; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 8 seconds. **************************************** Nine parameter search. iteration 10 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.436, old_max_log_p =-3.438 (thresh=-3.4) 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 2841 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; nsamples 2841 Quasinewton: input matrix 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 4 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 013: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.436 (old=-4.099) transform before final EM align: 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 315638 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; nsamples 315638 Quasinewton: input matrix 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 6 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 015: -log(p) = 3.9 tol 0.000000 final transform: 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... #VMPC# mri_em_register VmPeak 891752 FSRUNTIME@ mri_em_register 0.2257 hours 1 threads registration took 13 minutes and 32 seconds. @#@FSTIME 2020:08:24:10:17:42 mri_em_register N 7 e 812.47 S 1.12 U 809.29 P 99% M 613684 F 0 R 112181 W 0 c 234 w 75 I 139952 O 24 L 1.01 1.00 0.79 @#@FSLOADPOST 2020:08:24:10:31:15 mri_em_register N 7 1.00 1.01 0.91 #-------------------------------------- #@# CA Normalize Mon Aug 24 10:31:15 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.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 '/usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.gca'... reading transform from 'transforms/talairach.lta'... reading input volume from nu.mgz... MRImask(): AllowDiffGeom = 1 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 = (58, 60, 26) --> (187, 190, 168) finding center of left hemi white matter using (101, 103, 97) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (85,87,80) --> (116, 118,114) to find MRI wm before smoothing, mri peak at 108 robust fit to distribution - 107 +- 3.8 after smoothing, mri peak at 107, scaling input intensities by 1.000 scaling channel 0 by 1 using 246437 sample points... INFO: compute sample coordinates transform 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50114; 0.28925 -0.31682 0.96578 13.75064; 0.00000 0.00000 0.00000 1.00000; INFO: transform used finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (102, 65, 25) --> (185, 162, 174) Left_Cerebral_White_Matter: limiting intensities to 99.0 --> 132.0 0 of 1806 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (60, 62, 31) --> (141, 151, 181) Right_Cerebral_White_Matter: limiting intensities to 97.0 --> 132.0 0 of 2249 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (112, 135, 50) --> (161, 175, 102) Left_Cerebellum_White_Matter: limiting intensities to 97.0 --> 132.0 0 of 25 (0.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (72, 135, 58) --> (116, 168, 109) Right_Cerebellum_White_Matter: limiting intensities to 97.0 --> 132.0 0 of 41 (0.0%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (106, 124, 86) --> (139, 180, 116) Brain_Stem: limiting intensities to 98.0 --> 132.0 0 of 88 (0.0%) samples deleted using 4209 total control points for intensity normalization... bias field = 0.962 +- 0.051 34 of 4209 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (102, 65, 25) --> (185, 162, 174) Left_Cerebral_White_Matter: limiting intensities to 92.0 --> 132.0 4 of 2425 (0.2%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (60, 62, 31) --> (141, 151, 181) Right_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0 0 of 2786 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (112, 135, 50) --> (161, 175, 102) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 10 of 91 (11.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (72, 135, 58) --> (116, 168, 109) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 5 of 127 (3.9%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (106, 124, 86) --> (139, 180, 116) Brain_Stem: limiting intensities to 88.0 --> 132.0 0 of 187 (0.0%) samples deleted using 5616 total control points for intensity normalization... bias field = 1.023 +- 0.052 30 of 5513 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (102, 65, 25) --> (185, 162, 174) Left_Cerebral_White_Matter: limiting intensities to 91.0 --> 132.0 4 of 2442 (0.2%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (60, 62, 31) --> (141, 151, 181) Right_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0 0 of 2746 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (112, 135, 50) --> (161, 175, 102) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 6 of 67 (9.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (72, 135, 58) --> (116, 168, 109) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 46 of 142 (32.4%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (106, 124, 86) --> (139, 180, 116) Brain_Stem: limiting intensities to 88.0 --> 132.0 71 of 264 (26.9%) samples deleted using 5661 total control points for intensity normalization... bias field = 1.020 +- 0.041 14 of 5409 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 1 minutes and 4 seconds. @#@FSTIME 2020:08:24:10:31:16 mri_ca_normalize N 8 e 64.48 S 0.27 U 63.96 P 99% M 890768 F 2 R 124298 W 0 c 23 w 138 I 1720 O 3504 L 1.08 1.03 0.92 @#@FSLOADPOST 2020:08:24:10:32:20 mri_ca_normalize N 8 1.03 1.03 0.92 #-------------------------------------- #@# CA Reg Mon Aug 24 10:32:20 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_ca_register -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.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'... MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 reading GCA '/usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.gca'... label assignment complete, 0 changed (0.00%) freeing gibbs priors...done. average std[0] = 5.0 Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.156 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.16 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.88257 #FOTS# QuadFit found better minimum quadopt=(dt=258.131,rms=0.789785) vs oldopt=(dt=92.48,rms=0.821835) #GCMRL# 0 dt 258.130797 rms 0.790 10.513% neg 0 invalid 762 tFOTS 13.9130 tGradient 6.3540 tsec 21.3300 #FOTS# QuadFit found better minimum quadopt=(dt=215.314,rms=0.76508) vs oldopt=(dt=92.48,rms=0.773121) #GCMRL# 1 dt 215.314286 rms 0.765 3.128% neg 0 invalid 762 tFOTS 14.8180 tGradient 6.4760 tsec 22.3510 #FOTS# QuadFit found better minimum quadopt=(dt=241.469,rms=0.754463) vs oldopt=(dt=369.92,rms=0.75703) #GCMRL# 2 dt 241.468816 rms 0.754 1.388% neg 0 invalid 762 tFOTS 14.8120 tGradient 6.4030 tsec 22.2720 #FOTS# QuadFit found better minimum quadopt=(dt=157.737,rms=0.749162) vs oldopt=(dt=92.48,rms=0.750357) #GCMRL# 3 dt 157.737374 rms 0.749 0.703% neg 0 invalid 762 tFOTS 15.7060 tGradient 6.4370 tsec 23.2050 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.741141) vs oldopt=(dt=369.92,rms=0.741536) #GCMRL# 4 dt 517.888000 rms 0.741 1.071% neg 0 invalid 762 tFOTS 14.8090 tGradient 6.4170 tsec 22.2900 #FOTS# QuadFit found better minimum quadopt=(dt=110.976,rms=0.736879) vs oldopt=(dt=92.48,rms=0.736925) #GCMRL# 5 dt 110.976000 rms 0.737 0.575% neg 0 invalid 762 tFOTS 14.7730 tGradient 6.3940 tsec 22.2240 #FOTS# QuadFit found better minimum quadopt=(dt=2071.55,rms=0.720037) vs oldopt=(dt=1479.68,rms=0.723074) #GCMRL# 6 dt 2071.552000 rms 0.720 2.286% neg 0 invalid 762 tFOTS 14.7710 tGradient 6.4850 tsec 22.3110 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.719286) vs oldopt=(dt=92.48,rms=0.719344) #GCMRL# 7 dt 73.984000 rms 0.719 0.000% neg 0 invalid 762 tFOTS 15.6450 tGradient 6.3350 tsec 23.0550 #GCMRL# 8 dt 73.984000 rms 0.719 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.6420 tsec 7.7000 #GCMRL# 9 dt 73.984000 rms 0.719 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4000 tsec 7.4600 #GCMRL# 10 dt 73.984000 rms 0.718 0.067% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3680 tsec 7.4280 #GCMRL# 11 dt 73.984000 rms 0.717 0.140% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4370 tsec 7.5010 #GCMRL# 12 dt 73.984000 rms 0.716 0.159% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4320 tsec 7.4910 #GCMRL# 13 dt 73.984000 rms 0.715 0.132% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3800 tsec 7.4400 #GCMRL# 14 dt 73.984000 rms 0.714 0.115% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3740 tsec 7.4330 #GCMRL# 15 dt 73.984000 rms 0.714 0.107% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4270 tsec 7.5070 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.712772) vs oldopt=(dt=369.92,rms=0.712885) #GCMRL# 16 dt 517.888000 rms 0.713 0.123% neg 0 invalid 762 tFOTS 14.8330 tGradient 6.4210 tsec 22.3160 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.711458) vs oldopt=(dt=369.92,rms=0.711593) #GCMRL# 17 dt 295.936000 rms 0.711 0.184% neg 0 invalid 762 tFOTS 14.8030 tGradient 6.4060 tsec 22.2690 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.711275) vs oldopt=(dt=92.48,rms=0.711285) #GCMRL# 18 dt 73.984000 rms 0.711 0.000% neg 0 invalid 762 tFOTS 14.7970 tGradient 6.2720 tsec 22.1490 #GCMRL# 19 dt 73.984000 rms 0.711 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3940 tsec 7.4510 #GCMRL# 20 dt 73.984000 rms 0.711 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3980 tsec 7.4580 #GCMRL# 21 dt 73.984000 rms 0.711 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3820 tsec 7.4410 #GCMRL# 22 dt 73.984000 rms 0.710 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3350 tsec 7.3950 #GCMRL# 23 dt 73.984000 rms 0.709 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4020 tsec 7.4600 #GCMRL# 24 dt 73.984000 rms 0.709 0.098% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3520 tsec 7.4090 #GCAMreg# pass 0 level1 5 level2 1 tsec 362.22 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.16 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.708504 #FOTS# QuadFit found better minimum quadopt=(dt=221.952,rms=0.707264) vs oldopt=(dt=369.92,rms=0.707489) #GCMRL# 26 dt 221.952000 rms 0.707 0.175% neg 0 invalid 762 tFOTS 14.7580 tGradient 6.3740 tsec 22.1940 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.706962) vs oldopt=(dt=369.92,rms=0.70697) #GCMRL# 27 dt 295.936000 rms 0.707 0.000% neg 0 invalid 762 tFOTS 14.7590 tGradient 6.5050 tsec 22.3410 setting smoothness cost coefficient to 0.615 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.62 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.716806 #FOTS# QuadFit found better minimum quadopt=(dt=93.1343,rms=0.711667) vs oldopt=(dt=103.68,rms=0.711747) #GCMRL# 29 dt 93.134328 rms 0.712 0.717% neg 0 invalid 762 tFOTS 14.7790 tGradient 4.8110 tsec 20.6480 #FOTS# QuadFit found better minimum quadopt=(dt=392.564,rms=0.691893) vs oldopt=(dt=414.72,rms=0.691949) #GCMRL# 30 dt 392.564195 rms 0.692 2.779% neg 0 invalid 762 tFOTS 14.7690 tGradient 4.9140 tsec 20.7420 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.688357) vs oldopt=(dt=25.92,rms=0.688762) #GCMRL# 31 dt 36.288000 rms 0.688 0.511% neg 0 invalid 762 tFOTS 14.7930 tGradient 4.8190 tsec 20.6680 #FOTS# QuadFit found better minimum quadopt=(dt=15.552,rms=0.68814) vs oldopt=(dt=25.92,rms=0.688162) #GCMRL# 32 dt 15.552000 rms 0.688 0.000% neg 0 invalid 762 tFOTS 13.9140 tGradient 4.7220 tsec 19.7130 #GCMRL# 33 dt 15.552000 rms 0.688 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7480 tsec 5.8060 #GCAMreg# pass 0 level1 4 level2 1 tsec 98.767 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.62 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.688582 #GCMRL# 35 dt 0.000000 rms 0.688 0.071% neg 0 invalid 762 tFOTS 14.8350 tGradient 4.7560 tsec 20.6490 setting smoothness cost coefficient to 2.353 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.35 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.715168 #FOTS# QuadFit found better minimum quadopt=(dt=0.4,rms=0.714685) vs oldopt=(dt=0.5,rms=0.714685) #GCMRL# 37 dt 0.400000 rms 0.715 0.068% neg 0 invalid 762 tFOTS 13.9440 tGradient 4.0790 tsec 19.0780 #FOTS# QuadFit found better minimum quadopt=(dt=0.075,rms=0.714686) vs oldopt=(dt=0.125,rms=0.714686) #GCAMreg# pass 0 level1 3 level2 1 tsec 43.521 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.35 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.715155 #GCMRL# 39 dt 0.000000 rms 0.715 0.065% neg 0 invalid 762 tFOTS 13.0660 tGradient 4.0800 tsec 18.2040 setting smoothness cost coefficient to 8.000 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=8.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.794215 #FOTS# QuadFit found better minimum quadopt=(dt=2.92672,rms=0.771711) vs oldopt=(dt=2.88,rms=0.771714) #GCMRL# 41 dt 2.926721 rms 0.772 2.834% neg 0 invalid 762 tFOTS 13.9410 tGradient 3.4980 tsec 18.5000 #FOTS# QuadFit found better minimum quadopt=(dt=0.5,rms=0.771529) vs oldopt=(dt=0.72,rms=0.771574) #GCMRL# 42 dt 0.500000 rms 0.772 0.000% neg 0 invalid 762 tFOTS 13.9340 tGradient 3.4670 tsec 18.4780 #GCMRL# 43 dt 0.500000 rms 0.772 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4630 tsec 4.5220 #GCAMreg# pass 0 level1 2 level2 1 tsec 51.411 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=8.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.772023 #GCMRL# 45 dt 0.000000 rms 0.772 0.065% neg 0 invalid 762 tFOTS 13.0620 tGradient 3.4700 tsec 17.5890 setting smoothness cost coefficient to 20.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=20.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.853419 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.8499) vs oldopt=(dt=0.32,rms=0.850263) #GCMRL# 47 dt 0.448000 rms 0.850 0.412% neg 0 invalid 762 tFOTS 13.9160 tGradient 3.3090 tsec 18.2860 #FOTS# QuadFit found better minimum quadopt=(dt=0.797288,rms=0.842248) vs oldopt=(dt=1.28,rms=0.844588) #GCMRL# 48 dt 0.797288 rms 0.842 0.900% neg 0 invalid 762 tFOTS 13.9130 tGradient 3.3100 tsec 18.2820 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.83979) vs oldopt=(dt=0.32,rms=0.840026) #GCMRL# 49 dt 0.256000 rms 0.840 0.292% neg 0 invalid 762 tFOTS 13.9460 tGradient 3.3720 tsec 18.3740 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.837934) vs oldopt=(dt=0.32,rms=0.838114) #GCMRL# 50 dt 0.448000 rms 0.838 0.000% neg 0 invalid 762 tFOTS 13.9260 tGradient 3.3670 tsec 18.3710 #GCMRL# 51 dt 0.448000 rms 0.835 0.309% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3650 tsec 4.4240 #GCMRL# 52 dt 0.448000 rms 0.832 0.414% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3640 tsec 4.4220 #GCMRL# 53 dt 0.448000 rms 0.831 0.063% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3850 tsec 4.4440 #GCMRL# 54 dt 0.448000 rms 0.831 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3600 tsec 4.4360 #GCMRL# 55 dt 0.320000 rms 0.830 0.186% neg 0 invalid 762 tFOTS 13.8720 tGradient 3.3540 tsec 18.2840 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.828755) vs oldopt=(dt=0.32,rms=0.828788) #GCMRL# 56 dt 0.256000 rms 0.829 0.000% neg 0 invalid 762 tFOTS 13.8700 tGradient 3.3320 tsec 18.2780 #GCMRL# 57 dt 0.256000 rms 0.828 0.077% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2670 tsec 4.3240 #GCMRL# 58 dt 0.256000 rms 0.827 0.105% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3270 tsec 4.3810 #GCMRL# 59 dt 0.256000 rms 0.826 0.139% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3290 tsec 4.3830 #GCMRL# 60 dt 0.256000 rms 0.825 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2610 tsec 4.3140 #GCMRL# 61 dt 0.256000 rms 0.824 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2850 tsec 4.3590 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.824403) vs oldopt=(dt=0.32,rms=0.824413) #GCMRL# 62 dt 0.448000 rms 0.824 0.000% neg 0 invalid 762 tFOTS 13.8430 tGradient 3.3070 tsec 18.2240 #GCMRL# 63 dt 0.448000 rms 0.824 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2860 tsec 4.3390 #GCMRL# 64 dt 0.448000 rms 0.824 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2910 tsec 4.3420 #GCMRL# 65 dt 0.448000 rms 0.824 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2680 tsec 4.3230 #GCAMreg# pass 0 level1 1 level2 1 tsec 190.295 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=20.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.824777 #GCMRL# 67 dt 0.320000 rms 0.824 0.112% neg 0 invalid 762 tFOTS 13.8740 tGradient 3.2600 tsec 18.1860 #GCMRL# 68 dt 0.100000 rms 0.824 0.000% neg 0 invalid 762 tFOTS 12.9730 tGradient 3.2820 tsec 17.3260 resetting metric properties... setting smoothness cost coefficient to 40.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=40.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.792024 #FOTS# QuadFit found better minimum quadopt=(dt=0.256463,rms=0.785032) vs oldopt=(dt=0.32,rms=0.785261) #GCMRL# 70 dt 0.256463 rms 0.785 0.883% neg 0 invalid 762 tFOTS 13.8270 tGradient 2.7080 tsec 17.5850 #FOTS# QuadFit found better minimum quadopt=(dt=0.024,rms=0.784707) vs oldopt=(dt=0.02,rms=0.784722) #GCMRL# 71 dt 0.024000 rms 0.785 0.000% neg 0 invalid 762 tFOTS 13.8100 tGradient 2.7060 tsec 17.5880 #GCAMreg# pass 0 level1 0 level2 1 tsec 44.295 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=40.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.785366 #FOTS# QuadFit found better minimum quadopt=(dt=0.012,rms=0.78465) vs oldopt=(dt=0.02,rms=0.784663) #GCMRL# 73 dt 0.012000 rms 0.785 0.091% neg 0 invalid 762 tFOTS 13.8080 tGradient 2.7020 tsec 17.5560 #FOTS# QuadFit found better minimum quadopt=(dt=0.00175,rms=0.784648) vs oldopt=(dt=0.00125,rms=0.784649) #GCMRL# 74 dt 0.001750 rms 0.785 0.000% neg 0 invalid 762 tFOTS 13.7800 tGradient 2.6910 tsec 17.5510 #GCMRL# 75 dt 0.001750 rms 0.785 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.6850 tsec 3.7320 GCAMregister done in 17.7176 min Starting GCAmapRenormalizeWithAlignment() without scales renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.10253 (16) mri peak = 0.15678 (19) Left_Lateral_Ventricle (4): linear fit = 0.93 x + 0.0 (1584 voxels, overlap=0.606) Left_Lateral_Ventricle (4): linear fit = 0.93 x + 0.0 (1584 voxels, peak = 15), gca=14.8 gca peak = 0.17690 (16) mri peak = 0.15603 (19) Right_Lateral_Ventricle (43): linear fit = 1.10 x + 0.0 (1246 voxels, overlap=0.725) Right_Lateral_Ventricle (43): linear fit = 1.10 x + 0.0 (1246 voxels, peak = 18), gca=17.5 gca peak = 0.28275 (96) mri peak = 0.12843 (101) Right_Pallidum (52): linear fit = 1.04 x + 0.0 (692 voxels, overlap=0.899) Right_Pallidum (52): linear fit = 1.04 x + 0.0 (692 voxels, peak = 100), gca=100.3 gca peak = 0.18948 (93) mri peak = 0.08174 (101) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (578 voxels, overlap=0.836) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (578 voxels, peak = 98), gca=98.1 gca peak = 0.20755 (55) mri peak = 0.08686 (63) Right_Hippocampus (53): linear fit = 1.13 x + 0.0 (485 voxels, overlap=0.229) Right_Hippocampus (53): linear fit = 1.13 x + 0.0 (485 voxels, peak = 62), gca=62.4 gca peak = 0.31831 (58) mri peak = 0.08835 (68) Left_Hippocampus (17): linear fit = 1.12 x + 0.0 (526 voxels, overlap=0.304) Left_Hippocampus (17): linear fit = 1.12 x + 0.0 (526 voxels, peak = 65), gca=64.7 gca peak = 0.11957 (102) mri peak = 0.12118 (105) Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (42936 voxels, overlap=0.576) Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (42936 voxels, peak = 106), gca=105.6 gca peak = 0.11429 (102) mri peak = 0.11091 (105) Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (45198 voxels, overlap=0.597) Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (45198 voxels, peak = 107), gca=106.6 gca peak = 0.14521 (59) mri peak = 0.04247 (69) Left_Cerebral_Cortex (3): linear fit = 1.16 x + 0.0 (10355 voxels, overlap=0.121) Left_Cerebral_Cortex (3): linear fit = 1.16 x + 0.0 (10355 voxels, peak = 69), gca=68.7 gca peak = 0.14336 (58) mri peak = 0.03919 (67) Right_Cerebral_Cortex (42): linear fit = 1.16 x + 0.0 (9975 voxels, overlap=0.152) Right_Cerebral_Cortex (42): linear fit = 1.16 x + 0.0 (9975 voxels, peak = 68), gca=67.6 gca peak = 0.13305 (70) mri peak = 0.05927 (99) Right_Caudate (50): linear fit = 1.12 x + 0.0 (517 voxels, overlap=0.391) Right_Caudate (50): linear fit = 1.12 x + 0.0 (517 voxels, peak = 79), gca=78.8 gca peak = 0.15761 (71) mri peak = 0.10026 (80) Left_Caudate (11): linear fit = 1.09 x + 0.0 (442 voxels, overlap=0.567) Left_Caudate (11): linear fit = 1.09 x + 0.0 (442 voxels, peak = 77), gca=77.0 gca peak = 0.13537 (57) mri peak = 0.04260 (64) Left_Cerebellum_Cortex (8): linear fit = 1.17 x + 0.0 (17537 voxels, overlap=0.432) Left_Cerebellum_Cortex (8): linear fit = 1.17 x + 0.0 (17537 voxels, peak = 67), gca=67.0 gca peak = 0.13487 (56) mri peak = 0.04839 (68) Right_Cerebellum_Cortex (47): linear fit = 1.18 x + 0.0 (20253 voxels, overlap=0.110) Right_Cerebellum_Cortex (47): linear fit = 1.18 x + 0.0 (20253 voxels, peak = 66), gca=66.4 gca peak = 0.19040 (84) mri peak = 0.07082 (90) Left_Cerebellum_White_Matter (7): linear fit = 1.11 x + 0.0 (6931 voxels, overlap=0.306) Left_Cerebellum_White_Matter (7): linear fit = 1.11 x + 0.0 (6931 voxels, peak = 93), gca=92.8 gca peak = 0.18871 (83) mri peak = 0.09872 (88) Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (6535 voxels, overlap=0.699) Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (6535 voxels, peak = 86), gca=85.9 gca peak = 0.24248 (57) mri peak = 0.10708 (66) Left_Amygdala (18): linear fit = 1.18 x + 0.0 (201 voxels, overlap=0.426) Left_Amygdala (18): linear fit = 1.18 x + 0.0 (201 voxels, peak = 68), gca=67.5 gca peak = 0.35833 (56) mri peak = 0.09670 (68) Right_Amygdala (54): linear fit = 1.21 x + 0.0 (222 voxels, overlap=0.047) Right_Amygdala (54): linear fit = 1.21 x + 0.0 (222 voxels, peak = 67), gca=67.5 gca peak = 0.12897 (85) mri peak = 0.07845 (92) Left_Thalamus (10): linear fit = 1.07 x + 0.0 (3752 voxels, overlap=0.860) Left_Thalamus (10): linear fit = 1.07 x + 0.0 (3752 voxels, peak = 91), gca=90.5 gca peak = 0.13127 (83) mri peak = 0.07652 (90) Right_Thalamus (49): linear fit = 1.07 x + 0.0 (2772 voxels, overlap=0.859) Right_Thalamus (49): linear fit = 1.07 x + 0.0 (2772 voxels, peak = 88), gca=88.4 gca peak = 0.12974 (78) mri peak = 0.04753 (84) Left_Putamen (12): linear fit = 1.12 x + 0.0 (1664 voxels, overlap=0.873) Left_Putamen (12): linear fit = 1.12 x + 0.0 (1664 voxels, peak = 88), gca=87.8 gca peak = 0.17796 (79) mri peak = 0.05929 (84) Right_Putamen (51): linear fit = 1.10 x + 0.0 (1705 voxels, overlap=0.788) Right_Putamen (51): linear fit = 1.10 x + 0.0 (1705 voxels, peak = 87), gca=86.5 gca peak = 0.10999 (80) mri peak = 0.10472 (88) Brain_Stem (16): linear fit = 1.10 x + 0.0 (9022 voxels, overlap=0.415) Brain_Stem (16): linear fit = 1.10 x + 0.0 (9022 voxels, peak = 88), gca=87.6 gca peak = 0.13215 (88) mri peak = 0.11472 (94) Right_VentralDC (60): linear fit = 1.09 x + 0.0 (993 voxels, overlap=0.345) Right_VentralDC (60): linear fit = 1.09 x + 0.0 (993 voxels, peak = 95), gca=95.5 gca peak = 0.11941 (89) mri peak = 0.10441 (97) Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1106 voxels, overlap=0.337) Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1106 voxels, peak = 97), gca=97.5 gca peak = 0.20775 (25) mri peak = 0.18413 (22) gca peak = 0.13297 (21) mri peak = 0.18864 (20) Fourth_Ventricle (15): linear fit = 0.98 x + 0.0 (317 voxels, overlap=0.690) Fourth_Ventricle (15): linear fit = 0.98 x + 0.0 (317 voxels, peak = 20), gca=20.5 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.19087 (28) gca peak Third_Ventricle = 0.20775 (25) gca peak CSF = 0.16821 (33) gca peak Left_Accumbens_area = 0.32850 (63) gca peak Left_undetermined = 0.98480 (28) gca peak Left_vessel = 0.40887 (53) gca peak Left_choroid_plexus = 0.10898 (46) gca peak Right_Inf_Lat_Vent = 0.17798 (26) gca peak Right_Accumbens_area = 0.30137 (64) gca peak Right_vessel = 0.47828 (52) gca peak Right_choroid_plexus = 0.11612 (45) gca peak Fifth_Ventricle = 0.59466 (35) gca peak WM_hypointensities = 0.10053 (78) gca peak non_WM_hypointensities = 0.07253 (60) gca peak Optic_Chiasm = 0.25330 (73) not using caudate to estimate GM means estimating mean gm scale to be 1.16 x + 0.0 estimating mean wm scale to be 1.04 x + 0.0 estimating mean csf scale to be 1.00 x + 0.0 saving intensity scales to talairach.label_intensities.txt GCAmapRenormalizeWithAlignment() took 2.68228 min noneg pre Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.008 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.825746 #FOTS# QuadFit found better minimum quadopt=(dt=159.164,rms=0.780099) vs oldopt=(dt=92.48,rms=0.788319) #GCMRL# 77 dt 159.164054 rms 0.780 5.528% neg 0 invalid 762 tFOTS 13.6500 tGradient 6.2280 tsec 20.9150 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.759183) vs oldopt=(dt=369.92,rms=0.759787) #GCMRL# 78 dt 443.904000 rms 0.759 2.681% neg 0 invalid 762 tFOTS 13.6570 tGradient 6.2500 tsec 20.9400 #FOTS# QuadFit found better minimum quadopt=(dt=154.469,rms=0.751315) vs oldopt=(dt=92.48,rms=0.752872) #GCMRL# 79 dt 154.469136 rms 0.751 1.036% neg 0 invalid 762 tFOTS 14.5010 tGradient 6.2210 tsec 21.7550 #FOTS# QuadFit found better minimum quadopt=(dt=221.952,rms=0.748089) vs oldopt=(dt=369.92,rms=0.749022) #GCMRL# 80 dt 221.952000 rms 0.748 0.429% neg 0 invalid 762 tFOTS 14.5120 tGradient 6.3190 tsec 21.8670 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.742709) vs oldopt=(dt=369.92,rms=0.743405) #GCMRL# 81 dt 295.936000 rms 0.743 0.719% neg 0 invalid 762 tFOTS 14.5160 tGradient 6.3320 tsec 21.8790 #GCMRL# 82 dt 92.480000 rms 0.740 0.301% neg 0 invalid 762 tFOTS 14.4860 tGradient 6.3600 tsec 21.8790 #GCMRL# 83 dt 1479.680000 rms 0.732 1.130% neg 0 invalid 762 tFOTS 14.4950 tGradient 6.3900 tsec 21.9200 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.724194) vs oldopt=(dt=92.48,rms=0.724914) #GCMRL# 84 dt 129.472000 rms 0.724 1.081% neg 0 invalid 762 tFOTS 14.5010 tGradient 6.3040 tsec 21.8450 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.723926) vs oldopt=(dt=92.48,rms=0.72393) #GCMRL# 85 dt 73.984000 rms 0.724 0.000% neg 0 invalid 762 tFOTS 14.5140 tGradient 6.3380 tsec 21.9040 #GCMRL# 86 dt 73.984000 rms 0.724 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3440 tsec 7.3790 #GCMRL# 87 dt 73.984000 rms 0.723 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3530 tsec 7.3860 #GCMRL# 88 dt 73.984000 rms 0.722 0.160% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4250 tsec 7.4570 #GCMRL# 89 dt 73.984000 rms 0.720 0.221% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3770 tsec 7.4090 #GCMRL# 90 dt 73.984000 rms 0.718 0.258% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3540 tsec 7.3900 #GCMRL# 91 dt 73.984000 rms 0.716 0.258% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3460 tsec 7.3920 #GCMRL# 92 dt 73.984000 rms 0.715 0.259% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2610 tsec 7.2970 #GCMRL# 93 dt 73.984000 rms 0.713 0.250% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2480 tsec 7.2810 #GCMRL# 94 dt 73.984000 rms 0.711 0.250% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2440 tsec 7.2820 #GCMRL# 95 dt 73.984000 rms 0.709 0.262% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3260 tsec 7.3590 #GCMRL# 96 dt 73.984000 rms 0.707 0.268% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2440 tsec 7.2800 #GCMRL# 97 dt 73.984000 rms 0.705 0.263% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2890 tsec 7.3210 #GCMRL# 98 dt 73.984000 rms 0.704 0.255% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3110 tsec 7.3440 #GCMRL# 99 dt 73.984000 rms 0.702 0.233% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2480 tsec 7.2820 #GCMRL# 100 dt 73.984000 rms 0.700 0.215% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2890 tsec 7.3220 #GCMRL# 101 dt 73.984000 rms 0.699 0.207% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2840 tsec 7.3170 #GCMRL# 102 dt 73.984000 rms 0.698 0.207% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3050 tsec 7.3390 #GCMRL# 103 dt 73.984000 rms 0.696 0.199% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3160 tsec 7.3510 #GCMRL# 104 dt 73.984000 rms 0.695 0.184% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3310 tsec 7.3640 #GCMRL# 105 dt 73.984000 rms 0.694 0.168% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3090 tsec 7.3460 #GCMRL# 106 dt 73.984000 rms 0.693 0.151% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3360 tsec 7.3740 #GCMRL# 107 dt 73.984000 rms 0.692 0.138% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3200 tsec 7.3540 #GCMRL# 108 dt 73.984000 rms 0.691 0.134% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2450 tsec 7.2820 #GCMRL# 109 dt 73.984000 rms 0.690 0.135% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2500 tsec 7.2860 #GCMRL# 110 dt 73.984000 rms 0.689 0.135% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3070 tsec 7.3470 #GCMRL# 111 dt 73.984000 rms 0.688 0.126% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2880 tsec 7.3330 #GCMRL# 112 dt 73.984000 rms 0.687 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2530 tsec 7.2870 #GCMRL# 113 dt 73.984000 rms 0.687 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3000 tsec 7.3370 #GCMRL# 114 dt 73.984000 rms 0.686 0.095% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2970 tsec 7.3330 #GCMRL# 115 dt 73.984000 rms 0.685 0.095% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3260 tsec 7.3630 #GCMRL# 116 dt 73.984000 rms 0.685 0.098% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3090 tsec 7.3410 #GCMRL# 117 dt 73.984000 rms 0.684 0.096% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3230 tsec 7.3570 #GCMRL# 118 dt 73.984000 rms 0.683 0.089% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3410 tsec 7.3760 #GCMRL# 119 dt 73.984000 rms 0.683 0.081% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3620 tsec 7.3980 #GCMRL# 120 dt 73.984000 rms 0.682 0.075% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3320 tsec 7.3700 #GCMRL# 121 dt 73.984000 rms 0.682 0.072% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3780 tsec 7.4130 #GCMRL# 122 dt 73.984000 rms 0.681 0.075% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3430 tsec 7.3770 #GCMRL# 123 dt 73.984000 rms 0.681 0.074% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3470 tsec 7.3820 #GCMRL# 124 dt 73.984000 rms 0.680 0.071% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3400 tsec 7.3750 #GCMRL# 125 dt 73.984000 rms 0.680 0.067% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3430 tsec 7.3810 #GCMRL# 126 dt 73.984000 rms 0.679 0.059% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3200 tsec 7.3590 #GCMRL# 127 dt 73.984000 rms 0.679 0.056% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3200 tsec 7.3540 #GCMRL# 128 dt 73.984000 rms 0.679 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2470 tsec 7.2790 #GCMRL# 129 dt 73.984000 rms 0.678 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2450 tsec 7.2780 #GCMRL# 130 dt 73.984000 rms 0.678 0.059% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2350 tsec 7.2700 #GCMRL# 131 dt 73.984000 rms 0.677 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2390 tsec 7.2720 #GCMRL# 132 dt 73.984000 rms 0.677 0.053% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2230 tsec 7.2610 #GCMRL# 133 dt 73.984000 rms 0.677 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2210 tsec 7.2560 #GCMRL# 134 dt 73.984000 rms 0.676 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2180 tsec 7.2510 #GCMRL# 135 dt 73.984000 rms 0.676 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2210 tsec 7.2540 #GCMRL# 136 dt 73.984000 rms 0.676 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2220 tsec 7.2560 #GCMRL# 137 dt 73.984000 rms 0.676 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2260 tsec 7.2600 #GCMRL# 138 dt 73.984000 rms 0.675 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2210 tsec 7.2540 #GCMRL# 139 dt 73.984000 rms 0.675 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2460 tsec 7.2840 #GCMRL# 140 dt 73.984000 rms 0.675 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2570 tsec 7.2910 #GCMRL# 141 dt 73.984000 rms 0.674 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2560 tsec 7.2890 #GCMRL# 142 dt 73.984000 rms 0.674 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2520 tsec 7.2850 #GCMRL# 143 dt 73.984000 rms 0.674 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2500 tsec 7.2840 #GCMRL# 144 dt 73.984000 rms 0.674 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2450 tsec 7.2840 #GCMRL# 145 dt 73.984000 rms 0.673 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2510 tsec 7.2870 #GCMRL# 146 dt 73.984000 rms 0.673 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2510 tsec 7.2890 #GCMRL# 147 dt 73.984000 rms 0.673 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2570 tsec 7.2920 #GCMRL# 148 dt 73.984000 rms 0.673 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1710 tsec 7.2050 #GCMRL# 149 dt 73.984000 rms 0.673 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1670 tsec 7.2010 #GCMRL# 150 dt 73.984000 rms 0.672 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1630 tsec 7.2000 #GCMRL# 151 dt 73.984000 rms 0.672 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1690 tsec 7.2040 #GCMRL# 152 dt 73.984000 rms 0.672 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1660 tsec 7.2010 #GCMRL# 153 dt 73.984000 rms 0.672 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1680 tsec 7.2040 #GCMRL# 154 dt 73.984000 rms 0.671 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1630 tsec 7.2000 #GCMRL# 155 dt 73.984000 rms 0.671 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1640 tsec 7.1990 #GCMRL# 156 dt 73.984000 rms 0.671 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1640 tsec 7.2000 #GCMRL# 157 dt 73.984000 rms 0.671 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1700 tsec 7.2050 #GCMRL# 158 dt 73.984000 rms 0.671 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1670 tsec 7.1990 #GCMRL# 159 dt 73.984000 rms 0.670 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1720 tsec 7.2090 #GCMRL# 160 dt 73.984000 rms 0.670 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1740 tsec 7.2100 #GCMRL# 161 dt 73.984000 rms 0.670 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1690 tsec 7.2040 #GCMRL# 162 dt 73.984000 rms 0.670 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1640 tsec 7.1990 #GCMRL# 163 dt 73.984000 rms 0.670 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1630 tsec 7.1990 #GCMRL# 164 dt 73.984000 rms 0.670 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1640 tsec 7.1990 #GCMRL# 165 dt 73.984000 rms 0.669 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1690 tsec 7.2040 #GCMRL# 166 dt 73.984000 rms 0.669 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1730 tsec 7.2120 #GCMRL# 167 dt 73.984000 rms 0.669 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1650 tsec 7.1990 #GCMRL# 168 dt 73.984000 rms 0.669 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1700 tsec 7.2070 #GCMRL# 169 dt 73.984000 rms 0.669 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1680 tsec 7.2030 #GCMRL# 170 dt 73.984000 rms 0.668 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1700 tsec 7.2040 #GCMRL# 171 dt 73.984000 rms 0.668 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1710 tsec 7.2080 #GCMRL# 172 dt 73.984000 rms 0.668 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2240 tsec 7.2610 #GCMRL# 173 dt 73.984000 rms 0.668 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1740 tsec 7.2080 #GCMRL# 174 dt 73.984000 rms 0.668 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1670 tsec 7.2060 #GCMRL# 175 dt 73.984000 rms 0.668 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1730 tsec 7.2140 #GCMRL# 176 dt 73.984000 rms 0.667 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2040 tsec 7.2400 #GCMRL# 177 dt 73.984000 rms 0.667 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2020 tsec 7.2390 #GCMRL# 178 dt 73.984000 rms 0.667 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2010 tsec 7.2400 #GCMRL# 179 dt 73.984000 rms 0.667 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2020 tsec 7.2410 #GCMRL# 180 dt 73.984000 rms 0.667 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2070 tsec 7.2440 #GCMRL# 181 dt 73.984000 rms 0.666 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1980 tsec 7.2330 #GCMRL# 182 dt 73.984000 rms 0.666 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1960 tsec 7.2310 #GCMRL# 183 dt 73.984000 rms 0.666 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2040 tsec 7.2380 #GCMRL# 184 dt 73.984000 rms 0.666 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2020 tsec 7.2350 #GCMRL# 185 dt 73.984000 rms 0.666 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2020 tsec 7.2410 #GCMRL# 186 dt 73.984000 rms 0.666 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2020 tsec 7.2370 #GCMRL# 187 dt 73.984000 rms 0.665 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2000 tsec 7.2360 #GCMRL# 188 dt 73.984000 rms 0.665 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1910 tsec 7.2310 #GCMRL# 189 dt 73.984000 rms 0.665 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1940 tsec 7.2310 #GCMRL# 190 dt 73.984000 rms 0.665 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1990 tsec 7.2330 #GCMRL# 191 dt 73.984000 rms 0.665 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2000 tsec 7.2360 #GCMRL# 192 dt 73.984000 rms 0.664 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1980 tsec 7.2350 #GCMRL# 193 dt 73.984000 rms 0.664 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1980 tsec 7.2350 #GCMRL# 194 dt 73.984000 rms 0.664 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2010 tsec 7.2350 #GCMRL# 195 dt 73.984000 rms 0.664 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2010 tsec 7.2380 #GCMRL# 196 dt 73.984000 rms 0.664 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2000 tsec 7.2410 #GCMRL# 197 dt 73.984000 rms 0.664 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2000 tsec 7.2350 #GCMRL# 198 dt 73.984000 rms 0.663 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2020 tsec 7.2360 #GCMRL# 199 dt 73.984000 rms 0.663 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1940 tsec 7.2290 #GCMRL# 200 dt 73.984000 rms 0.663 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2200 tsec 7.2550 #GCMRL# 201 dt 73.984000 rms 0.663 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1920 tsec 7.2270 #GCMRL# 202 dt 73.984000 rms 0.663 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1860 tsec 7.2410 #FOTS# QuadFit found better minimum quadopt=(dt=33144.8,rms=0.658697) vs oldopt=(dt=23674.9,rms=0.659333) #GCMRL# 203 dt 33144.832000 rms 0.659 0.608% neg 0 invalid 762 tFOTS 15.3540 tGradient 6.1860 tsec 22.5760 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.657295) vs oldopt=(dt=92.48,rms=0.657546) #GCMRL# 204 dt 129.472000 rms 0.657 0.213% neg 0 invalid 762 tFOTS 14.5170 tGradient 6.2570 tsec 21.8100 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.656381) vs oldopt=(dt=369.92,rms=0.656443) #GCMRL# 205 dt 517.888000 rms 0.656 0.139% neg 0 invalid 762 tFOTS 14.5150 tGradient 6.2540 tsec 21.8030 #FOTS# QuadFit found better minimum quadopt=(dt=27.744,rms=0.656445) vs oldopt=(dt=23.12,rms=0.656446) #GCMRL# 206 dt 27.744000 rms 0.656 0.000% neg 0 invalid 762 tFOTS 15.3930 tGradient 6.3190 tsec 23.7170 #GCMRL# 207 dt 27.744000 rms 0.656 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3150 tsec 7.3560 #GCAMreg# pass 0 level1 5 level2 1 tsec 1156.18 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.656836 #GCMRL# 209 dt 92.480000 rms 0.656 0.092% neg 0 invalid 762 tFOTS 14.5450 tGradient 6.2930 tsec 21.8740 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.656007) vs oldopt=(dt=92.48,rms=0.656045) #GCMRL# 210 dt 129.472000 rms 0.656 0.000% neg 0 invalid 762 tFOTS 15.4280 tGradient 6.3400 tsec 22.8230 #GCMRL# 211 dt 129.472000 rms 0.656 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3040 tsec 7.3360 #GCMRL# 212 dt 129.472000 rms 0.656 0.013% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2760 tsec 7.3160 #GCMRL# 213 dt 129.472000 rms 0.656 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2180 tsec 7.2770 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.655417) vs oldopt=(dt=369.92,rms=0.655472) #GCMRL# 214 dt 517.888000 rms 0.655 0.050% neg 0 invalid 762 tFOTS 15.3830 tGradient 6.1740 tsec 22.5890 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.655402) vs oldopt=(dt=92.48,rms=0.655406) #GCMRL# 215 dt 129.472000 rms 0.655 0.000% neg 0 invalid 762 tFOTS 15.3760 tGradient 6.2580 tsec 22.6870 #GCMRL# 216 dt 129.472000 rms 0.655 0.005% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2240 tsec 7.2610 #GCMRL# 217 dt 129.472000 rms 0.655 0.010% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2820 tsec 7.3200 #GCMRL# 218 dt 129.472000 rms 0.655 0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1970 tsec 7.2340 #GCMRL# 219 dt 129.472000 rms 0.655 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1960 tsec 7.2390 #GCMRL# 220 dt 129.472000 rms 0.655 0.017% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2560 tsec 7.2910 #GCMRL# 221 dt 129.472000 rms 0.655 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3040 tsec 7.3370 #GCMRL# 222 dt 129.472000 rms 0.655 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2810 tsec 7.3160 #GCMRL# 223 dt 129.472000 rms 0.655 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3080 tsec 7.3440 #GCMRL# 224 dt 129.472000 rms 0.654 0.018% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3390 tsec 7.3950 #FOTS# QuadFit found better minimum quadopt=(dt=1775.62,rms=0.654178) vs oldopt=(dt=1479.68,rms=0.654187) #GCMRL# 225 dt 1775.616000 rms 0.654 0.034% neg 0 invalid 762 tFOTS 15.3710 tGradient 6.3250 tsec 22.7340 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.653867) vs oldopt=(dt=369.92,rms=0.653879) #GCMRL# 226 dt 295.936000 rms 0.654 0.047% neg 0 invalid 762 tFOTS 15.3770 tGradient 6.2780 tsec 22.6900 setting smoothness cost coefficient to 0.031 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.656983 #FOTS# QuadFit found better minimum quadopt=(dt=260.712,rms=0.646559) vs oldopt=(dt=103.68,rms=0.649946) #GCMRL# 228 dt 260.711656 rms 0.647 1.587% neg 0 invalid 762 tFOTS 14.5180 tGradient 4.6960 tsec 20.2500 #FOTS# QuadFit found better minimum quadopt=(dt=139.294,rms=0.636807) vs oldopt=(dt=103.68,rms=0.637406) #GCMRL# 229 dt 139.294118 rms 0.637 1.508% neg 0 invalid 762 tFOTS 14.5250 tGradient 4.7200 tsec 20.2770 #FOTS# QuadFit found better minimum quadopt=(dt=75.8,rms=0.632948) vs oldopt=(dt=103.68,rms=0.633416) #GCMRL# 230 dt 75.800000 rms 0.633 0.606% neg 0 invalid 762 tFOTS 14.5190 tGradient 4.7510 tsec 20.3060 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.629383) vs oldopt=(dt=103.68,rms=0.629813) #GCMRL# 231 dt 145.152000 rms 0.629 0.563% neg 0 invalid 762 tFOTS 13.6550 tGradient 4.6720 tsec 19.3620 #FOTS# QuadFit found better minimum quadopt=(dt=70.0424,rms=0.626422) vs oldopt=(dt=103.68,rms=0.62699) #GCMRL# 232 dt 70.042389 rms 0.626 0.471% neg 0 invalid 762 tFOTS 14.5090 tGradient 4.7240 tsec 20.2660 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.62392) vs oldopt=(dt=103.68,rms=0.624055) #GCMRL# 233 dt 145.152000 rms 0.624 0.399% neg 0 invalid 762 tFOTS 14.5150 tGradient 4.7220 tsec 20.2710 #FOTS# QuadFit found better minimum quadopt=(dt=63.2727,rms=0.621184) vs oldopt=(dt=103.68,rms=0.621984) #GCMRL# 234 dt 63.272727 rms 0.621 0.438% neg 0 invalid 762 tFOTS 14.5080 tGradient 4.7490 tsec 20.2940 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.619033) vs oldopt=(dt=103.68,rms=0.619283) #GCMRL# 235 dt 145.152000 rms 0.619 0.346% neg 0 invalid 762 tFOTS 14.5150 tGradient 4.8140 tsec 20.3650 #FOTS# QuadFit found better minimum quadopt=(dt=68.9493,rms=0.616884) vs oldopt=(dt=103.68,rms=0.617314) #GCMRL# 236 dt 68.949333 rms 0.617 0.347% neg 0 invalid 762 tFOTS 14.5040 tGradient 4.6990 tsec 20.2420 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.615386) vs oldopt=(dt=103.68,rms=0.615387) #GCMRL# 237 dt 124.416000 rms 0.615 0.243% neg 0 invalid 762 tFOTS 14.5150 tGradient 4.6400 tsec 20.1920 #FOTS# QuadFit found better minimum quadopt=(dt=69.9297,rms=0.613535) vs oldopt=(dt=103.68,rms=0.613867) #GCMRL# 238 dt 69.929712 rms 0.614 0.301% neg 0 invalid 762 tFOTS 14.5190 tGradient 4.7250 tsec 20.2790 #GCMRL# 239 dt 103.680000 rms 0.612 0.208% neg 0 invalid 762 tFOTS 14.5200 tGradient 4.6120 tsec 20.1670 #FOTS# QuadFit found better minimum quadopt=(dt=92.8,rms=0.610803) vs oldopt=(dt=103.68,rms=0.610829) #GCMRL# 240 dt 92.800000 rms 0.611 0.238% neg 0 invalid 762 tFOTS 14.5280 tGradient 4.6800 tsec 20.2420 #FOTS# QuadFit found better minimum quadopt=(dt=77.1084,rms=0.609645) vs oldopt=(dt=103.68,rms=0.60976) #GCMRL# 241 dt 77.108434 rms 0.610 0.190% neg 0 invalid 762 tFOTS 15.3760 tGradient 4.6140 tsec 21.0250 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.608385) vs oldopt=(dt=103.68,rms=0.608385) #GCMRL# 242 dt 124.416000 rms 0.608 0.207% neg 0 invalid 762 tFOTS 13.6690 tGradient 4.6820 tsec 19.3900 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.607149) vs oldopt=(dt=103.68,rms=0.607535) #GCMRL# 243 dt 62.208000 rms 0.607 0.203% neg 0 invalid 762 tFOTS 14.5110 tGradient 4.6800 tsec 20.2270 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.60586) vs oldopt=(dt=103.68,rms=0.606044) #GCMRL# 244 dt 145.152000 rms 0.606 0.212% neg 0 invalid 762 tFOTS 14.5070 tGradient 4.6740 tsec 20.2160 #FOTS# QuadFit found better minimum quadopt=(dt=72,rms=0.60471) vs oldopt=(dt=103.68,rms=0.604891) #GCMRL# 245 dt 72.000000 rms 0.605 0.190% neg 0 invalid 762 tFOTS 14.5080 tGradient 4.6770 tsec 20.2220 #GCMRL# 246 dt 103.680000 rms 0.604 0.140% neg 0 invalid 762 tFOTS 13.7010 tGradient 4.6410 tsec 19.3820 #FOTS# QuadFit found better minimum quadopt=(dt=79.8865,rms=0.60285) vs oldopt=(dt=103.68,rms=0.602926) #GCMRL# 247 dt 79.886525 rms 0.603 0.168% neg 0 invalid 762 tFOTS 14.5200 tGradient 4.6890 tsec 20.2420 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.602091) vs oldopt=(dt=103.68,rms=0.602106) #GCMRL# 248 dt 82.944000 rms 0.602 0.126% neg 0 invalid 762 tFOTS 13.6940 tGradient 4.6790 tsec 19.4090 #GCMRL# 249 dt 103.680000 rms 0.601 0.155% neg 0 invalid 762 tFOTS 14.4970 tGradient 4.7480 tsec 20.2780 #FOTS# QuadFit found better minimum quadopt=(dt=66.3022,rms=0.60047) vs oldopt=(dt=103.68,rms=0.60065) #GCMRL# 250 dt 66.302158 rms 0.600 0.114% neg 0 invalid 762 tFOTS 14.5030 tGradient 4.7020 tsec 20.2360 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.59943) vs oldopt=(dt=103.68,rms=0.599547) #GCMRL# 251 dt 145.152000 rms 0.599 0.173% neg 0 invalid 762 tFOTS 14.5060 tGradient 4.6740 tsec 20.2150 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.598807) vs oldopt=(dt=25.92,rms=0.598938) #GCMRL# 252 dt 36.288000 rms 0.599 0.104% neg 0 invalid 762 tFOTS 13.6440 tGradient 4.6810 tsec 19.3600 #FOTS# QuadFit found better minimum quadopt=(dt=497.664,rms=0.596655) vs oldopt=(dt=414.72,rms=0.59674) #GCMRL# 253 dt 497.664000 rms 0.597 0.359% neg 0 invalid 762 tFOTS 14.4970 tGradient 4.6760 tsec 20.2060 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.594676) vs oldopt=(dt=25.92,rms=0.595035) #GCMRL# 254 dt 36.288000 rms 0.595 0.332% neg 0 invalid 762 tFOTS 14.4990 tGradient 4.6950 tsec 20.2270 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.593885) vs oldopt=(dt=103.68,rms=0.593966) #GCMRL# 255 dt 145.152000 rms 0.594 0.133% neg 0 invalid 762 tFOTS 14.4960 tGradient 4.6750 tsec 20.2050 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.593354) vs oldopt=(dt=25.92,rms=0.593464) #GCMRL# 256 dt 36.288000 rms 0.593 0.090% neg 0 invalid 762 tFOTS 13.6400 tGradient 4.6800 tsec 19.3550 #FOTS# QuadFit found better minimum quadopt=(dt=580.608,rms=0.591274) vs oldopt=(dt=414.72,rms=0.591514) #GCMRL# 257 dt 580.608000 rms 0.591 0.351% neg 0 invalid 762 tFOTS 14.4880 tGradient 4.6720 tsec 20.1930 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.589607) vs oldopt=(dt=25.92,rms=0.589912) #GCMRL# 258 dt 36.288000 rms 0.590 0.282% neg 0 invalid 762 tFOTS 14.4820 tGradient 4.6720 tsec 20.1910 #GCMRL# 259 dt 103.680000 rms 0.589 0.088% neg 0 invalid 762 tFOTS 14.4930 tGradient 4.6750 tsec 20.1980 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.588582) vs oldopt=(dt=103.68,rms=0.588591) #GCMRL# 260 dt 82.944000 rms 0.589 0.086% neg 0 invalid 762 tFOTS 14.5010 tGradient 4.6740 tsec 20.2090 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.588191) vs oldopt=(dt=103.68,rms=0.588194) #GCMRL# 261 dt 82.944000 rms 0.588 0.066% neg 0 invalid 762 tFOTS 14.4860 tGradient 4.6750 tsec 20.1950 #GCMRL# 262 dt 103.680000 rms 0.588 0.084% neg 0 invalid 762 tFOTS 13.6410 tGradient 4.6730 tsec 19.3470 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.5873) vs oldopt=(dt=103.68,rms=0.587384) #GCMRL# 263 dt 62.208000 rms 0.587 0.068% neg 0 invalid 762 tFOTS 14.4810 tGradient 4.6960 tsec 20.2080 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.586714) vs oldopt=(dt=103.68,rms=0.586808) #GCMRL# 264 dt 145.152000 rms 0.587 0.100% neg 0 invalid 762 tFOTS 14.4830 tGradient 4.6720 tsec 20.1900 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.586296) vs oldopt=(dt=103.68,rms=0.586418) #GCMRL# 265 dt 62.208000 rms 0.586 0.071% neg 0 invalid 762 tFOTS 14.4920 tGradient 4.6690 tsec 20.1960 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.58575) vs oldopt=(dt=103.68,rms=0.585816) #GCMRL# 266 dt 145.152000 rms 0.586 0.093% neg 0 invalid 762 tFOTS 14.4900 tGradient 4.6660 tsec 20.1910 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.585423) vs oldopt=(dt=25.92,rms=0.58549) #GCMRL# 267 dt 36.288000 rms 0.585 0.056% neg 0 invalid 762 tFOTS 15.3420 tGradient 4.6490 tsec 21.0250 #FOTS# QuadFit found better minimum quadopt=(dt=580.608,rms=0.583699) vs oldopt=(dt=414.72,rms=0.583973) #GCMRL# 268 dt 580.608000 rms 0.584 0.294% neg 0 invalid 762 tFOTS 14.5160 tGradient 4.7420 tsec 20.2890 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.582781) vs oldopt=(dt=25.92,rms=0.582923) #GCMRL# 269 dt 36.288000 rms 0.583 0.157% neg 0 invalid 762 tFOTS 14.4970 tGradient 4.6410 tsec 20.1720 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.582378) vs oldopt=(dt=103.68,rms=0.582428) #GCMRL# 270 dt 145.152000 rms 0.582 0.069% neg 0 invalid 762 tFOTS 14.4850 tGradient 4.6730 tsec 20.1940 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.581981) vs oldopt=(dt=103.68,rms=0.582059) #GCMRL# 271 dt 62.208000 rms 0.582 0.068% neg 0 invalid 762 tFOTS 14.4930 tGradient 4.7400 tsec 20.2640 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.581621) vs oldopt=(dt=103.68,rms=0.581641) #GCMRL# 272 dt 145.152000 rms 0.582 0.062% neg 0 invalid 762 tFOTS 14.4840 tGradient 4.6740 tsec 20.1930 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.581327) vs oldopt=(dt=25.92,rms=0.581385) #GCMRL# 273 dt 36.288000 rms 0.581 0.051% neg 0 invalid 762 tFOTS 15.3400 tGradient 4.7220 tsec 21.0960 #FOTS# QuadFit found better minimum quadopt=(dt=580.608,rms=0.579917) vs oldopt=(dt=414.72,rms=0.580137) #GCMRL# 274 dt 580.608000 rms 0.580 0.242% neg 0 invalid 762 tFOTS 14.4910 tGradient 4.6850 tsec 20.2110 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.579174) vs oldopt=(dt=25.92,rms=0.579292) #GCMRL# 275 dt 36.288000 rms 0.579 0.128% neg 0 invalid 762 tFOTS 14.4910 tGradient 4.7380 tsec 20.2630 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.578799) vs oldopt=(dt=103.68,rms=0.578854) #GCMRL# 276 dt 145.152000 rms 0.579 0.065% neg 0 invalid 762 tFOTS 14.4910 tGradient 4.6700 tsec 20.1930 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.578426) vs oldopt=(dt=103.68,rms=0.578444) #GCMRL# 277 dt 82.944000 rms 0.578 0.064% neg 0 invalid 762 tFOTS 14.4910 tGradient 4.6770 tsec 20.2040 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.578311) vs oldopt=(dt=25.92,rms=0.57834) #GCMRL# 278 dt 36.288000 rms 0.578 0.000% neg 0 invalid 762 tFOTS 15.3410 tGradient 4.6720 tsec 21.0670 #GCMRL# 279 dt 36.288000 rms 0.578 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6130 tsec 5.6470 #GCMRL# 280 dt 36.288000 rms 0.578 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6920 tsec 5.7260 #GCMRL# 281 dt 36.288000 rms 0.578 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7330 tsec 5.7690 #GCMRL# 282 dt 36.288000 rms 0.577 0.066% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7370 tsec 5.7700 #GCMRL# 283 dt 36.288000 rms 0.577 0.078% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7330 tsec 5.7630 #GCMRL# 284 dt 36.288000 rms 0.576 0.088% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6730 tsec 5.7060 #GCMRL# 285 dt 36.288000 rms 0.576 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6720 tsec 5.7080 #GCMRL# 286 dt 36.288000 rms 0.575 0.099% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7370 tsec 5.7710 #GCMRL# 287 dt 36.288000 rms 0.575 0.105% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7340 tsec 5.7690 #GCMRL# 288 dt 36.288000 rms 0.574 0.110% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7540 tsec 5.7870 #GCMRL# 289 dt 36.288000 rms 0.573 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7310 tsec 5.7640 #GCMRL# 290 dt 36.288000 rms 0.573 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7320 tsec 5.7660 #GCMRL# 291 dt 36.288000 rms 0.572 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7320 tsec 5.7650 #GCMRL# 292 dt 36.288000 rms 0.571 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7300 tsec 5.7640 #GCMRL# 293 dt 36.288000 rms 0.571 0.116% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7300 tsec 5.7660 #GCMRL# 294 dt 36.288000 rms 0.570 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7280 tsec 5.7630 #GCMRL# 295 dt 36.288000 rms 0.569 0.116% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7300 tsec 5.7630 #GCMRL# 296 dt 36.288000 rms 0.569 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7300 tsec 5.7640 #GCMRL# 297 dt 36.288000 rms 0.568 0.113% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6710 tsec 5.7060 #GCMRL# 298 dt 36.288000 rms 0.567 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7350 tsec 5.7700 #GCMRL# 299 dt 36.288000 rms 0.567 0.108% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7350 tsec 5.7700 #GCMRL# 300 dt 36.288000 rms 0.566 0.105% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7320 tsec 5.7660 #GCMRL# 301 dt 36.288000 rms 0.566 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7120 tsec 5.7460 #GCMRL# 302 dt 36.288000 rms 0.565 0.099% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7410 tsec 5.7740 #GCMRL# 303 dt 36.288000 rms 0.565 0.099% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6730 tsec 5.7050 #GCMRL# 304 dt 36.288000 rms 0.564 0.095% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7060 tsec 5.7400 #GCMRL# 305 dt 36.288000 rms 0.563 0.091% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7060 tsec 5.7400 #GCMRL# 306 dt 36.288000 rms 0.563 0.085% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7080 tsec 5.7440 #GCMRL# 307 dt 36.288000 rms 0.563 0.081% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7070 tsec 5.7420 #GCMRL# 308 dt 36.288000 rms 0.562 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7040 tsec 5.7370 #GCMRL# 309 dt 36.288000 rms 0.562 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6390 tsec 5.6750 #GCMRL# 310 dt 36.288000 rms 0.561 0.072% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6460 tsec 5.6820 #GCMRL# 311 dt 36.288000 rms 0.561 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7090 tsec 5.7410 #GCMRL# 312 dt 36.288000 rms 0.561 0.070% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6440 tsec 5.6780 #GCMRL# 313 dt 36.288000 rms 0.560 0.066% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6470 tsec 5.6870 #GCMRL# 314 dt 36.288000 rms 0.560 0.063% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7060 tsec 5.7410 #GCMRL# 315 dt 36.288000 rms 0.559 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7080 tsec 5.7450 #GCMRL# 316 dt 36.288000 rms 0.559 0.060% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7060 tsec 5.7380 #GCMRL# 317 dt 36.288000 rms 0.559 0.060% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7060 tsec 5.7410 #GCMRL# 318 dt 36.288000 rms 0.558 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7330 tsec 5.7670 #GCMRL# 319 dt 36.288000 rms 0.558 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6720 tsec 5.7070 #GCMRL# 320 dt 36.288000 rms 0.558 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7310 tsec 5.7660 #GCMRL# 321 dt 36.288000 rms 0.558 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7330 tsec 5.7680 #GCMRL# 322 dt 36.288000 rms 0.557 0.052% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7140 tsec 5.7490 #GCMRL# 323 dt 36.288000 rms 0.557 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7070 tsec 5.7420 #GCMRL# 324 dt 36.288000 rms 0.557 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7330 tsec 5.7680 #GCMRL# 325 dt 36.288000 rms 0.556 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7340 tsec 5.7720 #GCMRL# 326 dt 36.288000 rms 0.556 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6520 tsec 5.6870 #GCMRL# 327 dt 36.288000 rms 0.556 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6460 tsec 5.6800 #GCMRL# 328 dt 36.288000 rms 0.556 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6450 tsec 5.6780 #GCMRL# 329 dt 36.288000 rms 0.555 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6700 tsec 5.7060 #GCMRL# 330 dt 36.288000 rms 0.555 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6490 tsec 5.6830 #GCMRL# 331 dt 36.288000 rms 0.555 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7100 tsec 5.7440 #GCMRL# 332 dt 36.288000 rms 0.555 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6500 tsec 5.6830 #GCMRL# 333 dt 36.288000 rms 0.555 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7110 tsec 5.7480 #GCMRL# 334 dt 36.288000 rms 0.554 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7610 tsec 5.7980 #GCMRL# 335 dt 36.288000 rms 0.554 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7560 tsec 5.7930 #GCMRL# 336 dt 36.288000 rms 0.554 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6940 tsec 5.7280 #GCMRL# 337 dt 36.288000 rms 0.554 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6700 tsec 5.7050 #GCMRL# 338 dt 36.288000 rms 0.553 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6730 tsec 5.7060 #GCMRL# 339 dt 36.288000 rms 0.553 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7300 tsec 5.7640 #GCMRL# 340 dt 36.288000 rms 0.553 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6720 tsec 5.7080 #GCMRL# 341 dt 36.288000 rms 0.553 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7310 tsec 5.7670 #GCMRL# 342 dt 36.288000 rms 0.553 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6720 tsec 5.7080 #GCMRL# 343 dt 36.288000 rms 0.552 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6750 tsec 5.7110 #GCMRL# 344 dt 36.288000 rms 0.552 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6730 tsec 5.7090 #GCMRL# 345 dt 36.288000 rms 0.552 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6740 tsec 5.7090 #GCMRL# 346 dt 36.288000 rms 0.552 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6720 tsec 5.7060 #GCMRL# 347 dt 36.288000 rms 0.552 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6530 tsec 5.6880 #GCMRL# 348 dt 36.288000 rms 0.552 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6770 tsec 5.7130 #GCMRL# 349 dt 36.288000 rms 0.551 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7310 tsec 5.7670 #GCMRL# 350 dt 36.288000 rms 0.551 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7390 tsec 5.7750 #GCMRL# 351 dt 36.288000 rms 0.551 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6710 tsec 5.7050 #GCMRL# 352 dt 36.288000 rms 0.551 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6480 tsec 5.6830 #GCMRL# 353 dt 36.288000 rms 0.551 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6760 tsec 5.7100 #GCMRL# 354 dt 36.288000 rms 0.551 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6760 tsec 5.7120 #GCMRL# 355 dt 36.288000 rms 0.550 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7390 tsec 5.7770 #GCMRL# 356 dt 36.288000 rms 0.550 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6740 tsec 5.7080 #GCMRL# 357 dt 36.288000 rms 0.550 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6480 tsec 5.6860 #GCMRL# 358 dt 36.288000 rms 0.550 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7370 tsec 5.7730 #GCMRL# 359 dt 36.288000 rms 0.550 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7070 tsec 5.7440 #GCMRL# 360 dt 36.288000 rms 0.550 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6450 tsec 5.6800 #GCMRL# 361 dt 36.288000 rms 0.550 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6500 tsec 5.6840 #GCMRL# 362 dt 36.288000 rms 0.549 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6520 tsec 5.6860 #GCMRL# 363 dt 36.288000 rms 0.549 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6450 tsec 5.6780 #GCMRL# 364 dt 36.288000 rms 0.549 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6700 tsec 5.7040 #GCMRL# 365 dt 36.288000 rms 0.549 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6660 tsec 5.7000 #GCMRL# 366 dt 36.288000 rms 0.549 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6490 tsec 5.6870 #GCMRL# 367 dt 36.288000 rms 0.549 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7290 tsec 5.7830 #FOTS# QuadFit found better minimum quadopt=(dt=2322.43,rms=0.548286) vs oldopt=(dt=1658.88,rms=0.548305) #GCMRL# 368 dt 2322.432000 rms 0.548 0.072% neg 0 invalid 762 tFOTS 15.3440 tGradient 4.7280 tsec 21.1050 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.547984) vs oldopt=(dt=25.92,rms=0.54804) #GCMRL# 369 dt 36.288000 rms 0.548 0.055% neg 0 invalid 762 tFOTS 13.6380 tGradient 4.6640 tsec 19.3350 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.547932) vs oldopt=(dt=25.92,rms=0.547937) #GCMRL# 370 dt 36.288000 rms 0.548 0.000% neg 0 invalid 762 tFOTS 15.3430 tGradient 4.6950 tsec 21.0910 #GCMRL# 371 dt 36.288000 rms 0.548 0.004% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6450 tsec 5.6800 #GCMRL# 372 dt 36.288000 rms 0.548 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6740 tsec 5.7100 #GCMRL# 373 dt 36.288000 rms 0.548 0.006% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6440 tsec 5.6780 #GCMRL# 374 dt 36.288000 rms 0.548 0.013% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6690 tsec 5.7030 #GCMRL# 375 dt 36.288000 rms 0.548 0.012% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6460 tsec 5.6980 #GCAMreg# pass 0 level1 4 level2 1 tsec 1655.55 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.548166 #GCMRL# 377 dt 103.680000 rms 0.546 0.305% neg 0 invalid 762 tFOTS 13.6590 tGradient 4.6470 tsec 19.3380 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.54573) vs oldopt=(dt=103.68,rms=0.545803) #GCMRL# 378 dt 145.152000 rms 0.546 0.140% neg 0 invalid 762 tFOTS 14.5130 tGradient 4.6760 tsec 20.2230 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.545542) vs oldopt=(dt=25.92,rms=0.545579) #GCMRL# 379 dt 36.288000 rms 0.546 0.000% neg 0 invalid 762 tFOTS 14.5070 tGradient 4.6780 tsec 20.2350 #GCMRL# 380 dt 36.288000 rms 0.545 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6480 tsec 5.6840 #GCMRL# 381 dt 36.288000 rms 0.545 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7350 tsec 5.7690 #GCMRL# 382 dt 36.288000 rms 0.545 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6750 tsec 5.7100 #GCMRL# 383 dt 36.288000 rms 0.545 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6730 tsec 5.7070 #GCMRL# 384 dt 36.288000 rms 0.545 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6120 tsec 5.6470 #GCMRL# 385 dt 36.288000 rms 0.544 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6060 tsec 5.6440 #GCMRL# 386 dt 36.288000 rms 0.544 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5830 tsec 5.6180 #GCMRL# 387 dt 36.288000 rms 0.544 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5880 tsec 5.6260 #GCMRL# 388 dt 36.288000 rms 0.544 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5850 tsec 5.6210 #GCMRL# 389 dt 36.288000 rms 0.544 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5820 tsec 5.6250 #GCMRL# 390 dt 36.288000 rms 0.543 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5870 tsec 5.6210 #GCMRL# 391 dt 36.288000 rms 0.543 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5820 tsec 5.6170 #GCMRL# 392 dt 36.288000 rms 0.543 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5780 tsec 5.6150 #GCMRL# 393 dt 36.288000 rms 0.542 0.051% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5810 tsec 5.6170 #GCMRL# 394 dt 36.288000 rms 0.542 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5780 tsec 5.6150 #GCMRL# 395 dt 36.288000 rms 0.542 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5820 tsec 5.6190 #GCMRL# 396 dt 36.288000 rms 0.542 0.052% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5810 tsec 5.6160 #GCMRL# 397 dt 36.288000 rms 0.541 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5850 tsec 5.6210 #GCMRL# 398 dt 36.288000 rms 0.541 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5790 tsec 5.6120 #GCMRL# 399 dt 36.288000 rms 0.541 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6450 tsec 5.6790 #GCMRL# 400 dt 36.288000 rms 0.541 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5870 tsec 5.6220 #GCMRL# 401 dt 36.288000 rms 0.540 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5760 tsec 5.6120 #GCMRL# 402 dt 36.288000 rms 0.540 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6380 tsec 5.6720 #GCMRL# 403 dt 36.288000 rms 0.540 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5830 tsec 5.6180 #GCMRL# 404 dt 36.288000 rms 0.540 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6450 tsec 5.6790 #GCMRL# 405 dt 36.288000 rms 0.540 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6330 tsec 5.6690 #GCMRL# 406 dt 36.288000 rms 0.539 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6390 tsec 5.6740 #GCMRL# 407 dt 36.288000 rms 0.539 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6410 tsec 5.6740 #GCMRL# 408 dt 36.288000 rms 0.539 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6430 tsec 5.6800 #GCMRL# 409 dt 36.288000 rms 0.539 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6410 tsec 5.6770 #GCMRL# 410 dt 36.288000 rms 0.539 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6420 tsec 5.6760 #GCMRL# 411 dt 36.288000 rms 0.539 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6410 tsec 5.6770 #GCMRL# 412 dt 36.288000 rms 0.539 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6410 tsec 5.6760 #GCMRL# 413 dt 36.288000 rms 0.538 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5770 tsec 5.6120 #GCMRL# 414 dt 36.288000 rms 0.538 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5790 tsec 5.6180 #GCMRL# 415 dt 36.288000 rms 0.538 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6370 tsec 5.6730 #GCMRL# 416 dt 36.288000 rms 0.538 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6370 tsec 5.6910 #FOTS# QuadFit found better minimum quadopt=(dt=580.608,rms=0.537783) vs oldopt=(dt=414.72,rms=0.537806) #GCMRL# 417 dt 580.608000 rms 0.538 0.037% neg 0 invalid 762 tFOTS 15.3500 tGradient 4.6430 tsec 21.0290 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.5377) vs oldopt=(dt=25.92,rms=0.537716) #GCMRL# 418 dt 36.288000 rms 0.538 0.000% neg 0 invalid 762 tFOTS 15.3570 tGradient 4.6430 tsec 21.0550 #GCMRL# 419 dt 36.288000 rms 0.538 0.004% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6440 tsec 5.6780 #GCMRL# 420 dt 36.288000 rms 0.538 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6390 tsec 5.6750 #GCMRL# 421 dt 36.288000 rms 0.538 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6410 tsec 5.6760 #GCMRL# 422 dt 36.288000 rms 0.538 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6380 tsec 5.6720 #GCMRL# 423 dt 36.288000 rms 0.538 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6420 tsec 5.6800 #GCMRL# 424 dt 36.288000 rms 0.538 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5830 tsec 5.6170 #GCMRL# 425 dt 36.288000 rms 0.537 0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5780 tsec 5.6120 #GCMRL# 426 dt 36.288000 rms 0.537 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5760 tsec 5.6120 setting smoothness cost coefficient to 0.118 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.550708 #GCMRL# 428 dt 32.000000 rms 0.549 0.391% neg 0 invalid 762 tFOTS 14.5070 tGradient 3.9560 tsec 19.4960 #FOTS# QuadFit found better minimum quadopt=(dt=98.3494,rms=0.544759) vs oldopt=(dt=128,rms=0.545156) #GCMRL# 429 dt 98.349367 rms 0.545 0.692% neg 0 invalid 762 tFOTS 14.4900 tGradient 3.8940 tsec 19.4180 #FOTS# QuadFit found better minimum quadopt=(dt=114.715,rms=0.538953) vs oldopt=(dt=128,rms=0.539054) #GCMRL# 430 dt 114.715288 rms 0.539 1.066% neg 0 invalid 762 tFOTS 14.4790 tGradient 3.9190 tsec 19.4310 #GCMRL# 431 dt 32.000000 rms 0.535 0.797% neg 0 invalid 762 tFOTS 13.6400 tGradient 4.4550 tsec 19.1290 #GCMRL# 432 dt 32.000000 rms 0.533 0.324% neg 0 invalid 762 tFOTS 13.6470 tGradient 3.9150 tsec 18.5950 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.532275) vs oldopt=(dt=8,rms=0.532424) #GCMRL# 433 dt 11.200000 rms 0.532 0.122% neg 0 invalid 762 tFOTS 12.7920 tGradient 4.0450 tsec 17.8720 #FOTS# QuadFit found better minimum quadopt=(dt=2.8,rms=0.532153) vs oldopt=(dt=2,rms=0.532186) #GCMRL# 434 dt 2.800000 rms 0.532 0.000% neg 0 invalid 762 tFOTS 11.9480 tGradient 3.8930 tsec 16.8960 #GCMRL# 435 dt 2.800000 rms 0.532 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8950 tsec 4.9300 #GCMRL# 436 dt 1.400000 rms 0.532 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8900 tsec 5.7160 #GCMRL# 437 dt 0.700000 rms 0.532 0.006% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.0150 tsec 5.8630 #FOTS# QuadFit found better minimum quadopt=(dt=0.175,rms=0.531949) vs oldopt=(dt=0.125,rms=0.531951) #GCAMreg# pass 0 level1 3 level2 1 tsec 167.067 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.532392 #FOTS# QuadFit found better minimum quadopt=(dt=60.16,rms=0.529102) vs oldopt=(dt=32,rms=0.52953) #GCMRL# 439 dt 60.160000 rms 0.529 0.618% neg 0 invalid 762 tFOTS 14.4970 tGradient 4.0120 tsec 19.5430 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.52668) vs oldopt=(dt=32,rms=0.526922) #GCMRL# 440 dt 44.800000 rms 0.527 0.458% neg 0 invalid 762 tFOTS 14.5000 tGradient 3.8970 tsec 19.4320 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.525528) vs oldopt=(dt=32,rms=0.525552) #GCMRL# 441 dt 25.600000 rms 0.526 0.219% neg 0 invalid 762 tFOTS 13.7100 tGradient 3.8980 tsec 18.6400 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.524) vs oldopt=(dt=32,rms=0.524229) #GCMRL# 442 dt 44.800000 rms 0.524 0.291% neg 0 invalid 762 tFOTS 14.5170 tGradient 3.8920 tsec 19.4610 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.523361) vs oldopt=(dt=32,rms=0.523448) #GCMRL# 443 dt 25.600000 rms 0.523 0.122% neg 0 invalid 762 tFOTS 13.8070 tGradient 3.9910 tsec 18.8510 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.522024) vs oldopt=(dt=32,rms=0.522129) #GCMRL# 444 dt 44.800000 rms 0.522 0.256% neg 0 invalid 762 tFOTS 14.5370 tGradient 3.9870 tsec 19.5580 #FOTS# QuadFit found better minimum quadopt=(dt=24.092,rms=0.521392) vs oldopt=(dt=32,rms=0.521535) #GCMRL# 445 dt 24.091954 rms 0.521 0.121% neg 0 invalid 762 tFOTS 13.6930 tGradient 3.9100 tsec 18.6390 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.520138) vs oldopt=(dt=32,rms=0.520309) #GCMRL# 446 dt 44.800000 rms 0.520 0.241% neg 0 invalid 762 tFOTS 14.5500 tGradient 3.9440 tsec 19.5310 #FOTS# QuadFit found better minimum quadopt=(dt=24.9756,rms=0.519718) vs oldopt=(dt=32,rms=0.519818) #GCMRL# 447 dt 24.975610 rms 0.520 0.081% neg 0 invalid 762 tFOTS 13.6620 tGradient 3.9010 tsec 18.5960 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.51863) vs oldopt=(dt=32,rms=0.518693) #GCMRL# 448 dt 44.800000 rms 0.519 0.209% neg 0 invalid 762 tFOTS 14.5610 tGradient 3.8970 tsec 19.4910 #FOTS# QuadFit found better minimum quadopt=(dt=22,rms=0.518166) vs oldopt=(dt=32,rms=0.518353) #GCMRL# 449 dt 22.000000 rms 0.518 0.089% neg 0 invalid 762 tFOTS 13.6510 tGradient 3.9870 tsec 18.6720 #FOTS# QuadFit found better minimum quadopt=(dt=102.4,rms=0.516569) vs oldopt=(dt=128,rms=0.516588) #GCMRL# 450 dt 102.400000 rms 0.517 0.308% neg 0 invalid 762 tFOTS 13.6460 tGradient 3.8940 tsec 18.5730 #FOTS# QuadFit found better minimum quadopt=(dt=21.0068,rms=0.515833) vs oldopt=(dt=32,rms=0.516178) #GCMRL# 451 dt 21.006803 rms 0.516 0.143% neg 0 invalid 762 tFOTS 13.6500 tGradient 3.9940 tsec 18.6790 #FOTS# QuadFit found better minimum quadopt=(dt=76.8,rms=0.514754) vs oldopt=(dt=128,rms=0.514904) #GCMRL# 452 dt 76.800000 rms 0.515 0.209% neg 0 invalid 762 tFOTS 13.6450 tGradient 3.8960 tsec 18.5750 #GCMRL# 453 dt 32.000000 rms 0.514 0.209% neg 0 invalid 762 tFOTS 13.6310 tGradient 3.9210 tsec 18.5870 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.513297) vs oldopt=(dt=32,rms=0.513309) #GCMRL# 454 dt 25.600000 rms 0.513 0.074% neg 0 invalid 762 tFOTS 13.6390 tGradient 3.8890 tsec 18.5610 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.512555) vs oldopt=(dt=32,rms=0.512632) #GCMRL# 455 dt 44.800000 rms 0.513 0.145% neg 0 invalid 762 tFOTS 14.4990 tGradient 3.9010 tsec 19.4350 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.512411) vs oldopt=(dt=8,rms=0.512454) #GCMRL# 456 dt 11.200000 rms 0.512 0.000% neg 0 invalid 762 tFOTS 13.6450 tGradient 3.9010 tsec 18.5990 #GCMRL# 457 dt 11.200000 rms 0.512 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8980 tsec 4.9330 #GCMRL# 458 dt 11.200000 rms 0.512 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8910 tsec 4.9230 #GCMRL# 459 dt 11.200000 rms 0.511 0.088% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8930 tsec 4.9260 #GCMRL# 460 dt 11.200000 rms 0.511 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8910 tsec 4.9260 #GCMRL# 461 dt 11.200000 rms 0.510 0.129% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9040 tsec 4.9390 #GCMRL# 462 dt 11.200000 rms 0.509 0.137% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9000 tsec 4.9330 #GCMRL# 463 dt 11.200000 rms 0.509 0.142% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8980 tsec 4.9330 #GCMRL# 464 dt 11.200000 rms 0.508 0.150% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9300 #GCMRL# 465 dt 11.200000 rms 0.507 0.168% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9010 tsec 4.9350 #GCMRL# 466 dt 11.200000 rms 0.506 0.172% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8990 tsec 4.9320 #GCMRL# 467 dt 11.200000 rms 0.505 0.160% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8980 tsec 4.9530 #GCMRL# 468 dt 11.200000 rms 0.505 0.153% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9020 tsec 4.9370 #GCMRL# 469 dt 11.200000 rms 0.504 0.150% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9330 #GCMRL# 470 dt 11.200000 rms 0.503 0.150% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8980 tsec 4.9300 #GCMRL# 471 dt 11.200000 rms 0.502 0.155% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9560 tsec 4.9930 #GCMRL# 472 dt 11.200000 rms 0.502 0.145% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9600 tsec 4.9960 #GCMRL# 473 dt 11.200000 rms 0.501 0.131% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8950 tsec 4.9300 #GCMRL# 474 dt 11.200000 rms 0.500 0.122% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8950 tsec 4.9300 #GCMRL# 475 dt 11.200000 rms 0.500 0.113% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9130 tsec 4.9490 #GCMRL# 476 dt 11.200000 rms 0.499 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9340 #GCMRL# 477 dt 11.200000 rms 0.499 0.106% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9300 #GCMRL# 478 dt 11.200000 rms 0.498 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8980 tsec 4.9330 #GCMRL# 479 dt 11.200000 rms 0.498 0.089% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9340 #GCMRL# 480 dt 11.200000 rms 0.497 0.083% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8940 tsec 4.9280 #GCMRL# 481 dt 11.200000 rms 0.497 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8970 tsec 4.9320 #GCMRL# 482 dt 11.200000 rms 0.497 0.084% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8930 tsec 4.9270 #GCMRL# 483 dt 11.200000 rms 0.496 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8990 tsec 4.9330 #GCMRL# 484 dt 11.200000 rms 0.496 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9310 #GCMRL# 485 dt 11.200000 rms 0.495 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8900 tsec 4.9250 #GCMRL# 486 dt 11.200000 rms 0.495 0.060% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9000 tsec 4.9380 #GCMRL# 487 dt 11.200000 rms 0.495 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8930 tsec 4.9350 #GCMRL# 488 dt 11.200000 rms 0.495 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8990 tsec 4.9350 #GCMRL# 489 dt 11.200000 rms 0.494 0.060% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8930 tsec 4.9240 #GCMRL# 490 dt 11.200000 rms 0.494 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8830 tsec 4.9180 #GCMRL# 491 dt 11.200000 rms 0.494 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8930 tsec 4.9280 #GCMRL# 492 dt 11.200000 rms 0.494 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8910 tsec 4.9250 #GCMRL# 493 dt 11.200000 rms 0.493 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8970 tsec 4.9300 #GCMRL# 494 dt 11.200000 rms 0.493 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9310 #GCMRL# 495 dt 11.200000 rms 0.493 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8970 tsec 4.9310 #GCMRL# 496 dt 11.200000 rms 0.493 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8930 tsec 4.9270 #GCMRL# 497 dt 11.200000 rms 0.493 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8920 tsec 4.9270 #GCMRL# 498 dt 11.200000 rms 0.492 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9320 #GCMRL# 499 dt 11.200000 rms 0.492 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8980 tsec 4.9310 #GCMRL# 500 dt 11.200000 rms 0.492 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8950 tsec 4.9280 #GCMRL# 501 dt 11.200000 rms 0.492 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8950 tsec 4.9300 #GCMRL# 502 dt 11.200000 rms 0.492 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8920 tsec 4.9290 #GCMRL# 503 dt 11.200000 rms 0.492 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9300 #GCMRL# 504 dt 11.200000 rms 0.491 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8940 tsec 4.9280 #GCMRL# 505 dt 11.200000 rms 0.491 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8910 tsec 4.9250 #GCMRL# 506 dt 11.200000 rms 0.491 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8840 tsec 4.9190 #GCMRL# 507 dt 11.200000 rms 0.491 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8960 tsec 4.9340 #GCMRL# 508 dt 11.200000 rms 0.491 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8850 tsec 4.9180 #GCMRL# 509 dt 11.200000 rms 0.491 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8810 tsec 4.9160 #GCMRL# 510 dt 11.200000 rms 0.491 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8980 tsec 4.9320 #GCMRL# 511 dt 11.200000 rms 0.490 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8800 tsec 4.9160 #GCMRL# 512 dt 11.200000 rms 0.490 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8820 tsec 4.9150 #GCMRL# 513 dt 11.200000 rms 0.490 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8820 tsec 4.9410 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.490106) vs oldopt=(dt=32,rms=0.490111) #GCMRL# 514 dt 44.800000 rms 0.490 0.000% neg 0 invalid 762 tFOTS 14.5020 tGradient 3.8820 tsec 19.4410 setting smoothness cost coefficient to 0.400 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.517875 #GCMRL# 516 dt 0.000000 rms 0.517 0.076% neg 0 invalid 762 tFOTS 13.6700 tGradient 3.2510 tsec 17.9540 #GCMRL# 517 dt 0.150000 rms 0.517 0.000% neg 0 invalid 762 tFOTS 13.6680 tGradient 3.2490 tsec 18.9170 #GCAMreg# pass 0 level1 2 level2 1 tsec 46.505 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.517875 #GCMRL# 519 dt 0.000000 rms 0.517 0.076% neg 0 invalid 762 tFOTS 13.6560 tGradient 3.2440 tsec 17.9360 #GCMRL# 520 dt 0.150000 rms 0.517 0.000% neg 0 invalid 762 tFOTS 13.6630 tGradient 3.2470 tsec 18.9080 setting smoothness cost coefficient to 1.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.571683 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.570401) vs oldopt=(dt=0.32,rms=0.570569) #GCMRL# 522 dt 0.448000 rms 0.570 0.224% neg 0 invalid 762 tFOTS 13.6530 tGradient 3.0890 tsec 17.7740 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.570284) vs oldopt=(dt=0.32,rms=0.570293) #GCMRL# 523 dt 0.256000 rms 0.570 0.000% neg 0 invalid 762 tFOTS 13.6500 tGradient 3.0910 tsec 17.7950 #GCAMreg# pass 0 level1 1 level2 1 tsec 45.052 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.570625 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.570144) vs oldopt=(dt=0.32,rms=0.570148) #GCMRL# 525 dt 0.256000 rms 0.570 0.084% neg 0 invalid 762 tFOTS 13.6460 tGradient 3.0930 tsec 17.7730 #FOTS# QuadFit found better minimum quadopt=(dt=0.028,rms=0.570138) vs oldopt=(dt=0.02,rms=0.570138) #GCMRL# 526 dt 0.028000 rms 0.570 0.000% neg 0 invalid 762 tFOTS 13.6540 tGradient 3.0880 tsec 17.7960 resetting metric properties... setting smoothness cost coefficient to 2.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.490219 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.475418) vs oldopt=(dt=0.32,rms=0.479358) #GCMRL# 528 dt 0.448000 rms 0.475 3.019% neg 0 invalid 762 tFOTS 12.8050 tGradient 2.5340 tsec 16.3720 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.472316) vs oldopt=(dt=0.32,rms=0.473181) #GCMRL# 529 dt 0.448000 rms 0.472 0.652% neg 0 invalid 762 tFOTS 12.8040 tGradient 2.5400 tsec 16.3780 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.470793) vs oldopt=(dt=0.32,rms=0.471042) #GCMRL# 530 dt 0.384000 rms 0.471 0.322% neg 0 invalid 762 tFOTS 12.8040 tGradient 2.5400 tsec 16.3800 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.469621) vs oldopt=(dt=0.32,rms=0.469945) #GCMRL# 531 dt 0.448000 rms 0.470 0.249% neg 0 invalid 762 tFOTS 12.7940 tGradient 2.5390 tsec 16.3660 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.468784) vs oldopt=(dt=0.32,rms=0.469013) #GCMRL# 532 dt 0.448000 rms 0.469 0.178% neg 0 invalid 762 tFOTS 12.8000 tGradient 2.5430 tsec 16.3750 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.468191) vs oldopt=(dt=0.32,rms=0.468349) #GCMRL# 533 dt 0.448000 rms 0.468 0.127% neg 0 invalid 762 tFOTS 12.8030 tGradient 2.6010 tsec 16.4400 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.467703) vs oldopt=(dt=0.32,rms=0.46783) #GCMRL# 534 dt 0.448000 rms 0.468 0.104% neg 0 invalid 762 tFOTS 12.8060 tGradient 2.5370 tsec 16.3770 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.467338) vs oldopt=(dt=0.32,rms=0.467427) #GCMRL# 535 dt 0.448000 rms 0.467 0.078% neg 0 invalid 762 tFOTS 12.8050 tGradient 2.5380 tsec 16.3790 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.467001) vs oldopt=(dt=0.32,rms=0.467079) #GCMRL# 536 dt 0.448000 rms 0.467 0.072% neg 0 invalid 762 tFOTS 12.7980 tGradient 2.5420 tsec 16.3750 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.466765) vs oldopt=(dt=0.32,rms=0.466818) #GCMRL# 537 dt 0.448000 rms 0.467 0.051% neg 0 invalid 762 tFOTS 12.7990 tGradient 2.5370 tsec 16.3700 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.466516) vs oldopt=(dt=0.32,rms=0.466565) #GCMRL# 538 dt 0.448000 rms 0.467 0.053% neg 0 invalid 762 tFOTS 12.8100 tGradient 2.5390 tsec 16.3820 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.466354) vs oldopt=(dt=0.32,rms=0.466382) #GCMRL# 539 dt 0.448000 rms 0.466 0.000% neg 0 invalid 762 tFOTS 12.8010 tGradient 2.5370 tsec 16.3900 #GCMRL# 540 dt 0.448000 rms 0.466 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5380 tsec 3.5720 #GCMRL# 541 dt 0.448000 rms 0.466 0.063% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5400 tsec 3.5750 #GCMRL# 542 dt 0.224000 rms 0.466 0.018% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.4730 tsec 4.3040 #GCMRL# 543 dt 0.224000 rms 0.466 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5370 tsec 3.5710 #GCMRL# 544 dt 0.224000 rms 0.465 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5320 tsec 3.5680 #GCMRL# 545 dt 0.224000 rms 0.465 0.009% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5350 tsec 3.9770 #GCMRL# 546 dt 0.224000 rms 0.465 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5340 tsec 3.5690 #GCMRL# 547 dt 0.224000 rms 0.465 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5320 tsec 3.5680 #GCMRL# 548 dt 0.224000 rms 0.465 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5360 tsec 3.5730 #GCMRL# 549 dt 0.224000 rms 0.465 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5350 tsec 3.5730 #GCMRL# 550 dt 0.224000 rms 0.465 0.005% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5340 tsec 3.9740 #GCMRL# 551 dt 0.224000 rms 0.465 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5370 tsec 3.5720 #GCMRL# 552 dt 0.224000 rms 0.465 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5360 tsec 3.5720 #GCMRL# 553 dt 0.224000 rms 0.465 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.4750 tsec 3.5120 #GCMRL# 554 dt 0.224000 rms 0.465 0.016% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.4750 tsec 3.5110 #GCMRL# 555 dt 0.224000 rms 0.465 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5400 tsec 3.5940 #GCMRL# 556 dt 0.320000 rms 0.465 0.000% neg 0 invalid 762 tFOTS 12.8020 tGradient 2.5370 tsec 16.3940 #GCMRL# 557 dt 0.320000 rms 0.465 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5370 tsec 3.5750 #GCMRL# 558 dt 0.320000 rms 0.465 0.005% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5360 tsec 3.5690 #GCMRL# 559 dt 0.320000 rms 0.465 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5320 tsec 3.5710 #GCMRL# 560 dt 0.320000 rms 0.465 0.010% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5380 tsec 3.5740 #GCMRL# 561 dt 0.320000 rms 0.465 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5380 tsec 3.9790 #GCMRL# 562 dt 0.320000 rms 0.464 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.4750 tsec 3.9180 #GCAMreg# pass 0 level1 0 level2 1 tsec 302.144 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.464965 #GCMRL# 564 dt 0.320000 rms 0.461 0.764% neg 0 invalid 762 tFOTS 12.8080 tGradient 2.5350 tsec 16.3780 #GCMRL# 565 dt 0.320000 rms 0.460 0.226% neg 0 invalid 762 tFOTS 12.8100 tGradient 2.5350 tsec 16.3790 #GCMRL# 566 dt 0.320000 rms 0.460 0.087% neg 0 invalid 762 tFOTS 12.8170 tGradient 2.5380 tsec 16.3900 #GCMRL# 567 dt 0.320000 rms 0.460 0.000% neg 0 invalid 762 tFOTS 12.8200 tGradient 2.5360 tsec 16.4110 #GCMRL# 568 dt 0.320000 rms 0.460 0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5330 tsec 3.5680 #GCMRL# 569 dt 0.320000 rms 0.460 0.019% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5410 tsec 3.5760 GCAMregister done in 80.1275 min ********************* ALLOWING NEGATIVE NODES IN DEFORMATION******************************** noneg post Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.008 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.458121 #FOTS# QuadFit found better minimum quadopt=(dt=8.092,rms=0.457633) vs oldopt=(dt=5.78,rms=0.457634) #GCMRL# 571 dt 8.092000 rms 0.458 0.106% neg 0 invalid 762 tFOTS 16.2240 tGradient 6.1510 tsec 23.4100 #FOTS# QuadFit found better minimum quadopt=(dt=6.936,rms=0.457633) vs oldopt=(dt=5.78,rms=0.457633) #GCMRL# 572 dt 6.936000 rms 0.458 0.000% neg 0 invalid 762 tFOTS 16.2230 tGradient 6.1510 tsec 23.4280 #GCAMreg# pass 0 level1 5 level2 1 tsec 59.379 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.458115 #FOTS# QuadFit found better minimum quadopt=(dt=221.952,rms=0.457199) vs oldopt=(dt=369.92,rms=0.457295) #GCMRL# 574 dt 221.952000 rms 0.457 0.200% neg 0 invalid 762 tFOTS 15.3670 tGradient 6.1490 tsec 22.5500 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.457072) vs oldopt=(dt=92.48,rms=0.457077) #GCMRL# 575 dt 73.984000 rms 0.457 0.000% neg 0 invalid 762 tFOTS 15.3600 tGradient 6.1480 tsec 22.5610 #GCMRL# 576 dt 73.984000 rms 0.457 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0860 tsec 7.1210 #GCMRL# 577 dt 73.984000 rms 0.457 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1540 tsec 7.1890 #GCMRL# 578 dt 73.984000 rms 0.457 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1490 tsec 7.1840 #GCMRL# 579 dt 73.984000 rms 0.457 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0870 tsec 7.1210 setting smoothness cost coefficient to 0.031 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.457094 #GCMRL# 581 dt 25.920000 rms 0.456 0.154% neg 0 invalid 762 tFOTS 16.2280 tGradient 4.5690 tsec 21.8300 #FOTS# QuadFit found better minimum quadopt=(dt=9.072,rms=0.456362) vs oldopt=(dt=6.48,rms=0.456368) #GCMRL# 582 dt 9.072000 rms 0.456 0.000% neg 0 invalid 762 tFOTS 16.2290 tGradient 4.5700 tsec 21.8540 #GCMRL# 583 dt 9.072000 rms 0.456 0.004% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5700 tsec 5.6080 #GCMRL# 584 dt 9.072000 rms 0.456 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5720 tsec 5.6100 #GCAMreg# pass 0 level1 4 level2 1 tsec 65.861 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.456821 #FOTS# QuadFit found better minimum quadopt=(dt=83.0638,rms=0.455055) vs oldopt=(dt=103.68,rms=0.45513) #GCMRL# 586 dt 83.063830 rms 0.455 0.386% neg 0 invalid 762 tFOTS 16.2370 tGradient 4.5750 tsec 21.8490 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.454514) vs oldopt=(dt=25.92,rms=0.454618) #GCMRL# 587 dt 36.288000 rms 0.455 0.000% neg 0 invalid 762 tFOTS 15.3670 tGradient 4.5480 tsec 20.9730 #GCMRL# 588 dt 36.288000 rms 0.454 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5680 tsec 5.6020 #GCMRL# 589 dt 36.288000 rms 0.454 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5620 tsec 5.5970 #GCMRL# 590 dt 36.288000 rms 0.453 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5720 tsec 5.6080 #GCMRL# 591 dt 36.288000 rms 0.453 0.125% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5690 tsec 5.6050 #GCMRL# 592 dt 36.288000 rms 0.452 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5670 tsec 5.6010 #GCMRL# 593 dt 36.288000 rms 0.452 0.098% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5710 tsec 5.6270 #FOTS# QuadFit found better minimum quadopt=(dt=248.832,rms=0.451437) vs oldopt=(dt=414.72,rms=0.451516) setting smoothness cost coefficient to 0.118 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.452111 iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 595 dt 32.000000 rms 0.450 0.485% neg 0 invalid 762 tFOTS 16.2350 tGradient 3.8900 tsec 22.4080 #FOTS# QuadFit found better minimum quadopt=(dt=31.5556,rms=0.448705) vs oldopt=(dt=32,rms=0.448709) #GCMRL# 596 dt 31.555556 rms 0.449 0.270% neg 0 invalid 762 tFOTS 16.2240 tGradient 3.8870 tsec 21.1450 #FOTS# QuadFit found better minimum quadopt=(dt=23.5533,rms=0.44791) vs oldopt=(dt=32,rms=0.448077) iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 597 dt 23.553299 rms 0.448 0.000% neg 0 invalid 762 tFOTS 16.2250 tGradient 3.8650 tsec 21.9770 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 598 dt 23.553299 rms 0.447 0.160% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9400 tsec 5.8090 #GCMRL# 599 dt 23.553299 rms 0.446 0.213% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8890 tsec 4.9250 iter 0, gcam->neg = 7 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 600 dt 23.553299 rms 0.445 0.170% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8900 tsec 6.5920 iter 0, gcam->neg = 7 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 601 dt 23.553299 rms 0.445 0.157% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8900 tsec 10.3230 iter 0, gcam->neg = 10 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 602 dt 23.553299 rms 0.444 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8860 tsec 10.3120 iter 0, gcam->neg = 9 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 603 dt 23.553299 rms 0.444 0.142% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9150 tsec 10.3640 iter 0, gcam->neg = 9 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 604 dt 23.553299 rms 0.443 0.155% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8770 tsec 10.3140 iter 0, gcam->neg = 9 after 4 iterations, nbhd size=0, neg = 0 #GCMRL# 605 dt 23.553299 rms 0.442 0.174% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8740 tsec 7.4090 iter 0, gcam->neg = 10 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 606 dt 23.553299 rms 0.442 0.092% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8820 tsec 10.3140 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 607 dt 23.553299 rms 0.441 0.133% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8820 tsec 5.7540 iter 0, gcam->neg = 2 after 4 iterations, nbhd size=0, neg = 0 #GCMRL# 608 dt 23.553299 rms 0.441 0.123% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8810 tsec 7.4070 iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 609 dt 23.553299 rms 0.440 0.139% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8900 tsec 6.1760 iter 0, gcam->neg = 9 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 610 dt 23.553299 rms 0.440 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8790 tsec 10.3290 iter 0, gcam->neg = 10 after 4 iterations, nbhd size=0, neg = 0 #GCMRL# 611 dt 23.553299 rms 0.440 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8800 tsec 7.4240 #FOTS# QuadFit found better minimum quadopt=(dt=19.2,rms=0.439219) vs oldopt=(dt=32,rms=0.439294) iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 612 dt 19.200000 rms 0.439 0.095% neg 0 invalid 762 tFOTS 16.2240 tGradient 3.8850 tsec 21.9730 #FOTS# QuadFit found better minimum quadopt=(dt=19.2,rms=0.438953) vs oldopt=(dt=32,rms=0.439014) iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 613 dt 19.200000 rms 0.439 0.000% neg 0 invalid 762 tFOTS 16.2200 tGradient 3.8880 tsec 22.4080 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 614 dt 19.200000 rms 0.439 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9110 tsec 6.1900 iter 0, gcam->neg = 4 after 4 iterations, nbhd size=0, neg = 0 #GCMRL# 615 dt 19.200000 rms 0.439 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8820 tsec 7.4000 iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 616 dt 19.200000 rms 0.438 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8840 tsec 5.7450 iter 0, gcam->neg = 5 after 6 iterations, nbhd size=0, neg = 0 #GCAMreg# pass 0 level1 3 level2 1 tsec 255.356 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.438692 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.435271) vs oldopt=(dt=32,rms=0.435531) #GCMRL# 618 dt 44.800000 rms 0.435 0.780% neg 0 invalid 762 tFOTS 16.2200 tGradient 3.8920 tsec 21.1460 #FOTS# QuadFit found better minimum quadopt=(dt=22.5023,rms=0.434291) vs oldopt=(dt=32,rms=0.434508) #GCMRL# 619 dt 22.502283 rms 0.434 0.000% neg 0 invalid 762 tFOTS 16.2270 tGradient 3.8830 tsec 21.1640 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 620 dt 22.502283 rms 0.434 0.081% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9200 tsec 6.1930 #GCMRL# 621 dt 22.502283 rms 0.433 0.209% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8880 tsec 4.9240 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 622 dt 22.502283 rms 0.432 0.141% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8860 tsec 6.1660 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 623 dt 22.502283 rms 0.432 0.134% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9750 tsec 5.8390 #GCMRL# 624 dt 22.502283 rms 0.432 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9120 tsec 4.9480 #GCMRL# 625 dt 22.502283 rms 0.431 0.130% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9720 tsec 5.0040 iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 626 dt 22.502283 rms 0.431 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8790 tsec 6.1630 iter 0, gcam->neg = 4 after 6 iterations, nbhd size=0, neg = 0 #GCMRL# 627 dt 22.502283 rms 0.431 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9130 tsec 8.2790 iter 0, gcam->neg = 3 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 628 dt 22.502283 rms 0.431 -0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8820 tsec 7.5540 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.430649) vs oldopt=(dt=8,rms=0.430694) #GCMRL# 629 dt 11.200000 rms 0.431 0.057% neg 0 invalid 762 tFOTS 16.2180 tGradient 3.8850 tsec 21.1360 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.430348) vs oldopt=(dt=32,rms=0.430398) iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 630 dt 44.800000 rms 0.430 0.070% neg 0 invalid 762 tFOTS 15.3710 tGradient 3.8840 tsec 21.1250 #FOTS# QuadFit found better minimum quadopt=(dt=19.2,rms=0.430206) vs oldopt=(dt=32,rms=0.430225) setting smoothness cost coefficient to 0.400 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.435063 #FOTS# QuadFit found better minimum quadopt=(dt=1.008,rms=0.434535) vs oldopt=(dt=0.72,rms=0.434542) #GCMRL# 632 dt 1.008000 rms 0.435 0.121% neg 0 invalid 762 tFOTS 15.4210 tGradient 3.2410 tsec 19.6960 #FOTS# QuadFit found better minimum quadopt=(dt=1.008,rms=0.434508) vs oldopt=(dt=0.72,rms=0.434508) #GCMRL# 633 dt 1.008000 rms 0.435 0.000% neg 0 invalid 762 tFOTS 16.2570 tGradient 3.2410 tsec 20.5520 #GCAMreg# pass 0 level1 2 level2 1 tsec 49.879 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.435025 #FOTS# QuadFit found better minimum quadopt=(dt=3.456,rms=0.434366) vs oldopt=(dt=2.88,rms=0.434372) #GCMRL# 635 dt 3.456000 rms 0.434 0.151% neg 0 invalid 762 tFOTS 16.2530 tGradient 3.2430 tsec 20.5300 #FOTS# QuadFit found better minimum quadopt=(dt=3.456,rms=0.434286) vs oldopt=(dt=2.88,rms=0.43429) #GCMRL# 636 dt 3.456000 rms 0.434 0.000% neg 0 invalid 762 tFOTS 16.2600 tGradient 3.2380 tsec 20.5530 #GCMRL# 637 dt 3.456000 rms 0.434 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2420 tsec 4.2780 setting smoothness cost coefficient to 1.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.440775 #GCMRL# 639 dt 0.000000 rms 0.440 0.120% neg 0 invalid 762 tFOTS 15.4190 tGradient 3.0850 tsec 19.5390 #GCAMreg# pass 0 level1 1 level2 1 tsec 44.443 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.440775 #FOTS# QuadFit found better minimum quadopt=(dt=1.024,rms=0.439876) vs oldopt=(dt=1.28,rms=0.439886) #GCMRL# 641 dt 1.024000 rms 0.440 0.204% neg 0 invalid 762 tFOTS 16.2940 tGradient 3.0850 tsec 20.4150 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.439808) vs oldopt=(dt=0.32,rms=0.439819) #GCMRL# 642 dt 0.448000 rms 0.440 0.000% neg 0 invalid 762 tFOTS 16.2540 tGradient 3.0870 tsec 20.4000 #GCMRL# 643 dt 0.448000 rms 0.440 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.0820 tsec 4.1170 resetting metric properties... setting smoothness cost coefficient to 2.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.433152 #FOTS# QuadFit found better minimum quadopt=(dt=2.10033,rms=0.402406) vs oldopt=(dt=1.28,rms=0.407258) iter 0, gcam->neg = 953 after 14 iterations, nbhd size=1, neg = 0 #GCMRL# 645 dt 2.100327 rms 0.402 7.219% neg 0 invalid 762 tFOTS 16.2420 tGradient 2.5330 tsec 26.5110 #FOTS# QuadFit found better minimum quadopt=(dt=0.006,rms=0.401895) vs oldopt=(dt=0.005,rms=0.401895) #GCMRL# 646 dt 0.006000 rms 0.402 0.000% neg 0 invalid 762 tFOTS 16.2600 tGradient 2.5300 tsec 20.7940 #GCMRL# 647 dt 0.006000 rms 0.402 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.5330 tsec 3.5660 #GCAMreg# pass 0 level1 0 level2 1 tsec 59.78 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.40252 #FOTS# QuadFit found better minimum quadopt=(dt=0.064,rms=0.401745) vs oldopt=(dt=0.08,rms=0.401755) #GCMRL# 649 dt 0.064000 rms 0.402 0.193% neg 0 invalid 762 tFOTS 16.2630 tGradient 2.5360 tsec 19.8320 #GCMRL# 650 dt 0.050000 rms 0.402 0.000% neg 0 invalid 762 tFOTS 15.4350 tGradient 2.5340 tsec 19.0260 label assignment complete, 0 changed (0.00%) GCAMregister done in 17.2821 min Starting GCAMcomputeMaxPriorLabels() Morphing with label term set to 0 ******************************* Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.008 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.387724 #GCAMreg# pass 0 level1 5 level2 1 tsec 26.892 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.387724 #GCMRL# 653 dt 23.120000 rms 0.388 0.001% neg 0 invalid 762 tFOTS 15.8270 tGradient 5.5920 tsec 22.4330 #FOTS# QuadFit found better minimum quadopt=(dt=8.092,rms=0.387718) vs oldopt=(dt=5.78,rms=0.387718) #GCMRL# 654 dt 8.092000 rms 0.388 0.000% neg 0 invalid 762 tFOTS 15.7960 tGradient 5.5890 tsec 22.4200 #GCMRL# 655 dt 8.092000 rms 0.388 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5890 tsec 6.6010 setting smoothness cost coefficient to 0.031 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.38789 #GCAMreg# pass 0 level1 4 level2 1 tsec 25.337 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.38789 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.387816) vs oldopt=(dt=25.92,rms=0.387825) #GCMRL# 658 dt 36.288000 rms 0.388 0.019% neg 0 invalid 762 tFOTS 15.8060 tGradient 4.0100 tsec 20.8280 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.387784) vs oldopt=(dt=25.92,rms=0.38779) #GCMRL# 659 dt 36.288000 rms 0.388 0.000% neg 0 invalid 762 tFOTS 15.8020 tGradient 4.0070 tsec 20.8420 #GCMRL# 660 dt 36.288000 rms 0.388 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.0080 tsec 5.0210 #GCMRL# 661 dt 36.288000 rms 0.388 0.009% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.0060 tsec 5.0190 #GCMRL# 662 dt 36.288000 rms 0.388 0.006% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.0080 tsec 5.0220 setting smoothness cost coefficient to 0.118 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.388339 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.388118) vs oldopt=(dt=8,rms=0.388144) #GCMRL# 664 dt 11.200000 rms 0.388 0.057% neg 0 invalid 762 tFOTS 15.0170 tGradient 3.3310 tsec 19.3590 #FOTS# QuadFit found better minimum quadopt=(dt=6.4,rms=0.388089) vs oldopt=(dt=8,rms=0.388092) #GCMRL# 665 dt 6.400000 rms 0.388 0.000% neg 0 invalid 762 tFOTS 15.8220 tGradient 3.3270 tsec 20.1850 #GCAMreg# pass 0 level1 3 level2 1 tsec 49.142 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.388089 #FOTS# QuadFit found better minimum quadopt=(dt=79.3333,rms=0.386393) vs oldopt=(dt=32,rms=0.386753) iter 0, gcam->neg = 5 after 8 iterations, nbhd size=1, neg = 0 #GCMRL# 667 dt 79.333333 rms 0.387 0.391% neg 0 invalid 762 tFOTS 15.8190 tGradient 3.3320 tsec 24.3140 #FOTS# QuadFit found better minimum quadopt=(dt=24.7204,rms=0.385627) vs oldopt=(dt=32,rms=0.38576) iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 668 dt 24.720379 rms 0.386 0.000% neg 0 invalid 762 tFOTS 15.8510 tGradient 3.3370 tsec 21.4720 #GCMRL# 669 dt 24.720379 rms 0.385 0.077% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3380 tsec 4.3540 iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 670 dt 24.720379 rms 0.385 0.085% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3310 tsec 5.5790 iter 0, gcam->neg = 3 after 8 iterations, nbhd size=1, neg = 0 #GCMRL# 671 dt 24.720379 rms 0.385 0.131% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3360 tsec 8.4850 iter 0, gcam->neg = 3 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 672 dt 24.720379 rms 0.384 0.129% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3370 tsec 5.1790 iter 0, gcam->neg = 4 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 673 dt 24.720379 rms 0.383 0.143% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3370 tsec 5.6000 iter 0, gcam->neg = 3 after 12 iterations, nbhd size=1, neg = 0 #GCMRL# 674 dt 24.720379 rms 0.383 0.110% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3380 tsec 10.1660 iter 0, gcam->neg = 7 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 675 dt 24.720379 rms 0.383 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3250 tsec 5.6110 #GCMRL# 676 dt 32.000000 rms 0.383 0.000% neg 0 invalid 762 tFOTS 14.9770 tGradient 3.3280 tsec 19.3370 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 677 dt 32.000000 rms 0.383 0.019% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3310 tsec 5.1770 #GCMRL# 678 dt 32.000000 rms 0.382 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3310 tsec 4.3450 #GCMRL# 679 dt 32.000000 rms 0.382 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3300 tsec 4.3430 iter 0, gcam->neg = 3 after 3 iterations, nbhd size=0, neg = 0 #GCMRL# 680 dt 32.000000 rms 0.382 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3360 tsec 6.4210 iter 0, gcam->neg = 8 after 7 iterations, nbhd size=0, neg = 0 setting smoothness cost coefficient to 0.400 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.385434 #FOTS# QuadFit found better minimum quadopt=(dt=1.81818,rms=0.385407) vs oldopt=(dt=2.88,rms=0.385416) #GCMRL# 682 dt 1.818182 rms 0.385 0.007% neg 0 invalid 762 tFOTS 15.8300 tGradient 2.6880 tsec 19.5300 #FOTS# QuadFit found better minimum quadopt=(dt=0.576,rms=0.385405) vs oldopt=(dt=0.72,rms=0.385405) #GCMRL# 683 dt 0.576000 rms 0.385 0.000% neg 0 invalid 762 tFOTS 15.0150 tGradient 2.6840 tsec 18.7330 #GCAMreg# pass 0 level1 2 level2 1 tsec 47.225 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.385405 #FOTS# QuadFit found better minimum quadopt=(dt=13.551,rms=0.384909) vs oldopt=(dt=11.52,rms=0.384916) iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 685 dt 13.551020 rms 0.385 0.128% neg 0 invalid 762 tFOTS 15.8210 tGradient 2.6840 tsec 20.3420 #FOTS# QuadFit found better minimum quadopt=(dt=33.47,rms=0.384011) vs oldopt=(dt=46.08,rms=0.384178) iter 0, gcam->neg = 34 after 7 iterations, nbhd size=0, neg = 0 #GCMRL# 686 dt 33.469965 rms 0.384 0.234% neg 0 invalid 762 tFOTS 15.8180 tGradient 2.6840 tsec 23.2560 #FOTS# QuadFit found better minimum quadopt=(dt=13.4,rms=0.383609) vs oldopt=(dt=11.52,rms=0.383617) iter 0, gcam->neg = 16 after 12 iterations, nbhd size=1, neg = 0 #GCMRL# 687 dt 13.400000 rms 0.384 0.000% neg 0 invalid 762 tFOTS 15.8210 tGradient 2.6840 tsec 25.3380 iter 0, gcam->neg = 17 after 10 iterations, nbhd size=1, neg = 0 #GCMRL# 688 dt 13.400000 rms 0.384 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.6890 tsec 8.6910 iter 0, gcam->neg = 22 after 15 iterations, nbhd size=1, neg = 0 #GCMRL# 689 dt 13.400000 rms 0.383 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.6900 tsec 10.7820 iter 0, gcam->neg = 74 after 19 iterations, nbhd size=1, neg = 0 #GCMRL# 690 dt 13.400000 rms 0.383 0.067% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.6870 tsec 12.4280 iter 0, gcam->neg = 73 after 19 iterations, nbhd size=1, neg = 0 setting smoothness cost coefficient to 1.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.388469 #FOTS# QuadFit found better minimum quadopt=(dt=6e-05,rms=0.388469) vs oldopt=(dt=5e-05,rms=0.388469) #GCMRL# 692 dt 0.000060 rms 0.388 0.000% neg 0 invalid 762 tFOTS 20.0060 tGradient 2.5310 tsec 23.5530 #GCAMreg# pass 0 level1 1 level2 1 tsec 47.416 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.388469 resetting metric properties... setting smoothness cost coefficient to 2.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.37887 #FOTS# QuadFit found better minimum quadopt=(dt=1.11097,rms=0.369501) vs oldopt=(dt=1.28,rms=0.369704) iter 0, gcam->neg = 770 after 16 iterations, nbhd size=1, neg = 0 #GCMRL# 695 dt 1.110965 rms 0.370 2.288% neg 0 invalid 762 tFOTS 15.8770 tGradient 1.9830 tsec 26.4210 #FOTS# QuadFit found better minimum quadopt=(dt=2.34375e-05,rms=0.370203) vs oldopt=(dt=1.95313e-05,rms=0.370203) #GCMRL# 696 dt 0.000023 rms 0.370 0.000% neg 0 invalid 762 tFOTS 20.0190 tGradient 1.9840 tsec 23.0390 #GCAMreg# pass 0 level1 0 level2 1 tsec 57.737 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.370203 #FOTS# QuadFit found better minimum quadopt=(dt=0.064,rms=0.370115) vs oldopt=(dt=0.08,rms=0.370116) #GCMRL# 698 dt 0.064000 rms 0.370 0.024% neg 0 invalid 762 tFOTS 15.8900 tGradient 1.9830 tsec 18.8870 #FOTS# QuadFit found better minimum quadopt=(dt=0.028,rms=0.370096) vs oldopt=(dt=0.02,rms=0.3701) #GCMRL# 699 dt 0.028000 rms 0.370 0.000% neg 0 invalid 762 tFOTS 15.8980 tGradient 1.9840 tsec 18.9170 #GCMRL# 700 dt 0.028000 rms 0.370 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 1.9840 tsec 2.9980 GCAMregister done in 11.8217 min writing output transformation to transforms/talairach.m3z... GCAMwrite Calls to gcamLogLikelihoodEnergy 4746 tmin = 15.2223 Calls to gcamLabelEnergy 4211 tmin = 1.44172 Calls to gcamJacobianEnergy 4746 tmin = 16.724 Calls to gcamSmoothnessEnergy 4746 tmin = 14.4946 Calls to gcamLogLikelihoodTerm 702 tmin = 4.62282 Calls to gcamLabelTerm 652 tmin = 6.80802 Calls to gcamJacobianTerm 702 tmin = 12.3909 Calls to gcamSmoothnessTerm 702 tmin = 3.4281 Calls to gcamComputeGradient 702 tmin = 53.6376 Calls to gcamComputeMetricProperties 6811 tmin = 17.1735 mri_ca_register took 2 hours, 9 minutes and 49 seconds. #VMPC# mri_ca_register VmPeak 2103668 FSRUNTIME@ mri_ca_register 2.1636 hours 1 threads @#@FSTIME 2020:08:24:10:32:20 mri_ca_register N 9 e 7788.87 S 0.82 U 7769.30 P 99% M 1349848 F 2 R 379789 W 0 c 2252 w 1845 I 2368 O 63544 L 1.03 1.03 0.92 @#@FSLOADPOST 2020:08:24:12:42:09 mri_ca_register N 9 1.00 1.01 1.05 #-------------------------------------- #@# SubCort Seg Mon Aug 24 12:42:09 EDT 2020 mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz 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 == Number of threads available to for OpenMP = 1 == reading 1 input volumes reading classifier array from /usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.gca reading input volume from norm.mgz average std[0] = 7.2 reading transform from transforms/talairach.m3z setting orig areas to linear transform determinant scaled 5.69 Atlas used for the 3D morph was /usr/local/freesurfer/7.1.0/average/RB_all_2020-01-02.gca average std = 7.2 using min determinant for regularization = 5.2 0 singular and 0 ill-conditioned covariance matrices regularized labeling volume... renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.15521 (20) mri peak = 0.13185 (19) Left_Lateral_Ventricle (4): linear fit = 0.87 x + 0.0 (4960 voxels, overlap=0.801) Left_Lateral_Ventricle (4): linear fit = 0.87 x + 0.0 (4960 voxels, peak = 17), gca=17.3 gca peak = 0.20380 (13) mri peak = 0.18510 (19) Right_Lateral_Ventricle (43): linear fit = 1.27 x + 0.0 (4434 voxels, overlap=0.654) Right_Lateral_Ventricle (43): linear fit = 1.27 x + 0.0 (4434 voxels, peak = 17), gca=16.6 gca peak = 0.26283 (96) mri peak = 0.15473 (101) Right_Pallidum (52): linear fit = 1.04 x + 0.0 (172 voxels, overlap=0.574) Right_Pallidum (52): linear fit = 1.04 x + 0.0 (172 voxels, peak = 100), gca=100.3 gca peak = 0.15814 (97) mri peak = 0.18818 (101) Left_Pallidum (13): linear fit = 1.07 x + 0.0 (180 voxels, overlap=0.497) Left_Pallidum (13): linear fit = 1.07 x + 0.0 (180 voxels, peak = 103), gca=103.3 gca peak = 0.27624 (56) mri peak = 0.09922 (63) Right_Hippocampus (53): linear fit = 1.13 x + 0.0 (762 voxels, overlap=0.291) Right_Hippocampus (53): linear fit = 1.13 x + 0.0 (762 voxels, peak = 64), gca=63.6 gca peak = 0.28723 (59) mri peak = 0.11212 (67) Left_Hippocampus (17): linear fit = 1.12 x + 0.0 (657 voxels, overlap=0.307) Left_Hippocampus (17): linear fit = 1.12 x + 0.0 (657 voxels, peak = 66), gca=66.4 gca peak = 0.07623 (103) mri peak = 0.13259 (106) Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (25774 voxels, overlap=0.569) Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (25774 voxels, peak = 105), gca=104.5 gca peak = 0.07837 (105) mri peak = 0.12042 (106) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (25224 voxels, overlap=0.572) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (25224 voxels, peak = 107), gca=106.6 gca peak = 0.10165 (58) mri peak = 0.04585 (71) Left_Cerebral_Cortex (3): linear fit = 1.22 x + 0.0 (14354 voxels, overlap=0.283) Left_Cerebral_Cortex (3): linear fit = 1.22 x + 0.0 (14354 voxels, peak = 70), gca=70.5 gca peak = 0.11113 (58) mri peak = 0.04465 (71) Right_Cerebral_Cortex (42): linear fit = 1.18 x + 0.0 (13594 voxels, overlap=0.252) Right_Cerebral_Cortex (42): linear fit = 1.18 x + 0.0 (13594 voxels, peak = 69), gca=68.7 gca peak = 0.27796 (67) mri peak = 0.15087 (82) Right_Caudate (50): linear fit = 1.20 x + 0.0 (254 voxels, overlap=0.019) Right_Caudate (50): linear fit = 1.20 x + 0.0 (254 voxels, peak = 80), gca=80.1 gca peak = 0.14473 (69) mri peak = 0.13858 (83) Left_Caudate (11): linear fit = 1.09 x + 0.0 (267 voxels, overlap=0.425) Left_Caudate (11): linear fit = 1.09 x + 0.0 (267 voxels, peak = 75), gca=74.9 gca peak = 0.14301 (56) mri peak = 0.05722 (68) Left_Cerebellum_Cortex (8): linear fit = 1.21 x + 0.0 (17839 voxels, overlap=0.246) Left_Cerebellum_Cortex (8): linear fit = 1.21 x + 0.0 (17839 voxels, peak = 67), gca=67.5 gca peak = 0.14610 (55) mri peak = 0.06390 (66) Right_Cerebellum_Cortex (47): linear fit = 1.21 x + 0.0 (19525 voxels, overlap=0.255) Right_Cerebellum_Cortex (47): linear fit = 1.21 x + 0.0 (19525 voxels, peak = 66), gca=66.3 gca peak = 0.16309 (85) mri peak = 0.10841 (90) Left_Cerebellum_White_Matter (7): linear fit = 1.10 x + 0.0 (3348 voxels, overlap=0.427) Left_Cerebellum_White_Matter (7): linear fit = 1.10 x + 0.0 (3348 voxels, peak = 93), gca=93.1 gca peak = 0.15172 (84) mri peak = 0.14753 (88) Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (3582 voxels, overlap=0.588) Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (3582 voxels, peak = 87), gca=86.9 gca peak = 0.30461 (58) mri peak = 0.15336 (68) Left_Amygdala (18): linear fit = 1.18 x + 0.0 (315 voxels, overlap=0.057) Left_Amygdala (18): linear fit = 1.18 x + 0.0 (315 voxels, peak = 69), gca=68.7 gca peak = 0.32293 (57) mri peak = 0.11331 (69) Right_Amygdala (54): linear fit = 1.18 x + 0.0 (353 voxels, overlap=0.047) Right_Amygdala (54): linear fit = 1.18 x + 0.0 (353 voxels, peak = 68), gca=67.5 gca peak = 0.11083 (90) mri peak = 0.08428 (92) Left_Thalamus (10): linear fit = 1.03 x + 0.0 (3091 voxels, overlap=0.875) Left_Thalamus (10): linear fit = 1.03 x + 0.0 (3091 voxels, peak = 93), gca=93.1 gca peak = 0.11393 (83) mri peak = 0.09292 (90) Right_Thalamus (49): linear fit = 1.05 x + 0.0 (3048 voxels, overlap=0.756) Right_Thalamus (49): linear fit = 1.05 x + 0.0 (3048 voxels, peak = 88), gca=87.6 gca peak = 0.08575 (81) mri peak = 0.06732 (89) Left_Putamen (12): linear fit = 1.12 x + 0.0 (604 voxels, overlap=0.658) Left_Putamen (12): linear fit = 1.12 x + 0.0 (604 voxels, peak = 91), gca=91.1 gca peak = 0.08618 (78) mri peak = 0.09822 (84) Right_Putamen (51): linear fit = 1.10 x + 0.0 (585 voxels, overlap=0.693) Right_Putamen (51): linear fit = 1.10 x + 0.0 (585 voxels, peak = 85), gca=85.4 gca peak = 0.08005 (78) mri peak = 0.10487 (88) Brain_Stem (16): linear fit = 1.08 x + 0.0 (8576 voxels, overlap=0.429) Brain_Stem (16): linear fit = 1.08 x + 0.0 (8576 voxels, peak = 84), gca=83.9 gca peak = 0.12854 (88) mri peak = 0.12052 (95) Right_VentralDC (60): linear fit = 1.10 x + 0.0 (958 voxels, overlap=0.330) Right_VentralDC (60): linear fit = 1.10 x + 0.0 (958 voxels, peak = 96), gca=96.4 gca peak = 0.15703 (87) mri peak = 0.10136 (97) Left_VentralDC (28): linear fit = 1.11 x + 0.0 (993 voxels, overlap=0.245) Left_VentralDC (28): linear fit = 1.11 x + 0.0 (993 voxels, peak = 96), gca=96.1 gca peak = 0.17522 (25) mri peak = 0.22931 (22) Third_Ventricle (14): linear fit = 0.81 x + 0.0 (152 voxels, overlap=0.445) Third_Ventricle (14): linear fit = 0.81 x + 0.0 (152 voxels, peak = 20), gca=20.4 gca peak = 0.17113 (14) mri peak = 0.23437 (21) Fourth_Ventricle (15): linear fit = 1.25 x + 0.0 (331 voxels, overlap=0.607) Fourth_Ventricle (15): linear fit = 1.25 x + 0.0 (331 voxels, peak = 18), gca=17.6 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.16627 (28) gca peak CSF = 0.20346 (36) gca peak Left_Accumbens_area = 0.70646 (62) gca peak Left_undetermined = 1.00000 (28) gca peak Left_vessel = 0.89917 (53) gca peak Left_choroid_plexus = 0.11689 (35) gca peak Right_Inf_Lat_Vent = 0.25504 (23) gca peak Right_Accumbens_area = 0.31650 (65) gca peak Right_vessel = 0.77268 (52) gca peak Right_choroid_plexus = 0.13275 (38) gca peak Fifth_Ventricle = 0.60973 (33) gca peak WM_hypointensities = 0.11013 (77) gca peak non_WM_hypointensities = 0.11354 (41) gca peak Optic_Chiasm = 0.51646 (76) not using caudate to estimate GM means estimating mean gm scale to be 1.17 x + 0.0 estimating mean wm scale to be 1.01 x + 0.0 estimating mean csf scale to be 1.05 x + 0.0 Left_Pallidum too bright - rescaling by 0.991 (from 1.065) to 102.4 (was 103.3) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.17102 (16) mri peak = 0.13185 (19) Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (4960 voxels, overlap=0.925) Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (4960 voxels, peak = 17), gca=16.6 gca peak = 0.15995 (16) mri peak = 0.18510 (19) Right_Lateral_Ventricle (43): linear fit = 1.10 x + 0.0 (4434 voxels, overlap=0.421) Right_Lateral_Ventricle (43): linear fit = 1.10 x + 0.0 (4434 voxels, peak = 18), gca=17.5 gca peak = 0.21285 (100) mri peak = 0.15473 (101) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (172 voxels, overlap=1.001) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (172 voxels, peak = 100), gca=100.0 gca peak = 0.17574 (100) mri peak = 0.18818 (101) Left_Pallidum (13): linear fit = 1.00 x + 0.0 (180 voxels, overlap=0.955) Left_Pallidum (13): linear fit = 1.00 x + 0.0 (180 voxels, peak = 100), gca=100.0 gca peak = 0.24424 (63) mri peak = 0.09922 (63) Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (762 voxels, overlap=1.002) Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (762 voxels, peak = 62), gca=62.1 gca peak = 0.24046 (67) mri peak = 0.11212 (67) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (657 voxels, overlap=1.001) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (657 voxels, peak = 67), gca=67.0 gca peak = 0.07895 (105) mri peak = 0.13259 (106) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (25774 voxels, overlap=0.627) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (25774 voxels, peak = 105), gca=105.0 gca peak = 0.07852 (106) mri peak = 0.12042 (106) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (25224 voxels, overlap=0.642) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (25224 voxels, peak = 106), gca=106.0 gca peak = 0.07983 (69) mri peak = 0.04585 (71) Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (14354 voxels, overlap=0.960) Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (14354 voxels, peak = 69), gca=69.0 gca peak = 0.09539 (69) mri peak = 0.04465 (71) Right_Cerebral_Cortex (42): linear fit = 1.03 x + 0.0 (13594 voxels, overlap=0.951) Right_Cerebral_Cortex (42): linear fit = 1.03 x + 0.0 (13594 voxels, peak = 71), gca=71.4 gca peak = 0.21502 (80) mri peak = 0.15087 (82) Right_Caudate (50): linear fit = 1.00 x + 0.0 (254 voxels, overlap=1.000) Right_Caudate (50): linear fit = 1.00 x + 0.0 (254 voxels, peak = 80), gca=80.0 gca peak = 0.12400 (74) mri peak = 0.13858 (83) Left_Caudate (11): linear fit = 1.01 x + 0.0 (267 voxels, overlap=0.861) Left_Caudate (11): linear fit = 1.01 x + 0.0 (267 voxels, peak = 75), gca=75.1 gca peak = 0.11536 (67) mri peak = 0.05722 (68) Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (17839 voxels, overlap=0.992) Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (17839 voxels, peak = 67), gca=67.0 gca peak = 0.12628 (67) mri peak = 0.06390 (66) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (19525 voxels, overlap=0.958) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (19525 voxels, peak = 66), gca=66.0 gca peak = 0.14900 (93) mri peak = 0.10841 (90) Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (3348 voxels, overlap=0.952) Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (3348 voxels, peak = 92), gca=91.6 gca peak = 0.14286 (86) mri peak = 0.14753 (88) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (3582 voxels, overlap=0.806) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (3582 voxels, peak = 86), gca=86.0 gca peak = 0.28347 (69) mri peak = 0.15336 (68) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (315 voxels, overlap=1.012) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (315 voxels, peak = 69), gca=69.0 gca peak = 0.30316 (68) mri peak = 0.11331 (69) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (353 voxels, overlap=1.007) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (353 voxels, peak = 68), gca=68.0 gca peak = 0.09816 (90) mri peak = 0.08428 (92) Left_Thalamus (10): linear fit = 1.00 x + 0.0 (3091 voxels, overlap=0.967) Left_Thalamus (10): linear fit = 1.00 x + 0.0 (3091 voxels, peak = 90), gca=89.6 gca peak = 0.10013 (85) mri peak = 0.09292 (90) Right_Thalamus (49): linear fit = 1.01 x + 0.0 (3048 voxels, overlap=0.947) Right_Thalamus (49): linear fit = 1.01 x + 0.0 (3048 voxels, peak = 86), gca=86.3 gca peak = 0.08104 (91) mri peak = 0.06732 (89) Left_Putamen (12): linear fit = 0.99 x + 0.0 (604 voxels, overlap=0.927) Left_Putamen (12): linear fit = 0.99 x + 0.0 (604 voxels, peak = 90), gca=89.6 gca peak = 0.08735 (83) mri peak = 0.09822 (84) Right_Putamen (51): linear fit = 0.98 x + 0.0 (585 voxels, overlap=0.931) Right_Putamen (51): linear fit = 0.98 x + 0.0 (585 voxels, peak = 81), gca=80.9 gca peak = 0.08421 (84) mri peak = 0.10487 (88) Brain_Stem (16): linear fit = 1.01 x + 0.0 (8576 voxels, overlap=0.735) Brain_Stem (16): linear fit = 1.01 x + 0.0 (8576 voxels, peak = 85), gca=85.3 gca peak = 0.11376 (94) mri peak = 0.12052 (95) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (958 voxels, overlap=0.788) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (958 voxels, peak = 94), gca=94.0 gca peak = 0.14781 (96) mri peak = 0.10136 (97) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (993 voxels, overlap=0.876) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (993 voxels, peak = 96), gca=96.0 gca peak = 0.23079 (21) mri peak = 0.22931 (22) Third_Ventricle (14): linear fit = 1.00 x + 0.0 (152 voxels, overlap=1.000) Third_Ventricle (14): linear fit = 1.00 x + 0.0 (152 voxels, peak = 21), gca=21.0 gca peak = 0.16806 (20) mri peak = 0.23437 (21) Fourth_Ventricle (15): linear fit = 0.99 x + 0.0 (331 voxels, overlap=0.704) Fourth_Ventricle (15): linear fit = 0.99 x + 0.0 (331 voxels, peak = 20), gca=19.7 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.16772 (31) gca peak CSF = 0.22697 (38) gca peak Left_Accumbens_area = 0.54241 (68) gca peak Left_undetermined = 1.00000 (28) gca peak Left_vessel = 0.89869 (53) gca peak Left_choroid_plexus = 0.11689 (35) gca peak Right_Inf_Lat_Vent = 0.23431 (26) gca peak Right_Accumbens_area = 0.37665 (77) gca peak Right_vessel = 0.77268 (52) gca peak Right_choroid_plexus = 0.13275 (38) gca peak Fifth_Ventricle = 0.73434 (34) gca peak WM_hypointensities = 0.10782 (77) gca peak non_WM_hypointensities = 0.13982 (41) gca peak Optic_Chiasm = 0.51663 (76) 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 1.03 x + 0.0 saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 36976 voxels changed in iteration 0 of unlikely voxel relabeling 214 voxels changed in iteration 1 of unlikely voxel relabeling 7 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 33373 gm and wm labels changed (%30 to gray, %70 to white out of all changed labels) 345 hippocampal voxels changed. 0 amygdala voxels changed. Reclassifying using Gibbs Priors pass 1: 50865 changed. image ll: -2.065, PF=0.500 pass 2: 11091 changed. image ll: -2.064, PF=0.500 pass 3: 2944 changed. 25777 voxels changed in iteration 0 of unlikely voxel relabeling 284 voxels changed in iteration 1 of unlikely voxel relabeling 5 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 6140 voxels changed in iteration 0 of unlikely voxel relabeling 120 voxels changed in iteration 1 of unlikely voxel relabeling 4 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 5425 voxels changed in iteration 0 of unlikely voxel relabeling 71 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 3978 voxels changed in iteration 0 of unlikely voxel relabeling 25 voxels changed in iteration 1 of unlikely voxel relabeling 1 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling !!!!!!!!! ventricle segment 1 with volume 14877 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 196 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 229 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 13458 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 181 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 395 above threshold 100 - not erasing !!!!!!!!!! writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 1858.126068 mri_ca_label stimesec 0.722197 mri_ca_label ru_maxrss 2125560 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 341493 mri_ca_label ru_majflt 3 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 2280 mri_ca_label ru_oublock 624 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 116 mri_ca_label ru_nivcsw 627 auto-labeling took 31 minutes and 3 seconds. @#@FSTIME 2020:08:24:12:42:10 mri_ca_label N 10 e 1863.32 S 0.72 U 1858.12 P 99% M 2125560 F 3 R 341501 W 0 c 627 w 118 I 2280 O 632 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:13:13:13 mri_ca_label N 10 1.01 1.02 1.05 #-------------------------------------- #@# CC Seg Mon Aug 24 13:13:13 EDT 2020 mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/transforms/cc_up.lta BRUA84m will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/transforms/cc_up.lta reading aseg from /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/aseg.auto_noCCseg.mgz reading norm from /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/norm.mgz 137862 voxels in left wm, 150132 in right wm, xrange [104, 146] searching rotation angles z=[-14 -0], y=[-22 -8] searching scale 1 Z rot -14.1 searching scale 1 Z rot -13.9 searching scale 1 Z rot -13.6 searching scale 1 Z rot -13.4 searching scale 1 Z rot -13.1 searching scale 1 Z rot -12.9 searching scale 1 Z rot -12.6 searching scale 1 Z rot -12.4 searching scale 1 Z rot -12.1 searching scale 1 Z rot -11.9 searching scale 1 Z rot -11.6 searching scale 1 Z rot -11.4 searching scale 1 Z rot -11.1 searching scale 1 Z rot -10.9 searching scale 1 Z rot -10.6 searching scale 1 Z rot -10.4 searching scale 1 Z rot -10.1 searching scale 1 Z rot -9.9 searching scale 1 Z rot -9.6 searching scale 1 Z rot -9.4 searching scale 1 Z rot -9.1 searching scale 1 Z rot -8.9 searching scale 1 Z rot -8.6 searching scale 1 Z rot -8.4 searching scale 1 Z rot -8.1 searching scale 1 Z rot -7.9 searching scale 1 Z rot -7.6 searching scale 1 Z rot -7.4 searching scale 1 Z rot -7.1 searching scale 1 Z rot -6.9 searching scale 1 Z rot -6.6 searching scale 1 Z rot -6.4 searching scale 1 Z rot -6.1 searching scale 1 Z rot -5.9 searching scale 1 Z rot -5.6 searching scale 1 Z rot -5.4 searching scale 1 Z rot -5.1 searching scale 1 Z rot -4.9 searching scale 1 Z rot -4.6 searching scale 1 Z rot -4.4 searching scale 1 Z rot -4.1 searching scale 1 Z rot -3.9 searching scale 1 Z rot -3.6 searching scale 1 Z rot -3.4 searching scale 1 Z rot -3.1 searching scale 1 Z rot -2.9 searching scale 1 Z rot -2.6 searching scale 1 Z rot -2.4 searching scale 1 Z rot -2.1 searching scale 1 Z rot -1.9 searching scale 1 Z rot -1.6 searching scale 1 Z rot -1.4 searching scale 1 Z rot -1.1 searching scale 1 Z rot -0.9 searching scale 1 Z rot -0.6 searching scale 1 Z rot -0.4 global minimum found at slice 124.7, rotations (-14.76, -7.13) final transformation (x=124.7, yr=-14.756, zr=-7.133): 0.95953 0.12417 -0.25274 19.69015; -0.12007 0.99226 0.03163 36.74257; 0.25471 0.00000 0.96702 3.40246; 0.00000 0.00000 0.00000 1.00000; updating x range to be [125, 130] in xformed coordinates best xformed slice 128 cc center is found at 128 104 96 eigenvectors: 0.00046 -0.01299 0.99992; -0.23690 -0.97145 -0.01251; 0.97153 -0.23687 -0.00352; error in mid anterior detected - correcting... error in mid anterior detected - correcting... writing aseg with callosum to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/aseg.auto.mgz... corpus callosum segmentation took 5.0 minutes @#@FSTIME 2020:08:24:13:13:13 mri_cc N 7 e 298.86 S 0.08 U 298.00 P 99% M 340268 F 2 R 14959 W 0 c 96 w 66 I 1624 O 616 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:13:18:12 mri_cc N 7 1.01 1.02 1.05 #-------------------------------------- #@# Merge ASeg Mon Aug 24 13:18:12 EDT 2020 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Mon Aug 24 13:18:12 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_normalize -seed 1234 -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz setting seed for random number genererator to 1234 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 mri_src from norm.mgz... MRImask(): AllowDiffGeom = 1 Reading aseg aseg.presurf.mgz normalizing image... processing with aseg removing outliers in the aseg WM... 345 control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... Smoothing with sigma 8 Applying bias correction building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 109 gm peak at 78 (78), valley at 56 (56) csf peak at 21, setting threshold to 59 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 73 (73), valley at 36 (36) csf peak at 21, setting threshold to 55 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 2 minutes and 12 seconds. @#@FSTIME 2020:08:24:13:18:13 mri_normalize N 9 e 132.94 S 0.43 U 132.16 P 99% M 1237112 F 0 R 215080 W 0 c 89 w 151 I 0 O 2360 L 1.09 1.03 1.05 @#@FSLOADPOST 2020:08:24:13:20:25 mri_normalize N 9 1.03 1.04 1.05 #-------------------------------------------- #@# Mask BFS Mon Aug 24 13:20:26 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz threshold mask volume at 5 DoAbs = 0 Found 1364231 voxels in mask (pct= 8.13) MRImask(): AllowDiffGeom = 1 Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2020:08:24:13:20:26 mri_mask N 5 e 0.94 S 0.01 U 0.88 P 95% M 70568 F 1 R 3445 W 0 c 2 w 86 I 1568 O 2272 L 1.03 1.04 1.05 @#@FSLOADPOST 2020:08:24:13:20:27 mri_mask N 5 1.03 1.04 1.05 #-------------------------------------------- #@# WM Segmentation Mon Aug 24 13:20:27 EDT 2020 AntsDenoiseImageFs -i brain.mgz -o antsdn.brain.mgz @#@FSTIME 2020:08:24:13:20:27 AntsDenoiseImageFs N 4 e 31.51 S 0.04 U 31.32 P 99% M 347500 F 6 R 3767 W 0 c 15 w 97 I 6352 O 2328 L 1.03 1.04 1.05 @#@FSLOADPOST 2020:08:24:13:20:58 AntsDenoiseImageFs N 4 1.02 1.03 1.05 mri_segment -wsizemm 13 -mprage antsdn.brain.mgz wm.seg.mgz wsizemm = 13, voxres = 1, wsize = 13 WHITE_MATTER_MEAN 110 wsize 13 assuming input volume is MGH (Van der Kouwe) MP-RAGE wm_low 79 wm_hi 125 gray_low 30 gray_hi 99 Doing initial trinary intensity segmentation Using local statistics to label ambiguous voxels Autodetecting stats Computing class statistics for intensity windows... CCS WM (101.0): 100.7 +- 6.6 [79.0 --> 125.0] CCS GM (74.0) : 72.0 +- 10.7 [30.0 --> 95.0] white_mean 100.677 white_sigma 6.56617 gray_mean 71.9747 gray_sigma 10.7274 setting bottom of white matter range wm_low to 82.7 setting top of gray matter range gray_hi to 93.4 wm_low 82.7021 wm_hi 125 gray_low 30 gray_hi 93.4295 Redoing initial intensity segmentation... Recomputing local statistics to label ambiguous voxels... wm_low 82.7021 wm_hi 125 gray_low 30 gray_hi 93.4295 using local geometry to label remaining ambiguous voxels... polvwsize = 5, polvlen = 3, gray_hi = 93.4295, wm_low = 82.7021 MRIcpolvMedianCurveSegment(): wsize=5, len=3, gmhi=93.4295, wmlow=82.7021 115704 voxels processed (0.69%) 51841 voxels white (0.31%) 63863 voxels non-white (0.38%) Reclassifying voxels using Gaussian border classifier niter=1 MRIreclassify(): wm_low=77.7021, gray_hi=93.4295, wsize=13 219993 voxels tested (1.31%) 43360 voxels changed (0.26%) 43334 multi-scale searches (0.26%) Recovering bright white MRIrecoverBrightWhite() wm_low 82.7021 wm_hi 125 slack 6.56617 pct_thresh 0.33 intensity_thresh 131.566 nvox_thresh 8.58 70 voxels tested (0.00%) 44 voxels changed (0.00%) removing voxels with positive offset direction... MRIremoveWrongDirection() wsize=3, lowthr=77.7021, hithr=93.4295 smoothing input volume with sigma = 0.250 87486 voxels tested (0.52%) 14990 voxels changed (0.09%) thicken = 1 removing 1-dimensional structures... MRIremove1dStructures(): max_iter=10000, thresh=2, WM_MIN_VAL=5 1166 sparsely connected voxels removed in 1 iterations thickening thin strands.... thickness 4 nsegments 20 wm_hi 125 960 diagonally connected voxels added... MRIthickenThinWMStrands(): thickness=4, nsegments=20 20 segments, 4933 filled MRIfindBrightNonWM(): 98 bright non-wm voxels segmented. MRIfilterMorphology() WM_MIN_VAL=5, DIAGONAL_FILL=230 white matter segmentation took 1.2 minutes writing output to wm.seg.mgz... @#@FSTIME 2020:08:24:13:20:58 mri_segment N 5 e 71.90 S 0.11 U 71.59 P 99% M 154688 F 2 R 42381 W 0 c 27 w 64 I 1616 O 736 L 1.02 1.03 1.05 @#@FSLOADPOST 2020:08:24:13:22:10 mri_segment N 5 1.01 1.03 1.05 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 0.43 minutes reading wm segmentation from wm.seg.mgz... 0 voxels added to wm to prevent paths from MTL structures to cortex 2325 additional wm voxels added 0 additional wm voxels added SEG EDIT: 55167 voxels turned on, 39984 voxels turned off. propagating editing to output volume from wm.seg.mgz 115,126,128 old 0 new 0 115,126,128 old 0 new 0 writing edited volume to wm.asegedit.mgz.... @#@FSTIME 2020:08:24:13:22:10 mri_edit_wm_with_aseg N 5 e 25.55 S 0.07 U 25.37 P 99% M 473340 F 2 R 18751 W 0 c 26 w 73 I 1496 O 672 L 1.01 1.03 1.05 @#@FSLOADPOST 2020:08:24:13:22:36 mri_edit_wm_with_aseg N 5 1.00 1.02 1.05 mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz Iteration Number : 1 pass 1 (xy+): 21 found - 21 modified | TOTAL: 21 pass 2 (xy+): 0 found - 21 modified | TOTAL: 21 pass 1 (xy-): 8 found - 8 modified | TOTAL: 29 pass 2 (xy-): 0 found - 8 modified | TOTAL: 29 pass 1 (yz+): 12 found - 12 modified | TOTAL: 41 pass 2 (yz+): 0 found - 12 modified | TOTAL: 41 pass 1 (yz-): 20 found - 20 modified | TOTAL: 61 pass 2 (yz-): 0 found - 20 modified | TOTAL: 61 pass 1 (xz+): 4 found - 4 modified | TOTAL: 65 pass 2 (xz+): 0 found - 4 modified | TOTAL: 65 pass 1 (xz-): 20 found - 20 modified | TOTAL: 85 pass 2 (xz-): 0 found - 20 modified | TOTAL: 85 Iteration Number : 1 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 pass 1 (+++): 7 found - 7 modified | TOTAL: 9 pass 2 (+++): 0 found - 7 modified | TOTAL: 9 Iteration Number : 1 pass 1 (++): 45 found - 45 modified | TOTAL: 45 pass 2 (++): 0 found - 45 modified | TOTAL: 45 pass 1 (+-): 23 found - 23 modified | TOTAL: 68 pass 2 (+-): 0 found - 23 modified | TOTAL: 68 pass 1 (--): 28 found - 28 modified | TOTAL: 96 pass 2 (--): 0 found - 28 modified | TOTAL: 96 pass 1 (-+): 24 found - 24 modified | TOTAL: 120 pass 2 (-+): 0 found - 24 modified | TOTAL: 120 Iteration Number : 2 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 3 found - 3 modified | TOTAL: 4 pass 2 (xy-): 0 found - 3 modified | TOTAL: 4 pass 1 (yz+): 0 found - 0 modified | TOTAL: 4 pass 1 (yz-): 1 found - 1 modified | TOTAL: 5 pass 2 (yz-): 0 found - 1 modified | TOTAL: 5 pass 1 (xz+): 2 found - 2 modified | TOTAL: 7 pass 2 (xz+): 0 found - 2 modified | TOTAL: 7 pass 1 (xz-): 0 found - 0 modified | TOTAL: 7 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 (--): 3 found - 3 modified | TOTAL: 4 pass 2 (--): 0 found - 3 modified | TOTAL: 4 pass 1 (-+): 0 found - 0 modified | TOTAL: 4 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 = 225 (out of 464244: 0.048466) binarizing input wm segmentation... Ambiguous edge configurations... mri_pretess done @#@FSTIME 2020:08:24:13:22:36 mri_pretess N 4 e 2.15 S 0.01 U 2.07 P 97% M 53328 F 5 R 2789 W 0 c 3 w 54 I 5768 O 664 L 1.00 1.02 1.05 @#@FSLOADPOST 2020:08:24:13:22:38 mri_pretess N 4 1.00 1.02 1.05 #-------------------------------------------- #@# Fill Mon Aug 24 13:22:38 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.presurf.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.presurf.mgz... reading input volume...done. searching for cutting planes...voxel to talairach voxel transform 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50113; 0.28925 -0.31682 0.96578 13.75063; 0.00000 0.00000 0.00000 1.00000; voxel to talairach voxel transform 0.99962 0.10803 -0.26656 16.53033; -0.02954 1.21883 0.38604 -55.50113; 0.28925 -0.31682 0.96578 13.75063; 0.00000 0.00000 0.00000 1.00000; reading segmented volume aseg.presurf.mgz removing CC from segmentation Looking for area (min, max) = (350, 1400) area[0] = 1226 (min = 350, max = 1400), aspect = 0.47 (min = 0.10, max = 0.75) no need to search using seed (127, 111, 91), TAL = (1.0, -37.0, 17.0) talairach voxel to voxel transform 0.92449 -0.01415 0.26082 -19.65382; 0.09974 0.74171 -0.26895 43.21519; -0.24417 0.24755 0.86909 5.82497; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (127, 111, 91) --> (1.0, -37.0, 17.0) done. writing output to filled.mgz... filling took 0.9 minutes talairach cc position changed to (1.00, -37.00, 17.00) Erasing brainstem...done. MRImask(): AllowDiffGeom = 1 seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(19.00, -37.00, 17.00) SRC: (103.28, 111.94, 85.78) search lh wm seed point around talairach space (-17.00, -37.00, 17.00), SRC: (136.56, 115.53, 76.99) compute mri_fill using aseg Erasing Brain Stem and Cerebellum ... Define left and right masks using aseg: Building Voronoi diagram ... Using the Voronoi diagram for separating WM into two hemispheres ... Find the largest connected component for each hemisphere ... @#@FSTIME 2020:08:24:13:22:38 mri_fill N 8 e 54.49 S 0.47 U 53.84 P 99% M 947736 F 2 R 279666 W 0 c 19 w 50 I 1728 O 240 L 1.00 1.02 1.05 @#@FSLOADPOST 2020:08:24:13:23:33 mri_fill N 8 1.00 1.02 1.05 #-------------------------------------------- #@# Tessellate lh Mon Aug 24 13:23:33 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz Iteration Number : 1 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 1 found - 1 modified | TOTAL: 1 pass 2 (xy-): 0 found - 1 modified | TOTAL: 1 pass 1 (yz+): 1 found - 1 modified | TOTAL: 2 pass 2 (yz+): 0 found - 1 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 : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 5 (out of 225852: 0.002214) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2020:08:24:13:23:33 mri_pretess N 4 e 1.16 S 0.01 U 1.13 P 98% M 36900 F 0 R 2214 W 0 c 3 w 57 I 0 O 224 L 1.00 1.02 1.05 @#@FSLOADPOST 2020:08:24:13:23:34 mri_pretess N 4 1.00 1.02 1.05 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix 7.1.0 7.1.0 slice 30: 393 vertices, 466 faces slice 40: 7793 vertices, 8114 faces slice 50: 18201 vertices, 18606 faces slice 60: 29446 vertices, 29800 faces slice 70: 40455 vertices, 40829 faces slice 80: 50323 vertices, 50655 faces slice 90: 60575 vertices, 60929 faces slice 100: 70106 vertices, 70461 faces slice 110: 78999 vertices, 79339 faces slice 120: 88056 vertices, 88339 faces slice 130: 95270 vertices, 95524 faces slice 140: 101637 vertices, 101841 faces slice 150: 106843 vertices, 107012 faces slice 160: 110337 vertices, 110446 faces slice 170: 112121 vertices, 112162 faces slice 180: 112332 vertices, 112340 faces slice 190: 112332 vertices, 112340 faces slice 200: 112332 vertices, 112340 faces slice 210: 112332 vertices, 112340 faces slice 220: 112332 vertices, 112340 faces slice 230: 112332 vertices, 112340 faces slice 240: 112332 vertices, 112340 faces slice 250: 112332 vertices, 112340 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; @#@FSTIME 2020:08:24:13:23:34 mri_tessellate N 3 e 1.28 S 0.00 U 1.17 P 92% M 43268 F 2 R 1750 W 0 c 4 w 202 I 1680 O 5272 L 1.00 1.02 1.05 @#@FSLOADPOST 2020:08:24:13:23:35 mri_tessellate N 3 1.00 1.02 1.05 rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix counting number of connected components... 112332 voxel in cpt #1: X=-8 [v=112332,e=337020,f=224680] located at (-21.377756, -40.384274, 14.299327) For the whole surface: X=-8 [v=112332,e=337020,f=224680] One single component has been found nothing to do done @#@FSTIME 2020:08:24:13:23:36 mris_extract_main_component N 2 e 0.67 S 0.06 U 0.54 P 89% M 222188 F 4 R 24533 W 0 c 1 w 290 I 4336 O 7904 L 1.00 1.02 1.05 @#@FSLOADPOST 2020:08:24:13:23:36 mris_extract_main_component N 2 1.00 1.02 1.05 #-------------------------------------------- #@# Tessellate rh Mon Aug 24 13:23:36 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz Iteration Number : 1 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 1 found - 1 modified | TOTAL: 1 pass 2 (xy-): 0 found - 1 modified | TOTAL: 1 pass 1 (yz+): 5 found - 5 modified | TOTAL: 6 pass 2 (yz+): 0 found - 5 modified | TOTAL: 6 pass 1 (yz-): 1 found - 1 modified | TOTAL: 7 pass 2 (yz-): 0 found - 1 modified | TOTAL: 7 pass 1 (xz+): 1 found - 1 modified | TOTAL: 8 pass 2 (xz+): 0 found - 1 modified | TOTAL: 8 pass 1 (xz-): 0 found - 0 modified | TOTAL: 8 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 8 (out of 223530: 0.003579) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2020:08:24:13:23:36 mri_pretess N 4 e 1.15 S 0.00 U 1.14 P 99% M 36900 F 0 R 2214 W 0 c 5 w 31 I 0 O 224 L 1.00 1.02 1.05 @#@FSLOADPOST 2020:08:24:13:23:37 mri_pretess N 4 1.00 1.02 1.05 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix 7.1.0 7.1.0 slice 40: 187 vertices, 222 faces slice 50: 5001 vertices, 5227 faces slice 60: 12921 vertices, 13239 faces slice 70: 22501 vertices, 22846 faces slice 80: 32136 vertices, 32446 faces slice 90: 41374 vertices, 41704 faces slice 100: 50703 vertices, 51061 faces slice 110: 61057 vertices, 61420 faces slice 120: 70843 vertices, 71192 faces slice 130: 80386 vertices, 80716 faces slice 140: 89664 vertices, 90013 faces slice 150: 98257 vertices, 98534 faces slice 160: 105075 vertices, 105266 faces slice 170: 109657 vertices, 109782 faces slice 180: 111670 vertices, 111676 faces slice 190: 111670 vertices, 111676 faces slice 200: 111670 vertices, 111676 faces slice 210: 111670 vertices, 111676 faces slice 220: 111670 vertices, 111676 faces slice 230: 111670 vertices, 111676 faces slice 240: 111670 vertices, 111676 faces slice 250: 111670 vertices, 111676 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; @#@FSTIME 2020:08:24:13:23:38 mri_tessellate N 3 e 1.18 S 0.01 U 1.14 P 96% M 43272 F 0 R 1753 W 0 c 3 w 229 I 0 O 5240 L 0.92 1.00 1.04 @#@FSLOADPOST 2020:08:24:13:23:39 mri_tessellate N 3 0.92 1.00 1.04 rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix counting number of connected components... 111670 voxel in cpt #1: X=-6 [v=111670,e=335028,f=223352] located at (29.586451, -23.817284, 20.111301) For the whole surface: X=-6 [v=111670,e=335028,f=223352] One single component has been found nothing to do done @#@FSTIME 2020:08:24:13:23:39 mris_extract_main_component N 2 e 0.67 S 0.05 U 0.56 P 92% M 220828 F 0 R 25218 W 0 c 4 w 263 I 0 O 7856 L 0.92 1.00 1.04 @#@FSLOADPOST 2020:08:24:13:23:40 mris_extract_main_component N 2 0.92 1.00 1.04 #-------------------------------------------- #@# Smooth1 lh Mon Aug 24 13:23:40 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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... @#@FSTIME 2020:08:24:13:23:40 mris_smooth N 5 e 2.17 S 0.07 U 2.04 P 97% M 177512 F 0 R 28247 W 0 c 4 w 289 I 0 O 7904 L 0.92 1.00 1.04 @#@FSLOADPOST 2020:08:24:13:23:42 mris_smooth N 5 0.92 1.00 1.04 #-------------------------------------------- #@# Smooth1 rh Mon Aug 24 13:23:42 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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... @#@FSTIME 2020:08:24:13:23:42 mris_smooth N 5 e 2.19 S 0.07 U 2.06 P 97% M 176532 F 0 R 26430 W 0 c 4 w 304 I 0 O 7856 L 0.92 1.00 1.04 @#@FSLOADPOST 2020:08:24:13:23:44 mris_smooth N 5 0.85 0.98 1.03 #-------------------------------------------- #@# Inflation1 lh Mon Aug 24 13:23:44 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 45.3 mm, total surface area = 59914 mm^2 step 000: RMS=0.147 (target=0.015) step 005: RMS=0.109 (target=0.015) step 010: RMS=0.077 (target=0.015) step 015: RMS=0.062 (target=0.015) step 020: RMS=0.053 (target=0.015) step 025: RMS=0.044 (target=0.015) step 030: RMS=0.038 (target=0.015) step 035: RMS=0.033 (target=0.015) step 040: RMS=0.030 (target=0.015) step 045: RMS=0.028 (target=0.015) step 050: RMS=0.026 (target=0.015) step 055: RMS=0.025 (target=0.015) step 060: RMS=0.024 (target=0.015) writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.2 minutes inflation complete. Not saving sulc mris_inflate utimesec 13.650518 mris_inflate stimesec 0.073997 mris_inflate ru_maxrss 234748 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 44082 mris_inflate ru_majflt 4 mris_inflate ru_nswap 0 mris_inflate ru_inblock 4328 mris_inflate ru_oublock 7904 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 299 mris_inflate ru_nivcsw 7 @#@FSTIME 2020:08:24:13:23:44 mris_inflate N 3 e 13.89 S 0.09 U 13.65 P 98% M 234784 F 4 R 44091 W 0 c 7 w 301 I 4328 O 7904 L 0.85 0.98 1.03 @#@FSLOADPOST 2020:08:24:13:23:58 mris_inflate N 3 0.96 1.00 1.04 #-------------------------------------------- #@# Inflation1 rh Mon Aug 24 13:23:58 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 43.4 mm, total surface area = 59432 mm^2 step 000: RMS=0.147 (target=0.015) step 005: RMS=0.109 (target=0.015) step 010: RMS=0.079 (target=0.015) step 015: RMS=0.063 (target=0.015) step 020: RMS=0.052 (target=0.015) step 025: RMS=0.046 (target=0.015) step 030: RMS=0.040 (target=0.015) step 035: RMS=0.035 (target=0.015) step 040: RMS=0.032 (target=0.015) step 045: RMS=0.029 (target=0.015) step 050: RMS=0.028 (target=0.015) step 055: RMS=0.028 (target=0.015) step 060: RMS=0.026 (target=0.015) writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.2 minutes inflation complete. Not saving sulc mris_inflate utimesec 13.500739 mris_inflate stimesec 0.056986 mris_inflate ru_maxrss 233292 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 44195 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 7856 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 308 mris_inflate ru_nivcsw 8 @#@FSTIME 2020:08:24:13:23:58 mris_inflate N 3 e 13.66 S 0.07 U 13.50 P 99% M 233328 F 0 R 44204 W 0 c 8 w 309 I 0 O 7856 L 0.96 1.00 1.04 @#@FSLOADPOST 2020:08:24:13:24:12 mris_inflate N 3 0.97 1.00 1.04 #-------------------------------------------- #@# QSphere lh Mon Aug 24 13:24:12 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 7.1.0 7.1.0 == Number of threads available to mris_sphere for OpenMP = 1 == scaling brain by 0.366... inflating... Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.337, avgs=0 005/300: dt: 0.9000, rms radial error=174.090, avgs=0 010/300: dt: 0.9000, rms radial error=173.560, avgs=0 015/300: dt: 0.9000, rms radial error=172.862, avgs=0 020/300: dt: 0.9000, rms radial error=172.064, avgs=0 025/300: dt: 0.9000, rms radial error=171.209, avgs=0 030/300: dt: 0.9000, rms radial error=170.320, avgs=0 035/300: dt: 0.9000, rms radial error=169.411, avgs=0 040/300: dt: 0.9000, rms radial error=168.500, avgs=0 045/300: dt: 0.9000, rms radial error=167.588, avgs=0 050/300: dt: 0.9000, rms radial error=166.674, avgs=0 055/300: dt: 0.9000, rms radial error=165.761, avgs=0 060/300: dt: 0.9000, rms radial error=164.857, avgs=0 065/300: dt: 0.9000, rms radial error=163.959, avgs=0 070/300: dt: 0.9000, rms radial error=163.062, avgs=0 075/300: dt: 0.9000, rms radial error=162.161, avgs=0 080/300: dt: 0.9000, rms radial error=161.256, avgs=0 085/300: dt: 0.9000, rms radial error=160.355, avgs=0 090/300: dt: 0.9000, rms radial error=159.459, avgs=0 095/300: dt: 0.9000, rms radial error=158.568, avgs=0 100/300: dt: 0.9000, rms radial error=157.681, avgs=0 105/300: dt: 0.9000, rms radial error=156.799, avgs=0 110/300: dt: 0.9000, rms radial error=155.923, avgs=0 115/300: dt: 0.9000, rms radial error=155.050, avgs=0 120/300: dt: 0.9000, rms radial error=154.183, avgs=0 125/300: dt: 0.9000, rms radial error=153.320, avgs=0 130/300: dt: 0.9000, rms radial error=152.462, avgs=0 135/300: dt: 0.9000, rms radial error=151.608, avgs=0 140/300: dt: 0.9000, rms radial error=150.758, avgs=0 145/300: dt: 0.9000, rms radial error=149.913, avgs=0 150/300: dt: 0.9000, rms radial error=149.073, avgs=0 155/300: dt: 0.9000, rms radial error=148.237, avgs=0 160/300: dt: 0.9000, rms radial error=147.405, avgs=0 165/300: dt: 0.9000, rms radial error=146.578, avgs=0 170/300: dt: 0.9000, rms radial error=145.756, avgs=0 175/300: dt: 0.9000, rms radial error=144.937, avgs=0 180/300: dt: 0.9000, rms radial error=144.123, avgs=0 185/300: dt: 0.9000, rms radial error=143.314, avgs=0 190/300: dt: 0.9000, rms radial error=142.508, avgs=0 195/300: dt: 0.9000, rms radial error=141.707, avgs=0 200/300: dt: 0.9000, rms radial error=140.910, avgs=0 205/300: dt: 0.9000, rms radial error=140.118, avgs=0 210/300: dt: 0.9000, rms radial error=139.330, avgs=0 215/300: dt: 0.9000, rms radial error=138.546, avgs=0 220/300: dt: 0.9000, rms radial error=137.766, avgs=0 225/300: dt: 0.9000, rms radial error=136.991, avgs=0 230/300: dt: 0.9000, rms radial error=136.219, avgs=0 235/300: dt: 0.9000, rms radial error=135.452, avgs=0 240/300: dt: 0.9000, rms radial error=134.689, avgs=0 245/300: dt: 0.9000, rms radial error=133.931, avgs=0 250/300: dt: 0.9000, rms radial error=133.176, avgs=0 255/300: dt: 0.9000, rms radial error=132.426, avgs=0 260/300: dt: 0.9000, rms radial error=131.680, avgs=0 265/300: dt: 0.9000, rms radial error=130.938, avgs=0 270/300: dt: 0.9000, rms radial error=130.200, avgs=0 275/300: dt: 0.9000, rms radial error=129.466, avgs=0 280/300: dt: 0.9000, rms radial error=128.737, avgs=0 285/300: dt: 0.9000, rms radial error=128.011, avgs=0 290/300: dt: 0.9000, rms radial error=127.290, avgs=0 295/300: dt: 0.9000, rms radial error=126.572, avgs=0 300/300: dt: 0.9000, rms radial error=125.859, avgs=0 spherical inflation complete. projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.09 +- 0.61 (0.01-->8.67) (max @ vno 86001 --> 86002) face area 0.04 +- 0.04 (-0.20-->1.04) epoch 1 (K=10.0), pass 1, starting sse = 12352.34 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00048 epoch 2 (K=40.0), pass 1, starting sse = 1780.47 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.02/13 = 0.00142 epoch 3 (K=160.0), pass 1, starting sse = 120.80 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.21/17 = 0.01237 epoch 4 (K=640.0), pass 1, starting sse = 2.28 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.13/17 = 0.00756 final distance error %100000.00 writing spherical brain to ../surf/lh.qsphere.nofix mris_sphere utimesec 92.181711 mris_sphere stimesec 0.326956 mris_sphere ru_maxrss 850104 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 277698 mris_sphere ru_majflt 1 mris_sphere ru_nswap 0 mris_sphere ru_inblock 1048 mris_sphere ru_oublock 7904 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 297 mris_sphere ru_nivcsw 119 spherical transformation took 0.0258 hours FSRUNTIME@ mris_sphere 0.0258 hours 1 threads @#@FSTIME 2020:08:24:13:24:12 mris_sphere N 9 e 92.84 S 0.38 U 92.18 P 99% M 850140 F 1 R 277707 W 0 c 119 w 299 I 1048 O 7904 L 0.97 1.00 1.04 @#@FSLOADPOST 2020:08:24:13:25:45 mris_sphere N 9 0.99 1.00 1.04 #-------------------------------------------- #@# QSphere rh Mon Aug 24 13:25:45 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 7.1.0 7.1.0 == Number of threads available to mris_sphere for OpenMP = 1 == scaling brain by 0.373... inflating... Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.511, avgs=0 005/300: dt: 0.9000, rms radial error=174.261, avgs=0 010/300: dt: 0.9000, rms radial error=173.724, avgs=0 015/300: dt: 0.9000, rms radial error=173.019, avgs=0 020/300: dt: 0.9000, rms radial error=172.221, avgs=0 025/300: dt: 0.9000, rms radial error=171.368, avgs=0 030/300: dt: 0.9000, rms radial error=170.482, avgs=0 035/300: dt: 0.9000, rms radial error=169.577, avgs=0 040/300: dt: 0.9000, rms radial error=168.661, avgs=0 045/300: dt: 0.9000, rms radial error=167.741, avgs=0 050/300: dt: 0.9000, rms radial error=166.816, avgs=0 055/300: dt: 0.9000, rms radial error=165.895, avgs=0 060/300: dt: 0.9000, rms radial error=164.976, avgs=0 065/300: dt: 0.9000, rms radial error=164.056, avgs=0 070/300: dt: 0.9000, rms radial error=163.140, avgs=0 075/300: dt: 0.9000, rms radial error=162.228, avgs=0 080/300: dt: 0.9000, rms radial error=161.320, avgs=0 085/300: dt: 0.9000, rms radial error=160.417, avgs=0 090/300: dt: 0.9000, rms radial error=159.518, avgs=0 095/300: dt: 0.9000, rms radial error=158.624, avgs=0 100/300: dt: 0.9000, rms radial error=157.735, avgs=0 105/300: dt: 0.9000, rms radial error=156.851, avgs=0 110/300: dt: 0.9000, rms radial error=155.971, avgs=0 115/300: dt: 0.9000, rms radial error=155.096, avgs=0 120/300: dt: 0.9000, rms radial error=154.226, avgs=0 125/300: dt: 0.9000, rms radial error=153.360, avgs=0 130/300: dt: 0.9000, rms radial error=152.499, avgs=0 135/300: dt: 0.9000, rms radial error=151.643, avgs=0 140/300: dt: 0.9000, rms radial error=150.791, avgs=0 145/300: dt: 0.9000, rms radial error=149.944, avgs=0 150/300: dt: 0.9000, rms radial error=149.102, avgs=0 155/300: dt: 0.9000, rms radial error=148.264, avgs=0 160/300: dt: 0.9000, rms radial error=147.431, avgs=0 165/300: dt: 0.9000, rms radial error=146.602, avgs=0 170/300: dt: 0.9000, rms radial error=145.778, avgs=0 175/300: dt: 0.9000, rms radial error=144.958, avgs=0 180/300: dt: 0.9000, rms radial error=144.143, avgs=0 185/300: dt: 0.9000, rms radial error=143.333, avgs=0 190/300: dt: 0.9000, rms radial error=142.526, avgs=0 195/300: dt: 0.9000, rms radial error=141.725, avgs=0 200/300: dt: 0.9000, rms radial error=140.927, avgs=0 205/300: dt: 0.9000, rms radial error=140.134, avgs=0 210/300: dt: 0.9000, rms radial error=139.346, avgs=0 215/300: dt: 0.9000, rms radial error=138.561, avgs=0 220/300: dt: 0.9000, rms radial error=137.781, avgs=0 225/300: dt: 0.9000, rms radial error=137.006, avgs=0 230/300: dt: 0.9000, rms radial error=136.234, avgs=0 235/300: dt: 0.9000, rms radial error=135.467, avgs=0 240/300: dt: 0.9000, rms radial error=134.704, avgs=0 245/300: dt: 0.9000, rms radial error=133.946, avgs=0 250/300: dt: 0.9000, rms radial error=133.191, avgs=0 255/300: dt: 0.9000, rms radial error=132.441, avgs=0 260/300: dt: 0.9000, rms radial error=131.695, avgs=0 265/300: dt: 0.9000, rms radial error=130.953, avgs=0 270/300: dt: 0.9000, rms radial error=130.216, avgs=0 275/300: dt: 0.9000, rms radial error=129.482, avgs=0 280/300: dt: 0.9000, rms radial error=128.753, avgs=0 285/300: dt: 0.9000, rms radial error=128.027, avgs=0 290/300: dt: 0.9000, rms radial error=127.306, avgs=0 295/300: dt: 0.9000, rms radial error=126.589, avgs=0 300/300: dt: 0.9000, rms radial error=125.875, avgs=0 spherical inflation complete. projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.11 +- 0.59 (0.00-->6.87) (max @ vno 87363 --> 87364) face area 0.04 +- 0.04 (-0.07-->0.70) epoch 1 (K=10.0), pass 1, starting sse = 12095.57 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00043 epoch 2 (K=40.0), pass 1, starting sse = 1667.52 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00112 epoch 3 (K=160.0), pass 1, starting sse = 106.46 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.21/19 = 0.01099 epoch 4 (K=640.0), pass 1, starting sse = 2.53 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.11/19 = 0.00579 final distance error %100000.00 writing spherical brain to ../surf/rh.qsphere.nofix mris_sphere utimesec 97.362716 mris_sphere stimesec 0.345981 mris_sphere ru_maxrss 891192 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 295996 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 7856 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 313 mris_sphere ru_nivcsw 124 spherical transformation took 0.0272 hours FSRUNTIME@ mris_sphere 0.0272 hours 1 threads @#@FSTIME 2020:08:24:13:25:45 mris_sphere N 9 e 98.05 S 0.40 U 97.36 P 99% M 891228 F 0 R 296005 W 0 c 124 w 314 I 0 O 7864 L 0.99 1.00 1.04 @#@FSLOADPOST 2020:08:24:13:27:23 mris_sphere N 9 0.98 0.99 1.03 #@# Fix Topology lh Mon Aug 24 13:27:23 EDT 2020 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 BRUA84m lh reading spherical homeomorphism from 'qsphere.nofix' reading inflated coordinates from 'inflated.nofix' reading original coordinates from 'orig.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 writing corrected surface to 'orig.premesh' 7.1.0 7.1.0 before topology correction, eno=-8 (nv=112332, nf=224680, ne=337020, g=5) 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... 292 ambiguous faces found in tessellation segmenting defects... 9 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 3 into 2 8 defects to be corrected 0 vertices coincident reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Reading original properties of orig.nofix Reading vertex positions of inflated.nofix Computing Initial Surface Statistics -face loglikelihood: -9.4675 (-4.7337) -vertex loglikelihood: -6.4790 (-3.2395) -normal dot loglikelihood: -3.6866 (-3.6866) -quad curv loglikelihood: -6.3063 (-3.1532) Total Loglikelihood : -25.9394 CORRECTING DEFECT 0 (vertices=7, convex hull=25, v0=50985) After retessellation of defect 0 (v0=50985), euler #=-6 (112126,336211,224079) : difference with theory (-5) = 1 CORRECTING DEFECT 1 (vertices=7, convex hull=32, v0=51032) After retessellation of defect 1 (v0=51032), euler #=-5 (112129,336231,224097) : difference with theory (-4) = 1 CORRECTING DEFECT 2 (vertices=37, convex hull=87, v0=83255) After retessellation of defect 2 (v0=83255), euler #=-3 (112148,336322,224171) : difference with theory (-3) = 0 CORRECTING DEFECT 3 (vertices=7, convex hull=38, v0=84265) After retessellation of defect 3 (v0=84265), euler #=-2 (112151,336342,224189) : difference with theory (-2) = 0 CORRECTING DEFECT 4 (vertices=30, convex hull=74, v0=95040) After retessellation of defect 4 (v0=95040), euler #=-1 (112162,336404,224241) : difference with theory (-1) = 0 CORRECTING DEFECT 5 (vertices=61, convex hull=79, v0=97241) After retessellation of defect 5 (v0=97241), euler #=0 (112185,336506,224321) : difference with theory (0) = 0 CORRECTING DEFECT 6 (vertices=40, convex hull=62, v0=97923) After retessellation of defect 6 (v0=97923), euler #=1 (112198,336567,224370) : difference with theory (1) = 0 CORRECTING DEFECT 7 (vertices=20, convex hull=55, v0=109854) After retessellation of defect 7 (v0=109854), euler #=2 (112211,336627,224418) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.88 +- 0.20 (0.14-->4.95) (max @ vno 95018 --> 97666) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.88 +- 0.20 (0.14-->4.95) (max @ vno 95018 --> 97666) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 37 mutations (41.1%), 53 crossovers (58.9%), 22 vertices were eliminated building final representation... 121 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=112211, nf=224418, ne=336627, g=0) writing corrected surface to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 32 intersecting terminating search with 0 intersecting topology fixing took 0.4 minutes FSRUNTIME@ mris_fix_topology lh 0.0067 hours 1 threads #VMPC# mris_fix_topology VmPeak 867584 @#@FSTIME 2020:08:24:13:27:23 mris_fix_topology N 14 e 24.21 S 0.25 U 23.82 P 99% M 709760 F 3 R 161210 W 0 c 16 w 447 I 2384 O 10536 L 0.98 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:27:47 mris_fix_topology N 14 0.99 0.99 1.03 #@# Fix Topology rh Mon Aug 24 13:27:47 EDT 2020 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 BRUA84m rh reading spherical homeomorphism from 'qsphere.nofix' reading inflated coordinates from 'inflated.nofix' reading original coordinates from 'orig.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 writing corrected surface to 'orig.premesh' 7.1.0 7.1.0 before topology correction, eno=-6 (nv=111670, nf=223352, ne=335028, g=4) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 7 iterations marking ambiguous vertices... 860 ambiguous faces found in tessellation segmenting defects... 8 defects found, arbitrating ambiguous regions... analyzing neighboring defects... 8 defects to be corrected 0 vertices coincident reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Reading original properties of orig.nofix Reading vertex positions of inflated.nofix Computing Initial Surface Statistics -face loglikelihood: -9.4009 (-4.7004) -vertex loglikelihood: -6.4741 (-3.2370) -normal dot loglikelihood: -3.5847 (-3.5847) -quad curv loglikelihood: -6.3167 (-3.1584) Total Loglikelihood : -25.7764 CORRECTING DEFECT 0 (vertices=267, convex hull=126, v0=11702) After retessellation of defect 0 (v0=11702), euler #=-5 (111201,333420,222214) : difference with theory (-5) = 0 CORRECTING DEFECT 1 (vertices=12, convex hull=23, v0=59811) After retessellation of defect 1 (v0=59811), euler #=-4 (111204,333436,222228) : difference with theory (-4) = 0 CORRECTING DEFECT 2 (vertices=32, convex hull=46, v0=75348) After retessellation of defect 2 (v0=75348), euler #=-3 (111214,333486,222269) : difference with theory (-3) = 0 CORRECTING DEFECT 3 (vertices=36, convex hull=58, v0=85345) After retessellation of defect 3 (v0=85345), euler #=-2 (111227,333548,222319) : difference with theory (-2) = 0 CORRECTING DEFECT 4 (vertices=16, convex hull=59, v0=91211) After retessellation of defect 4 (v0=91211), euler #=-1 (111235,333596,222360) : difference with theory (-1) = 0 CORRECTING DEFECT 5 (vertices=102, convex hull=131, v0=95537) After retessellation of defect 5 (v0=95537), euler #=0 (111285,333806,222521) : difference with theory (0) = 0 CORRECTING DEFECT 6 (vertices=32, convex hull=55, v0=101357) After retessellation of defect 6 (v0=101357), euler #=1 (111294,333852,222559) : difference with theory (1) = 0 CORRECTING DEFECT 7 (vertices=35, convex hull=60, v0=103524) After retessellation of defect 7 (v0=103524), euler #=2 (111310,333924,222616) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.88 +- 0.21 (0.14-->6.26) (max @ vno 95159 --> 99971) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.88 +- 0.21 (0.14-->6.26) (max @ vno 95159 --> 99971) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 23 mutations (26.7%), 63 crossovers (73.3%), 18 vertices were eliminated building final representation... 360 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=111310, nf=222616, ne=333924, g=0) writing corrected surface to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 27 intersecting terminating search with 0 intersecting topology fixing took 0.5 minutes FSRUNTIME@ mris_fix_topology rh 0.0089 hours 1 threads #VMPC# mris_fix_topology VmPeak 867072 @#@FSTIME 2020:08:24:13:27:48 mris_fix_topology N 14 e 31.93 S 0.26 U 31.52 P 99% M 709276 F 0 R 159553 W 0 c 19 w 384 I 0 O 10472 L 0.99 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:28:19 mris_fix_topology N 14 0.99 0.99 1.03 mris_euler_number ../surf/lh.orig.premesh euler # = v-e+f = 2g-2: 112211 - 336627 + 224418 = 2 --> 0 holes F =2V-4: 224418 = 224422-4 (0) 2E=3F: 673254 = 673254 (0) total defect index = 0 mris_euler_number ../surf/rh.orig.premesh euler # = v-e+f = 2g-2: 111310 - 333924 + 222616 = 2 --> 0 holes F =2V-4: 222616 = 222620-4 (0) 2E=3F: 667848 = 667848 (0) total defect index = 0 Mon Aug 24 13:28:20 EDT 2020 setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts /usr/local/freesurfer/7.1.0/bin/defect2seg --s BRUA84m freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b defect2seg 7.1.0 Linux c3po.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux pid 160205 mri_label2vol --defects /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.orig.nofix /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.defect_labels /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz 1000 0 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/surface.defects.mgz mri_label2vol supposed to be reproducible but seed not set Changing input type 0 to MRI_INT Converting defects to volume: offset=1000, merge=0 Writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/surface.defects.mgz mris_defects_pointset -s /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.orig.nofix -d /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.defect_labels -o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.defects.pointset Reading in surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.orig.nofix Reading in defect segmentation /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.defect_labels #VMPC# mris_defects_pointset 167320 mris_defects_pointset done mri_label2vol --defects /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.orig.nofix /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.defect_labels /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/surface.defects.mgz 2000 1 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/surface.defects.mgz mri_label2vol supposed to be reproducible but seed not set Converting defects to volume: offset=2000, merge=1 Writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/surface.defects.mgz mris_defects_pointset -s /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.orig.nofix -d /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.defect_labels -o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.defects.pointset Reading in surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.orig.nofix Reading in defect segmentation /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.defect_labels #VMPC# mris_defects_pointset 166492 mris_defects_pointset done Started at Mon Aug 24 13:28:20 EDT 2020 Ended at Mon Aug 24 13:28:25 EDT 2020 Defect2seg-Run-Time-Sec 5 Defect2seg-Run-Time-Min 0.10 Defect2seg-Run-Time-Hours 0.00 tkmeditfv BRUA84m orig.mgz -defect -c /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/?h.defects.pointset defect2seg Done @#@FSTIME 2020:08:24:13:28:20 defect2seg N 2 e 4.23 S 0.32 U 3.82 P 97% M 214440 F 7 R 97603 W 0 c 70 w 546 I 6784 O 584 L 0.99 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:28:25 defect2seg N 2 0.99 0.99 1.03 mris_remesh --remesh --iters 3 --input /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.orig.premesh --output /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.orig iters = 3 standard remeshing without target adjusted l: 0.706343 remeshing to edge length 0.706343 with 3 iterations avg qual before : 0.893821 after: 0.971055 Removing intersections Remeshed surface quality stats nv0 = 112211 nv = 117489 1.04704 Area 234974 0.29897 0.03342 0.075320 0.5098 Corner 704922 60.00000 8.81966 16.948634 146.0974 Edge 352461 0.83886 0.08207 0.475253 1.2716 Hinge 352461 9.77430 9.78119 0.000034 121.7556 mris_remesh done @#@FSTIME 2020:08:24:13:28:25 mris_remesh N 7 e 20.67 S 0.19 U 20.33 P 99% M 638416 F 4 R 106880 W 0 c 7 w 260 I 4376 O 8264 L 0.99 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:28:45 mris_remesh N 7 1.00 0.99 1.03 mris_remesh --remesh --iters 3 --input /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.orig.premesh --output /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.orig iters = 3 standard remeshing without target adjusted l: 0.706091 remeshing to edge length 0.706091 with 3 iterations avg qual before : 0.893386 after: 0.971192 Removing intersections Remeshed surface quality stats nv0 = 111310 nv = 116500 1.04663 Area 232996 0.29860 0.03334 0.068383 0.4716 Corner 698988 60.00000 8.80357 16.584503 144.8352 Edge 349494 0.83832 0.08180 0.439180 1.2226 Hinge 349494 9.80398 9.83736 0.000030 118.7599 mris_remesh done @#@FSTIME 2020:08:24:13:28:45 mris_remesh N 7 e 20.46 S 0.19 U 20.17 P 99% M 631600 F 0 R 105702 W 0 c 7 w 300 I 0 O 8200 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:29:06 mris_remesh N 7 1.00 0.99 1.03 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig intersection removal took 0.00 hours writing corrected surface to ../surf/lh.orig @#@FSTIME 2020:08:24:13:29:06 mris_remove_intersection N 2 e 1.90 S 0.10 U 1.69 P 94% M 292164 F 4 R 52480 W 0 c 4 w 298 I 4360 O 8264 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:29:08 mris_remove_intersection N 2 1.00 0.99 1.03 rm ../surf/lh.inflated rm: cannot remove '../surf/lh.inflated': No such file or directory /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig intersection removal took 0.00 hours writing corrected surface to ../surf/rh.orig @#@FSTIME 2020:08:24:13:29:08 mris_remove_intersection N 2 e 1.84 S 0.11 U 1.68 P 96% M 291704 F 0 R 51832 W 0 c 5 w 274 I 0 O 8200 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:29:10 mris_remove_intersection N 2 1.00 0.99 1.03 rm ../surf/rh.inflated rm: cannot remove '../surf/rh.inflated': No such file or directory #-------------------------------------------- #@# AutoDetGWStats lh Mon Aug 24 13:29:10 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh border white: 211459 voxels (1.26%) border gray 228340 voxels (1.36%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/lh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (99.0): 98.9 +- 7.9 [70.0 --> 110.0] CCS GM (76.0) : 73.8 +- 12.0 [30.0 --> 110.0] white_mean = 98.884 +/- 7.91626, gray_mean = 73.8357 +/- 12.0189 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=157 nbins=158 intensity peaks found at WM=103+-5.2, GM=70+-9.6 white_mode = 103, gray_mode = 70 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 58.0 (was 70.000000) setting MAX_BORDER_WHITE to 110.9 (was 105.000000) setting MIN_BORDER_WHITE to 70.0 (was 85.000000) setting MAX_CSF to 46.0 (was 40.000000) setting MAX_GRAY to 95.1 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 58.0 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 33.9 (was 40.000000) When placing the white surface white_border_hi = 110.916; white_border_low = 70; white_outside_low = 57.9811; white_inside_hi = 120; white_outside_hi = 110.916; When placing the pial surface pial_border_hi = 57.9811; pial_border_low = 33.9433; pial_outside_low = 10; pial_inside_hi = 95.0837; pial_outside_hi = 51.9716; #VMPC# mris_autodet_gwstats VmPeak 349116 mris_autodet_gwstats done @#@FSTIME 2020:08:24:13:29:10 mris_autodet_gwstats N 8 e 3.89 S 0.05 U 3.81 P 99% M 209804 F 6 R 28141 W 0 c 4 w 38 I 5472 O 8 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:29:14 mris_autodet_gwstats N 8 1.00 0.99 1.03 #-------------------------------------------- #@# AutoDetGWStats rh Mon Aug 24 13:29:14 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh border white: 211459 voxels (1.26%) border gray 228340 voxels (1.36%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/rh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (99.0): 98.9 +- 7.9 [70.0 --> 110.0] CCS GM (76.0) : 73.8 +- 12.0 [30.0 --> 110.0] white_mean = 98.884 +/- 7.91626, gray_mean = 73.8357 +/- 12.0189 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=157 nbins=158 intensity peaks found at WM=103+-6.1, GM=71+-9.6 white_mode = 103, gray_mode = 71 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 59.0 (was 70.000000) setting MAX_BORDER_WHITE to 110.9 (was 105.000000) setting MIN_BORDER_WHITE to 71.0 (was 85.000000) setting MAX_CSF to 47.0 (was 40.000000) setting MAX_GRAY to 95.1 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 59.0 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 34.9 (was 40.000000) When placing the white surface white_border_hi = 110.916; white_border_low = 71; white_outside_low = 58.9811; white_inside_hi = 120; white_outside_hi = 110.916; When placing the pial surface pial_border_hi = 58.9811; pial_border_low = 34.9433; pial_outside_low = 10; pial_inside_hi = 95.0837; pial_outside_hi = 52.9716; #VMPC# mris_autodet_gwstats VmPeak 347796 mris_autodet_gwstats done @#@FSTIME 2020:08:24:13:29:14 mris_autodet_gwstats N 8 e 3.84 S 0.05 U 3.77 P 99% M 208448 F 0 R 27164 W 0 c 5 w 26 I 0 O 16 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:29:18 mris_autodet_gwstats N 8 1.00 0.99 1.03 #-------------------------------------------- #@# WhitePreAparc lh Mon Aug 24 13:29:18 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 7.1.0 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/lh.orig Smoothing surface with 5 iterations Area 234974 0.26345 0.06085 0.001323 0.6115 Corner 704922 60.00000 9.42324 11.387147 137.7716 Edge 352461 0.78403 0.11142 0.048910 1.3110 Hinge 352461 6.51792 6.26462 0.000009 151.2410 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 MRIfindBrightNonWM(): 297 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 #FML# MRISripMidline(): nmarked=5595, nmarked2=0, nripped=5595 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 58745: xyz = (-39.6394,-30.0109,38.243) oxyz = (-39.6394,-30.0109,38.243) wxzy = (-39.6394,-30.0109,38.243) pxyz = (0,0,0) n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5595 #FML# MRISripMidline(): nmarked=5595, nmarked2=0, nripped=5595 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=2 had to be increased for 56 vertices, nripped=5595 mean border=81.6, 112 (112) missing vertices, mean dist 0.2 [0.9 (%36.7)->0.9 (%63.3))] %47 local maxima, %48 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2055 min Finding expansion regions mean absolute distance = 0.94 +- 1.18 3649 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=c3po., nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, 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 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=3021189.2, rms=11.380 001: dt: 0.5000, sse=1631930.9, rms=8.215 (27.810%) 002: dt: 0.5000, sse=937598.0, rms=6.037 (26.511%) 003: dt: 0.5000, sse=603710.5, rms=4.636 (23.204%) 004: dt: 0.5000, sse=441267.9, rms=3.767 (18.741%) 005: dt: 0.5000, sse=362286.4, rms=3.257 (13.542%) 006: dt: 0.5000, sse=323531.6, rms=2.969 (8.850%) 007: dt: 0.5000, sse=305889.6, rms=2.825 (4.841%) 008: dt: 0.5000, sse=297590.3, rms=2.748 (2.715%) rms = 2.7236/2.7484, sse=295156.6/297590.3, time step reduction 1 of 3 to 0.250 0 0 1 009: dt: 0.5000, sse=295156.6, rms=2.724 (0.904%) 010: dt: 0.2500, sse=187519.6, rms=1.576 (42.139%) 011: dt: 0.2500, sse=171647.9, rms=1.327 (15.802%) 012: dt: 0.2500, sse=168856.7, rms=1.273 (4.079%) rms = 1.2487/1.2727, sse=167520.7/168856.7, time step reduction 2 of 3 to 0.125 0 0 1 013: dt: 0.2500, sse=167520.8, rms=1.249 (1.893%) rms = 1.2187/1.2487, sse=165633.7/167520.7, time step reduction 3 of 3 to 0.062 0 0 1 014: dt: 0.1250, sse=165633.7, rms=1.219 (2.400%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5595 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=5861, nmarked2=2, nripped=5861 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=1 had to be increased for 41 vertices, nripped=5861 mean border=84.3, 123 (55) missing vertices, mean dist -0.3 [0.6 (%66.6)->0.3 (%33.4))] %55 local maxima, %40 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1398 min Finding expansion regions mean absolute distance = 0.46 +- 0.85 3463 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=c3po., nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=620617.9, rms=4.453 015: dt: 0.5000, sse=353476.0, rms=2.811 (36.876%) 016: dt: 0.5000, sse=310463.0, rms=2.462 (12.426%) 017: dt: 0.5000, sse=299390.5, rms=2.359 (4.165%) rms = 2.5043/2.3592, sse=315058.0/299390.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 018: dt: 0.2500, sse=234403.7, rms=1.612 (31.692%) 019: dt: 0.2500, sse=209463.8, rms=1.200 (25.540%) 020: dt: 0.2500, sse=203265.8, rms=1.084 (9.641%) rms = 1.0563/1.0842, sse=202027.9/203265.8, time step reduction 2 of 3 to 0.125 0 0 1 021: dt: 0.2500, sse=202027.9, rms=1.056 (2.580%) rms = 1.0241/1.0563, sse=200646.4/202027.9, time step reduction 3 of 3 to 0.062 0 0 1 022: dt: 0.1250, sse=200646.4, rms=1.024 (3.049%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5861 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=5925, nmarked2=2, nripped=5925 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 47 vertices, nripped=5925 mean border=87.6, 90 (39) missing vertices, mean dist -0.2 [0.4 (%74.1)->0.2 (%25.9))] %74 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0750 min Finding expansion regions mean absolute distance = 0.35 +- 0.49 3125 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=c3po., nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=559371.8, rms=4.166 023: dt: 0.5000, sse=294183.7, rms=2.322 (44.265%) 024: dt: 0.5000, sse=288208.6, rms=2.272 (2.158%) rms = 2.3857/2.2717, sse=298762.2/288208.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 025: dt: 0.2500, sse=223298.4, rms=1.493 (34.264%) 026: dt: 0.2500, sse=198242.7, rms=1.057 (29.249%) 027: dt: 0.2500, sse=194836.0, rms=0.977 (7.546%) rms = 0.9624/0.9768, sse=194050.5/194836.0, time step reduction 2 of 3 to 0.125 0 0 1 028: dt: 0.2500, sse=194050.5, rms=0.962 (1.471%) rms = 0.9267/0.9624, sse=192590.0/194050.5, time step reduction 3 of 3 to 0.062 0 0 1 029: dt: 0.1250, sse=192590.0, rms=0.927 (3.710%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5925 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6002, nmarked2=1, nripped=6002 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 69 vertices, nripped=6002 mean border=88.9, 97 (36) missing vertices, mean dist -0.1 [0.3 (%61.5)->0.2 (%38.5))] %82 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0466 min Finding expansion regions mean absolute distance = 0.25 +- 0.36 2759 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=c3po., nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=245946.7, rms=1.868 030: dt: 0.5000, sse=227671.3, rms=1.581 (15.369%) rms = 1.9265/1.5809, sse=251151.8/227671.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 031: dt: 0.2500, sse=192794.5, rms=0.991 (37.295%) 032: dt: 0.2500, sse=183266.4, rms=0.778 (21.489%) 033: dt: 0.2500, sse=180751.5, rms=0.724 (7.031%) rms = 0.7427/0.7236, sse=180801.0/180751.5, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.7125/0.7236, sse=180327.0/180751.5, time step reduction 3 of 3 to 0.062 0 0 1 034: dt: 0.1250, sse=180327.0, rms=0.713 (1.531%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/lh.white.preaparc #ET# mris_place_surface 3.09 minutes #VMPC# mris_make_surfaces VmPeak 2135944 mris_place_surface done @#@FSTIME 2020:08:24:13:29:18 mris_place_surface N 16 e 191.70 S 0.42 U 190.75 P 99% M 1761880 F 4 R 241572 W 0 c 147 w 303 I 2520 O 8264 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:32:30 mris_place_surface N 16 1.00 0.99 1.03 #-------------------------------------------- #@# WhitePreAparc rh Mon Aug 24 13:32:30 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 7.1.0 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/rh.orig Smoothing surface with 5 iterations Area 232996 0.26304 0.06072 0.001403 0.5505 Corner 698988 60.00000 9.37308 9.116068 142.6690 Edge 349494 0.78332 0.11123 0.044621 1.3556 Hinge 349494 6.51346 6.23584 0.000033 121.0636 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 MRIfindBrightNonWM(): 297 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=5774, nmarked2=0, nripped=5774 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 58250: xyz = (4.05893,-11.9848,53.8062) oxyz = (4.05893,-11.9848,53.8062) wxzy = (4.05893,-11.9848,53.8062) pxyz = (0,0,0) n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5774 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=5774, nmarked2=0, nripped=5774 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=2 had to be increased for 9 vertices, nripped=5774 mean border=82.2, 63 (63) missing vertices, mean dist 0.2 [0.9 (%37.0)->0.9 (%63.0))] %48 local maxima, %47 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2034 min Finding expansion regions mean absolute distance = 0.94 +- 1.18 3646 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=c3po., nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, 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 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=2897436.0, rms=11.193 001: dt: 0.5000, sse=1574093.2, rms=8.100 (27.632%) 002: dt: 0.5000, sse=915528.6, rms=5.991 (26.040%) 003: dt: 0.5000, sse=594744.2, rms=4.622 (22.845%) 004: dt: 0.5000, sse=435119.2, rms=3.758 (18.700%) 005: dt: 0.5000, sse=355345.9, rms=3.237 (13.869%) 006: dt: 0.5000, sse=316548.4, rms=2.945 (9.002%) 007: dt: 0.5000, sse=297484.2, rms=2.787 (5.384%) 008: dt: 0.5000, sse=288968.0, rms=2.710 (2.764%) rms = 2.6692/2.7097, sse=284977.3/288968.0, time step reduction 1 of 3 to 0.250 0 0 1 009: dt: 0.5000, sse=284977.3, rms=2.669 (1.494%) 010: dt: 0.2500, sse=183996.5, rms=1.564 (41.390%) 011: dt: 0.2500, sse=169687.5, rms=1.338 (14.467%) 012: dt: 0.2500, sse=166786.2, rms=1.285 (3.965%) rms = 1.2650/1.2851, sse=165849.7/166786.2, time step reduction 2 of 3 to 0.125 0 0 1 013: dt: 0.2500, sse=165849.7, rms=1.265 (1.564%) rms = 1.2364/1.2650, sse=164402.7/165849.7, time step reduction 3 of 3 to 0.062 0 0 1 014: dt: 0.1250, sse=164402.7, rms=1.236 (2.258%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5774 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=5944, nmarked2=0, nripped=5944 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=1 had to be increased for 35 vertices, nripped=5944 mean border=84.9, 60 (10) missing vertices, mean dist -0.3 [0.6 (%65.6)->0.3 (%34.4))] %56 local maxima, %39 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1385 min Finding expansion regions mean absolute distance = 0.48 +- 0.86 3479 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=c3po., nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=618078.4, rms=4.467 015: dt: 0.5000, sse=350554.3, rms=2.813 (37.022%) 016: dt: 0.5000, sse=305269.3, rms=2.430 (13.621%) 017: dt: 0.5000, sse=293377.6, rms=2.318 (4.605%) rms = 2.4606/2.3181, sse=307662.5/293377.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 018: dt: 0.2500, sse=232744.6, rms=1.607 (30.683%) 019: dt: 0.2500, sse=208983.1, rms=1.222 (23.972%) 020: dt: 0.2500, sse=203401.9, rms=1.109 (9.219%) rms = 1.0819/1.1090, sse=202218.1/203401.9, time step reduction 2 of 3 to 0.125 0 0 1 021: dt: 0.2500, sse=202218.1, rms=1.082 (2.444%) rms = 1.0511/1.0819, sse=200794.7/202218.1, time step reduction 3 of 3 to 0.062 0 0 1 022: dt: 0.1250, sse=200794.7, rms=1.051 (2.848%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5944 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=5976, nmarked2=0, nripped=5976 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 61 vertices, nripped=5976 mean border=88.0, 60 (5) missing vertices, mean dist -0.2 [0.4 (%73.6)->0.2 (%26.4))] %75 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0747 min Finding expansion regions mean absolute distance = 0.36 +- 0.50 2912 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=c3po., nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=528963.2, rms=4.021 023: dt: 0.5000, sse=289167.2, rms=2.296 (42.914%) 024: dt: 0.5000, sse=283319.5, rms=2.245 (2.194%) rms = 2.3276/2.2453, sse=290908.1/283319.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 025: dt: 0.2500, sse=222353.3, rms=1.501 (33.136%) 026: dt: 0.2500, sse=199129.1, rms=1.087 (27.622%) 027: dt: 0.2500, sse=195302.2, rms=1.003 (7.656%) rms = 0.9931/1.0034, sse=197581.7/195302.2, time step reduction 2 of 3 to 0.125 0 1 1 028: dt: 0.2500, sse=197581.7, rms=0.993 (1.031%) rms = 0.9559/0.9931, sse=196231.5/197581.7, time step reduction 3 of 3 to 0.062 0 0 1 029: dt: 0.1250, sse=196231.5, rms=0.956 (3.739%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=5976 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6032, nmarked2=0, nripped=6032 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 98 vertices, nripped=6032 mean border=89.2, 71 (4) missing vertices, mean dist -0.1 [0.3 (%61.3)->0.2 (%38.7))] %83 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0462 min Finding expansion regions mean absolute distance = 0.26 +- 0.37 2937 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=c3po., nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=242707.7, rms=1.799 030: dt: 0.5000, sse=220354.9, rms=1.509 (16.136%) rms = 1.8703/1.5090, sse=245319.7/220354.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 031: dt: 0.2500, sse=190634.5, rms=0.975 (35.397%) 032: dt: 0.2500, sse=183368.6, rms=0.804 (17.495%) 033: dt: 0.2500, sse=181063.4, rms=0.752 (6.472%) rms = 0.7737/0.7522, sse=181353.7/181063.4, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.7406/0.7522, sse=180672.1/181063.4, time step reduction 3 of 3 to 0.062 0 0 1 034: dt: 0.1250, sse=180672.1, rms=0.741 (1.544%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white.preaparc #ET# mris_place_surface 3.07 minutes #VMPC# mris_make_surfaces VmPeak 2145892 mris_place_surface done @#@FSTIME 2020:08:24:13:32:30 mris_place_surface N 16 e 189.97 S 0.41 U 189.05 P 99% M 1771676 F 0 R 225998 W 0 c 143 w 353 I 0 O 8200 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:35:40 mris_place_surface N 16 1.00 0.99 1.03 #-------------------------------------------- #@# CortexLabel lh Mon Aug 24 13:35:40 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 0 ../label/lh.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 3 non-cortical segments detected only using segment with 7303 vertices erasing segment 1 (vno[0] = 57964) erasing segment 2 (vno[0] = 74042) @#@FSTIME 2020:08:24:13:35:40 mri_label2label N 5 e 11.63 S 0.07 U 11.46 P 99% M 292964 F 1 R 27303 W 0 c 6 w 353 I 1416 O 9552 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:35:52 mri_label2label N 5 1.00 0.99 1.03 #-------------------------------------------- #@# CortexLabel+HipAmyg lh Mon Aug 24 13:35:52 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 1 ../label/lh.cortex+hipamyg.label Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 6 non-cortical segments detected only using segment with 5164 vertices erasing segment 1 (vno[0] = 43781) erasing segment 2 (vno[0] = 47122) erasing segment 3 (vno[0] = 49977) erasing segment 4 (vno[0] = 57964) erasing segment 5 (vno[0] = 74042) @#@FSTIME 2020:08:24:13:35:52 mri_label2label N 5 e 11.38 S 0.07 U 11.22 P 99% M 301408 F 0 R 26303 W 0 c 7 w 357 I 0 O 9736 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:36:03 mri_label2label N 5 1.00 0.99 1.03 #-------------------------------------------- #@# CortexLabel rh Mon Aug 24 13:36:03 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 0 ../label/rh.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 5 non-cortical segments detected only using segment with 7180 vertices erasing segment 1 (vno[0] = 28511) erasing segment 2 (vno[0] = 38108) erasing segment 3 (vno[0] = 67101) erasing segment 4 (vno[0] = 69487) @#@FSTIME 2020:08:24:13:36:03 mri_label2label N 5 e 10.47 S 0.07 U 10.31 P 99% M 295704 F 0 R 26408 W 0 c 7 w 371 I 0 O 9272 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:36:14 mri_label2label N 5 1.00 0.99 1.03 #-------------------------------------------- #@# CortexLabel+HipAmyg rh Mon Aug 24 13:36:14 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 1 ../label/rh.cortex+hipamyg.label Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 8 non-cortical segments detected only using segment with 5477 vertices erasing segment 1 (vno[0] = 28511) erasing segment 2 (vno[0] = 38108) erasing segment 3 (vno[0] = 45853) erasing segment 4 (vno[0] = 67101) erasing segment 5 (vno[0] = 69487) erasing segment 6 (vno[0] = 104944) erasing segment 7 (vno[0] = 110327) @#@FSTIME 2020:08:24:13:36:14 mri_label2label N 5 e 10.54 S 0.07 U 10.38 P 99% M 307976 F 0 R 28969 W 0 c 9 w 349 I 0 O 9392 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:36:25 mri_label2label N 5 1.00 0.99 1.03 #-------------------------------------------- #@# Smooth2 lh Mon Aug 24 13:36:25 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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... @#@FSTIME 2020:08:24:13:36:25 mris_smooth N 7 e 2.45 S 0.07 U 2.32 P 97% M 179760 F 0 R 30138 W 0 c 5 w 320 I 0 O 8264 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:36:27 mris_smooth N 7 1.00 0.99 1.03 #-------------------------------------------- #@# Smooth2 rh Mon Aug 24 13:36:27 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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... @#@FSTIME 2020:08:24:13:36:27 mris_smooth N 7 e 2.45 S 0.06 U 2.32 P 97% M 178288 F 0 R 29029 W 0 c 5 w 281 I 0 O 8208 L 1.00 0.99 1.03 @#@FSLOADPOST 2020:08:24:13:36:30 mris_smooth N 7 0.92 0.97 1.03 #-------------------------------------------- #@# Inflation2 lh Mon Aug 24 13:36:30 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated Reading ../surf/lh.smoothwm avg radius = 45.3 mm, total surface area = 70888 mm^2 step 000: RMS=0.171 (target=0.015) step 005: RMS=0.113 (target=0.015) step 010: RMS=0.084 (target=0.015) step 015: RMS=0.069 (target=0.015) step 020: RMS=0.057 (target=0.015) step 025: RMS=0.047 (target=0.015) step 030: RMS=0.039 (target=0.015) step 035: RMS=0.033 (target=0.015) step 040: RMS=0.028 (target=0.015) step 045: RMS=0.024 (target=0.015) step 050: RMS=0.021 (target=0.015) step 055: RMS=0.020 (target=0.015) step 060: RMS=0.019 (target=0.015) writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc inflation complete. inflation took 0.3 minutes mris_inflate utimesec 16.949650 mris_inflate stimesec 0.085962 mris_inflate ru_maxrss 239476 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 43837 mris_inflate ru_majflt 1 mris_inflate ru_nswap 0 mris_inflate ru_inblock 80 mris_inflate ru_oublock 9192 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 342 mris_inflate ru_nivcsw 23 @#@FSTIME 2020:08:24:13:36:30 mris_inflate N 2 e 17.15 S 0.10 U 16.94 P 99% M 239512 F 1 R 43846 W 0 c 23 w 344 I 80 O 9192 L 0.92 0.97 1.03 @#@FSLOADPOST 2020:08:24:13:36:47 mris_inflate N 2 0.94 0.97 1.03 #-------------------------------------------- #@# Inflation2 rh Mon Aug 24 13:36:47 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated Reading ../surf/rh.smoothwm avg radius = 43.4 mm, total surface area = 70521 mm^2 step 000: RMS=0.172 (target=0.015) step 005: RMS=0.113 (target=0.015) step 010: RMS=0.085 (target=0.015) step 015: RMS=0.070 (target=0.015) step 020: RMS=0.057 (target=0.015) step 025: RMS=0.047 (target=0.015) step 030: RMS=0.039 (target=0.015) step 035: RMS=0.033 (target=0.015) step 040: RMS=0.029 (target=0.015) step 045: RMS=0.025 (target=0.015) step 050: RMS=0.022 (target=0.015) step 055: RMS=0.020 (target=0.015) step 060: RMS=0.019 (target=0.015) writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc inflation complete. inflation took 0.3 minutes mris_inflate utimesec 16.664263 mris_inflate stimesec 0.072983 mris_inflate ru_maxrss 237528 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 42859 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9112 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 337 mris_inflate ru_nivcsw 7 @#@FSTIME 2020:08:24:13:36:47 mris_inflate N 2 e 16.86 S 0.09 U 16.66 P 99% M 237564 F 0 R 42868 W 0 c 7 w 338 I 0 O 9112 L 0.94 0.97 1.03 @#@FSLOADPOST 2020:08:24:13:37:04 mris_inflate N 2 0.89 0.96 1.02 #-------------------------------------------- #@# Curv .H and .K lh Mon Aug 24 13:37:04 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf mris_curvature -w -seed 1234 lh.white.preaparc setting seed for random number generator to 1234 total integrated curvature = 13.223*4pi (166.167) --> -12 handles ICI = 135.8, FI = 1281.0, variation=20463.312 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. @#@FSTIME 2020:08:24:13:37:04 mris_curvature N 4 e 1.28 S 0.04 U 1.21 P 98% M 132464 F 0 R 19303 W 0 c 3 w 69 I 24 O 1848 L 0.89 0.96 1.02 @#@FSLOADPOST 2020:08:24:13:37:05 mris_curvature N 4 0.89 0.96 1.02 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 -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 116 vertices thresholded to be in k1 ~ [-0.17 0.89], k2 ~ [-0.11 0.08] total integrated curvature = 0.703*4pi (8.838) --> 0 handles ICI = 1.6, FI = 8.1, variation=145.032 92 vertices thresholded to be in [-0.04 0.01] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 103 vertices thresholded to be in [-0.12 0.31] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.023 done. @#@FSTIME 2020:08:24:13:37:05 mris_curvature N 12 e 38.35 S 0.10 U 38.11 P 99% M 316500 F 0 R 62216 W 0 c 32 w 124 I 0 O 1848 L 0.89 0.96 1.02 @#@FSLOADPOST 2020:08:24:13:37:44 mris_curvature N 12 0.94 0.96 1.02 #-------------------------------------------- #@# Curv .H and .K rh Mon Aug 24 13:37:44 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf mris_curvature -w -seed 1234 rh.white.preaparc setting seed for random number generator to 1234 total integrated curvature = 17.813*4pi (223.845) --> -17 handles ICI = 139.7, FI = 1272.6, variation=20412.846 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. @#@FSTIME 2020:08:24:13:37:44 mris_curvature N 4 e 1.24 S 0.04 U 1.18 P 98% M 131364 F 0 R 18970 W 0 c 2 w 69 I 0 O 1824 L 0.94 0.96 1.02 @#@FSLOADPOST 2020:08:24:13:37:45 mris_curvature N 4 0.94 0.96 1.02 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 -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 102 vertices thresholded to be in k1 ~ [-0.18 0.93], k2 ~ [-0.08 0.07] total integrated curvature = 0.673*4pi (8.455) --> 0 handles ICI = 1.5, FI = 9.0, variation=155.047 74 vertices thresholded to be in [-0.02 0.01] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 104 vertices thresholded to be in [-0.12 0.39] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.017, std = 0.024 done. @#@FSTIME 2020:08:24:13:37:45 mris_curvature N 12 e 37.88 S 0.12 U 37.64 P 99% M 313880 F 0 R 63077 W 0 c 36 w 117 I 0 O 1832 L 0.94 0.96 1.02 @#@FSLOADPOST 2020:08:24:13:38:23 mris_curvature N 12 0.97 0.96 1.02 #-------------------------------------------- #@# Sphere lh Mon Aug 24 13:38:23 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_sphere -rusage /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 7.1.0 7.1.0 == Number of threads available to mris_sphere for OpenMP = 1 == reading original vertex positions... scaling brain by 0.333... projecting onto sphere... surface projected - minimizing metric distortion... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=c3po., nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 1234 singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %20.09 pass 1: epoch 2 of 3 starting distance error %20.07 unfolding complete - removing small folds... starting distance error %19.98 removing remaining folds... final distance error %20.01 MRISunfold() return, current seed 1234 -01: dt=0.0000, 3 negative triangles 144: dt=0.9900, 3 negative triangles 145: dt=0.9900, 2 negative triangles 146: dt=0.9900, 1 negative triangles 147: dt=0.9900, 2 negative triangles 148: dt=0.9900, 1 negative triangles 149: dt=0.9900, 2 negative triangles 150: dt=0.9900, 1 negative triangles 151: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere mris_sphere utimesec 400.102056 mris_sphere stimesec 0.700702 mris_sphere ru_maxrss 1501720 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 616050 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 8272 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 394 mris_sphere ru_nivcsw 253 spherical transformation took 0.1116 hours FSRUNTIME@ mris_sphere 0.1116 hours 1 threads @#@FSTIME 2020:08:24:13:38:23 mris_sphere N 6 e 401.93 S 0.77 U 400.10 P 99% M 1501760 F 0 R 616060 W 0 c 254 w 406 I 0 O 8288 L 0.97 0.96 1.02 @#@FSLOADPOST 2020:08:24:13:45:06 mris_sphere N 6 1.00 1.00 1.03 #-------------------------------------------- #@# Sphere rh Mon Aug 24 13:45:06 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_sphere -rusage /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere setting seed for random number genererator to 1234 7.1.0 7.1.0 == Number of threads available to mris_sphere for OpenMP = 1 == reading original vertex positions... scaling brain by 0.341... projecting onto sphere... surface projected - minimizing metric distortion... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=c3po., 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 singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %19.79 pass 1: epoch 2 of 3 starting distance error %19.75 unfolding complete - removing small folds... starting distance error %19.70 removing remaining folds... final distance error %19.70 MRISunfold() return, current seed 1234 -01: dt=0.0000, 81 negative triangles 097: dt=0.9900, 81 negative triangles 098: dt=0.9900, 40 negative triangles 099: dt=0.9900, 36 negative triangles 100: dt=0.9900, 37 negative triangles 101: dt=0.9900, 35 negative triangles 102: dt=0.9900, 37 negative triangles 103: dt=0.9900, 31 negative triangles 104: dt=0.9900, 28 negative triangles 105: dt=0.9900, 38 negative triangles 106: dt=0.9900, 35 negative triangles 107: dt=0.9900, 30 negative triangles 108: dt=0.9900, 32 negative triangles 109: dt=0.9900, 27 negative triangles 110: dt=0.9900, 31 negative triangles 111: dt=0.9900, 27 negative triangles 112: dt=0.9900, 29 negative triangles 113: dt=0.9900, 28 negative triangles 114: dt=0.9900, 32 negative triangles 115: dt=0.9900, 30 negative triangles 116: dt=0.9900, 29 negative triangles 117: dt=0.9900, 25 negative triangles 118: dt=0.9900, 25 negative triangles 119: dt=0.9900, 27 negative triangles 120: dt=0.9900, 26 negative triangles 121: dt=0.9900, 27 negative triangles 122: dt=0.9900, 25 negative triangles 123: dt=0.9900, 28 negative triangles 124: dt=0.9900, 24 negative triangles 125: dt=0.9900, 27 negative triangles 126: dt=0.9900, 27 negative triangles 127: dt=0.9900, 24 negative triangles 128: dt=0.9900, 23 negative triangles 129: dt=0.9900, 24 negative triangles 130: dt=0.9900, 25 negative triangles 131: dt=0.9900, 19 negative triangles 132: dt=0.9900, 22 negative triangles 133: dt=0.9900, 20 negative triangles 134: dt=0.9900, 22 negative triangles 135: dt=0.9900, 21 negative triangles 136: dt=0.9900, 18 negative triangles 137: dt=0.9900, 21 negative triangles 138: dt=0.9900, 20 negative triangles 139: dt=0.9900, 18 negative triangles 140: dt=0.9900, 18 negative triangles 141: dt=0.9900, 17 negative triangles 142: dt=0.9900, 14 negative triangles 143: dt=0.9900, 13 negative triangles 144: dt=0.9900, 10 negative triangles 145: dt=0.9900, 14 negative triangles 146: dt=0.9900, 11 negative triangles 147: dt=0.9900, 9 negative triangles 148: dt=0.9900, 10 negative triangles 149: dt=0.9900, 5 negative triangles 150: dt=0.9900, 4 negative triangles 151: dt=0.9900, 3 negative triangles 152: dt=0.9900, 2 negative triangles 153: dt=0.9900, 3 negative triangles writing spherical brain to ../surf/rh.sphere mris_sphere utimesec 364.724260 mris_sphere stimesec 0.597785 mris_sphere ru_maxrss 1173292 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 466323 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 8200 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 334 mris_sphere ru_nivcsw 334 spherical transformation took 0.1017 hours FSRUNTIME@ mris_sphere 0.1017 hours 1 threads @#@FSTIME 2020:08:24:13:45:06 mris_sphere N 6 e 366.32 S 0.65 U 364.72 P 99% M 1173332 F 0 R 466333 W 0 c 334 w 345 I 0 O 8216 L 1.00 1.00 1.03 @#@FSLOADPOST 2020:08:24:13:51:12 mris_sphere N 6 1.02 1.03 1.05 #-------------------------------------------- #@# Surf Reg lh Mon Aug 24 13:51:12 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_register -curv -rusage /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /usr/local/freesurfer/7.1.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts cmdline mris_register -curv -rusage /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /usr/local/freesurfer/7.1.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.1.0 7.1.0 reading surface from ../surf/lh.sphere... reading template parameterization from /usr/local/freesurfer/7.1.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=c3po., 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=c3po., 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 tol=1.0e+00, sigma=0.5, host=c3po., 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 curvature mean = 0.000, std = 5.395 curvature mean = 0.049, std = 0.827 curvature mean = 0.016, std = 0.877 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (19.50, -10.50, -16.50) sse = 209063.6, elapsed since starting=0.3127 min MRISrigidBodyAlignGlobal() done 0.31 min curvature mean = 0.026, std = 0.843 curvature mean = 0.005, std = 0.953 curvature mean = 0.024, std = 0.854 curvature mean = 0.002, std = 0.981 curvature mean = 0.024, std = 0.857 curvature mean = 0.001, std = 0.992 2 Reading smoothwm curvature mean = -0.020, std = 0.260 curvature mean = 0.045, std = 0.249 curvature mean = 0.056, std = 0.412 curvature mean = 0.039, std = 0.309 curvature mean = 0.026, std = 0.625 curvature mean = 0.038, std = 0.336 curvature mean = 0.012, std = 0.767 curvature mean = 0.038, std = 0.349 curvature mean = 0.003, std = 0.864 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles registration took 0.10 hours #VMPC# mris_register VmPeak 1542852 FSRUNTIME@ mris_register 0.0977 hours 1 threads @#@FSTIME 2020:08:24:13:51:13 mris_register N 6 e 351.70 S 0.57 U 350.12 P 99% M 1154704 F 1 R 444463 W 0 c 346 w 363 I 7600 O 8272 L 1.02 1.03 1.05 @#@FSLOADPOST 2020:08:24:13:57:04 mris_register N 6 1.03 1.05 1.05 ln -sf lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Mon Aug 24 13:57:04 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_register -curv -rusage /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /usr/local/freesurfer/7.1.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg using smoothwm curvature for final alignment cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts cmdline mris_register -curv -rusage /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /usr/local/freesurfer/7.1.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.1.0 7.1.0 reading surface from ../surf/rh.sphere... reading template parameterization from /usr/local/freesurfer/7.1.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=c3po., 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=c3po., 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 tol=1.0e+00, sigma=0.5, host=c3po., 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 curvature mean = 0.000, std = 5.382 curvature mean = 0.034, std = 0.811 curvature mean = 0.015, std = 0.875 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (24.00, -8.00, -15.50) sse = 249525.8, elapsed since starting=0.2963 min MRISrigidBodyAlignGlobal() done 0.30 min curvature mean = -0.002, std = 0.828 curvature mean = 0.008, std = 0.950 curvature mean = -0.006, std = 0.838 curvature mean = 0.003, std = 0.979 curvature mean = -0.007, std = 0.840 curvature mean = 0.000, std = 0.991 2 Reading smoothwm curvature mean = -0.018, std = 0.260 curvature mean = 0.034, std = 0.241 curvature mean = 0.065, std = 0.399 curvature mean = 0.033, std = 0.299 curvature mean = 0.023, std = 0.615 curvature mean = 0.032, std = 0.326 curvature mean = 0.009, std = 0.756 curvature mean = 0.032, std = 0.338 curvature mean = 0.001, std = 0.852 MRISregister() return, current seed 0 -01: dt=0.0000, 1 negative triangles 106: dt=0.9900, 1 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.10 hours #VMPC# mris_register VmPeak 1556656 FSRUNTIME@ mris_register 0.1043 hours 1 threads @#@FSTIME 2020:08:24:13:57:05 mris_register N 6 e 375.50 S 0.57 U 373.88 P 99% M 1168512 F 0 R 446304 W 0 c 190 w 342 I 5584 O 8200 L 1.03 1.05 1.05 @#@FSLOADPOST 2020:08:24:14:03:21 mris_register N 6 1.05 1.03 1.05 ln -sf rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Mon Aug 24 14:03:21 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 @#@FSTIME 2020:08:24:14:03:21 mris_jacobian N 3 e 0.84 S 0.06 U 0.76 P 97% M 179364 F 0 R 29507 W 0 c 2 w 63 I 0 O 920 L 1.05 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:03:22 mris_jacobian N 3 1.05 1.03 1.05 #-------------------------------------------- #@# Jacobian white rh Mon Aug 24 14:03:22 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 @#@FSTIME 2020:08:24:14:03:22 mris_jacobian N 3 e 0.83 S 0.07 U 0.74 P 97% M 177892 F 0 R 29591 W 0 c 4 w 57 I 0 O 912 L 1.05 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:03:23 mris_jacobian N 3 1.05 1.03 1.05 #-------------------------------------------- #@# AvgCurv lh Mon Aug 24 14:03:23 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.1.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.1.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2020:08:24:14:03:23 mrisp_paint N 5 e 0.64 S 0.05 U 0.58 P 97% M 137492 F 0 R 18923 W 0 c 2 w 38 I 0 O 920 L 1.05 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:03:23 mrisp_paint N 5 0.96 1.01 1.04 #-------------------------------------------- #@# AvgCurv rh Mon Aug 24 14:03:23 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.1.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.1.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2020:08:24:14:03:23 mrisp_paint N 5 e 0.63 S 0.04 U 0.57 P 98% M 136404 F 0 R 19183 W 0 c 2 w 50 I 0 O 912 L 0.96 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:03:24 mrisp_paint N 5 0.96 1.01 1.04 #----------------------------------------- #@# Cortical Parc lh Mon Aug 24 14:03:24 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 BRUA84m lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.1.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.1.0 7.1.0 reading atlas from /usr/local/freesurfer/7.1.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 907 labels changed using aseg relabeling using gibbs priors... 000: 2891 changed, 117489 examined... 001: 645 changed, 12084 examined... 002: 156 changed, 3727 examined... 003: 56 changed, 959 examined... 004: 26 changed, 351 examined... 005: 16 changed, 163 examined... 006: 5 changed, 79 examined... 007: 2 changed, 33 examined... 008: 2 changed, 16 examined... 009: 3 changed, 11 examined... 010: 0 changed, 15 examined... 252 labels changed using aseg 000: 104 total segments, 62 labels (244 vertices) changed 001: 41 total segments, 1 labels (3 vertices) changed 002: 40 total segments, 0 labels (0 vertices) changed 9 filter iterations complete (10 requested, 0 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1399 vertices marked for relabeling... 1399 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2020:08:24:14:03:24 mris_ca_label N 11 e 8.50 S 0.33 U 8.03 P 98% M 1075804 F 2 R 190265 W 0 c 12 w 106 I 64920 O 1840 L 0.96 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:03:33 mris_ca_label N 11 0.96 1.01 1.04 #----------------------------------------- #@# Cortical Parc rh Mon Aug 24 14:03:33 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 BRUA84m rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.1.0/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.1.0 7.1.0 reading atlas from /usr/local/freesurfer/7.1.0/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.004 0 singular and 309 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 858 labels changed using aseg relabeling using gibbs priors... 000: 2524 changed, 116500 examined... 001: 565 changed, 10956 examined... 002: 136 changed, 3199 examined... 003: 40 changed, 845 examined... 004: 11 changed, 260 examined... 005: 1 changed, 68 examined... 006: 0 changed, 6 examined... 137 labels changed using aseg 000: 101 total segments, 63 labels (185 vertices) changed 001: 40 total segments, 2 labels (2 vertices) changed 002: 38 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1476 vertices marked for relabeling... 1476 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2020:08:24:14:03:33 mris_ca_label N 11 e 7.95 S 0.23 U 7.67 P 99% M 1057468 F 0 R 113935 W 0 c 10 w 98 I 36352 O 1832 L 0.96 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:03:41 mris_ca_label N 11 0.97 1.01 1.04 #-------------------------------------------- #@# WhiteSurfs lh Mon Aug 24 14:03:41 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot 7.1.0 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot Reading in input surface ../surf/lh.white.preaparc Not smoothing input surface Area 234974 0.33267 0.11626 0.000678 2.1309 Corner 704922 60.00000 14.11271 0.230481 178.6755 Edge 352461 0.88744 0.19475 0.026913 3.4675 Hinge 352461 10.87437 10.78225 0.000014 179.5072 Reading in aparc ../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 in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 MRIfindBrightNonWM(): 297 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex.label Reading in ripping surface ../surf/lh.white.preaparc Reading in aparc ../label/lh.aparc.annot for ripsurf reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Ripping BG MRISripBasalGanglia(): -2 2 0.5 ripped 299 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 58745: xyz = (-39.6714,-30.4946,38.1822) oxyz = (-39.6714,-30.4946,38.1822) wxzy = (-39.6714,-30.4946,38.1822) pxyz = (0,0,0) n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=2 had to be increased for 79 vertices, nripped=7797 mean border=81.8, 182 (182) missing vertices, mean dist 0.4 [1.8 (%12.1)->0.7 (%87.9))] %45 local maxima, %48 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1885 min Finding expansion regions mean absolute distance = 0.82 +- 1.08 3003 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=c3po., nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, 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 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=1717088.1, rms=8.420 001: dt: 0.5000, sse=706451.6, rms=4.991 (40.726%) 002: dt: 0.5000, sse=391067.8, rms=3.245 (34.980%) 003: dt: 0.5000, sse=315722.2, rms=2.663 (17.943%) 004: dt: 0.5000, sse=290189.1, rms=2.428 (8.818%) rms = 2.4691/2.4280, sse=295127.2/290189.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=227845.8, rms=1.726 (28.916%) 006: dt: 0.2500, sse=202379.0, rms=1.334 (22.711%) 007: dt: 0.2500, sse=196369.4, rms=1.220 (8.565%) rms = 1.1827/1.2197, sse=194754.0/196369.4, time step reduction 2 of 3 to 0.125 0 0 1 008: dt: 0.2500, sse=194754.0, rms=1.183 (3.033%) rms = 1.1540/1.1827, sse=193371.4/194754.0, time step reduction 3 of 3 to 0.062 0 0 1 009: dt: 0.1250, sse=193371.4, rms=1.154 (2.428%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=1 had to be increased for 25 vertices, nripped=7797 mean border=84.2, 52 (36) missing vertices, mean dist -0.3 [0.6 (%61.7)->0.2 (%38.3))] %53 local maxima, %40 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1381 min Finding expansion regions mean absolute distance = 0.45 +- 0.86 3294 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=c3po., nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=505569.4, rms=3.868 010: dt: 0.5000, sse=306364.0, rms=2.422 (37.387%) 011: dt: 0.5000, sse=279684.2, rms=2.171 (10.333%) rms = 2.1717/2.1715, sse=279841.9/279684.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 012: dt: 0.2500, sse=230331.7, rms=1.558 (28.251%) 013: dt: 0.2500, sse=205577.9, rms=1.131 (27.424%) 014: dt: 0.2500, sse=200270.7, rms=1.015 (10.195%) rms = 0.9879/1.0155, sse=199252.7/200270.7, time step reduction 2 of 3 to 0.125 0 0 1 015: dt: 0.2500, sse=199252.7, rms=0.988 (2.715%) rms = 0.9633/0.9879, sse=198287.9/199252.7, time step reduction 3 of 3 to 0.062 0 0 1 016: dt: 0.1250, sse=198287.9, rms=0.963 (2.489%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 54 vertices, nripped=7797 mean border=87.5, 40 (23) missing vertices, mean dist -0.3 [0.4 (%74.3)->0.2 (%25.7))] %73 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0751 min Finding expansion regions mean absolute distance = 0.37 +- 0.51 2993 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=c3po., nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=562570.6, rms=4.217 017: dt: 0.5000, sse=293391.7, rms=2.321 (44.961%) 018: dt: 0.5000, sse=284244.4, rms=2.227 (4.064%) rms = 2.3312/2.2268, sse=294139.1/284244.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 019: dt: 0.2500, sse=222684.8, rms=1.459 (34.499%) 020: dt: 0.2500, sse=198929.5, rms=1.018 (30.199%) 021: dt: 0.2500, sse=195068.0, rms=0.930 (8.618%) rms = 0.9201/0.9304, sse=194510.4/195067.9, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=194510.4, rms=0.920 (1.102%) rms = 0.8919/0.9201, sse=193133.0/194510.4, time step reduction 3 of 3 to 0.062 0 0 1 023: dt: 0.1250, sse=193133.0, rms=0.892 (3.062%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 70.0000000; outside_low = 57.9810870; outside_hi = 110.9162670; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 77 vertices, nripped=7797 mean border=88.8, 50 (22) missing vertices, mean dist -0.1 [0.3 (%61.6)->0.2 (%38.4))] %81 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0461 min Finding expansion regions mean absolute distance = 0.26 +- 0.37 2810 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=c3po., nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=244780.4, rms=1.840 024: dt: 0.5000, sse=233269.6, rms=1.553 (15.570%) rms = 1.8798/1.5533, sse=249615.7/233269.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 025: dt: 0.2500, sse=197091.1, rms=0.969 (37.594%) 026: dt: 0.2500, sse=186876.1, rms=0.752 (22.435%) 027: dt: 0.2500, sse=183736.6, rms=0.693 (7.821%) rms = 0.7108/0.6931, sse=183563.1/183736.6, time step reduction 2 of 3 to 0.125 0 0 1 RMS increased, rejecting step rms = 0.6857/0.6931, sse=183322.7/183736.6, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=183322.7, rms=0.686 (1.062%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/lh.white #ET# mris_place_surface 2.68 minutes #VMPC# mris_make_surfaces VmPeak 2060320 mris_place_surface done @#@FSTIME 2020:08:24:14:03:41 mris_place_surface N 23 e 166.88 S 0.40 U 166.03 P 99% M 1686304 F 0 R 224376 W 0 c 54 w 388 I 0 O 8264 L 0.97 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:06:28 mris_place_surface N 23 0.99 0.99 1.04 #-------------------------------------------- #@# WhiteSurfs rh Mon Aug 24 14:06:28 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot 7.1.0 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot Reading in input surface ../surf/rh.white.preaparc Not smoothing input surface Area 232996 0.33435 0.11922 0.001444 2.2762 Corner 698988 60.00000 14.31371 0.558792 177.5861 Edge 349494 0.88992 0.19802 0.022568 3.8404 Hinge 349494 10.91390 10.84200 0.000052 178.7993 Reading in aparc ../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) Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 MRIfindBrightNonWM(): 297 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex.label Reading in ripping surface ../surf/rh.white.preaparc Reading in aparc ../label/rh.aparc.annot for ripsurf reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Ripping BG MRISripBasalGanglia(): -2 2 0.5 ripped 315 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 58250: xyz = (4.00621,-12.1277,53.6193) oxyz = (4.00621,-12.1277,53.6193) wxzy = (4.00621,-12.1277,53.6193) pxyz = (0,0,0) n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=2 had to be increased for 79 vertices, nripped=7717 mean border=82.4, 142 (142) missing vertices, mean dist 0.4 [1.9 (%12.8)->0.7 (%87.2))] %46 local maxima, %47 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1880 min Finding expansion regions mean absolute distance = 0.84 +- 1.10 3211 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=c3po., nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, 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 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=1649482.1, rms=8.267 001: dt: 0.5000, sse=691272.4, rms=4.941 (40.236%) 002: dt: 0.5000, sse=388421.8, rms=3.240 (34.423%) 003: dt: 0.5000, sse=314701.7, rms=2.664 (17.776%) 004: dt: 0.5000, sse=288492.6, rms=2.421 (9.132%) rms = 2.4652/2.4208, sse=293745.5/288492.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=230858.5, rms=1.770 (26.878%) 006: dt: 0.2500, sse=206846.4, rms=1.411 (20.286%) 007: dt: 0.2500, sse=201017.8, rms=1.307 (7.361%) rms = 1.2713/1.3072, sse=199359.1/201017.8, time step reduction 2 of 3 to 0.125 0 0 1 008: dt: 0.2500, sse=199359.1, rms=1.271 (2.742%) rms = 1.2423/1.2713, sse=197971.2/199359.1, time step reduction 3 of 3 to 0.062 0 0 1 009: dt: 0.1250, sse=197971.2, rms=1.242 (2.282%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=1 had to be increased for 58 vertices, nripped=7717 mean border=84.8, 116 (69) missing vertices, mean dist -0.3 [0.6 (%61.1)->0.2 (%38.9))] %55 local maxima, %39 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1383 min Finding expansion regions mean absolute distance = 0.46 +- 0.87 3274 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=c3po., nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=501829.0, rms=3.861 010: dt: 0.5000, sse=306907.8, rms=2.438 (36.856%) 011: dt: 0.5000, sse=278062.4, rms=2.157 (11.508%) rms = 2.1389/2.1574, sse=277201.8/278062.5, time step reduction 1 of 3 to 0.250 0 0 1 012: dt: 0.5000, sse=277201.8, rms=2.139 (0.859%) 013: dt: 0.2500, sse=213085.1, rms=1.242 (41.914%) 014: dt: 0.2500, sse=204059.6, rms=1.059 (14.749%) rms = 1.0401/1.0592, sse=203377.9/204059.6, time step reduction 2 of 3 to 0.125 0 0 1 015: dt: 0.2500, sse=203377.9, rms=1.040 (1.797%) rms = 1.0098/1.0401, sse=200127.8/203377.9, time step reduction 3 of 3 to 0.062 0 0 1 016: dt: 0.1250, sse=200127.8, rms=1.010 (2.917%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 59 vertices, nripped=7717 mean border=87.9, 122 (59) missing vertices, mean dist -0.3 [0.4 (%74.0)->0.2 (%26.0))] %74 local maxima, %19 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0744 min Finding expansion regions mean absolute distance = 0.37 +- 0.52 3131 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=c3po., nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=532477.4, rms=4.068 017: dt: 0.5000, sse=291246.5, rms=2.304 (43.373%) 018: dt: 0.5000, sse=280997.8, rms=2.215 (3.858%) rms = 2.2851/2.2150, sse=288783.5/280997.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 019: dt: 0.2500, sse=222852.2, rms=1.486 (32.900%) 020: dt: 0.2500, sse=199958.5, rms=1.064 (28.384%) 021: dt: 0.2500, sse=196449.2, rms=0.979 (7.991%) rms = 0.9663/0.9793, sse=195995.8/196449.2, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=195995.8, rms=0.966 (1.331%) rms = 0.9390/0.9663, sse=196974.5/195995.8, time step reduction 3 of 3 to 0.062 0 1 1 023: dt: 0.1250, sse=196974.5, rms=0.939 (2.830%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 110.9162670; border_low = 71.0000000; outside_low = 58.9810870; outside_hi = 110.9162670; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 89 vertices, nripped=7717 mean border=89.1, 127 (58) missing vertices, mean dist -0.1 [0.3 (%61.2)->0.2 (%38.8))] %82 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0466 min Finding expansion regions mean absolute distance = 0.26 +- 0.37 2880 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=c3po., nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=241117.0, rms=1.772 024: dt: 0.5000, sse=224074.0, rms=1.491 (15.829%) rms = 1.8412/1.4913, sse=246827.1/224074.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 025: dt: 0.2500, sse=194959.0, rms=0.964 (35.366%) 026: dt: 0.2500, sse=187139.3, rms=0.789 (18.170%) 027: dt: 0.2500, sse=184719.1, rms=0.732 (7.192%) rms = 0.7523/0.7321, sse=185213.8/184719.1, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.7251/0.7321, sse=184452.5/184719.1, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=184452.5, rms=0.725 (0.952%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white #ET# mris_place_surface 2.61 minutes #VMPC# mris_make_surfaces VmPeak 2046952 mris_place_surface done @#@FSTIME 2020:08:24:14:06:28 mris_place_surface N 23 e 162.71 S 0.37 U 161.89 P 99% M 1672920 F 0 R 219870 W 0 c 50 w 358 I 0 O 8200 L 0.99 0.99 1.04 @#@FSLOADPOST 2020:08:24:14:09:11 mris_place_surface N 23 1.00 0.99 1.04 #-------------------------------------------- #@# T1PialSurf lh Mon Aug 24 14:09:11 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white 7.1.0 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white Reading in input surface ../surf/lh.white Not smoothing input surface Area 234974 0.33423 0.12951 0.001487 2.6967 Corner 704922 60.00000 15.48736 0.903632 176.3991 Edge 352461 0.89104 0.21386 0.025507 4.4025 Hinge 352461 10.96532 11.02591 0.000098 179.7736 Reading white surface coordinates from ../surf/lh.white Reading repulsion surface coordinates from ../surf/lh.white Reading in aparc ../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 in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 MRIfindBrightNonWM(): 297 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 64.5135 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex+hipamyg.label INFO: rip surface needed but not specified, so using input surface Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 58745: xyz = (-39.5234,-30.7165,38.1591) oxyz = (-39.5234,-30.7165,38.1591) wxzy = (-39.5234,-30.7165,38.1591) pxyz = (-39.5234,-30.7165,38.1591) n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 57.9810870; border_low = 33.9432600; outside_low = 10.0000000; outside_hi = 51.9716300; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=2 had to be increased for 121 vertices, nripped=5455 mean border=55.7, 261 (261) missing vertices, mean dist 1.9 [2.0 (%0.0)->2.5 (%100.0))] %20 local maxima, %52 large gradients and %24 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1444 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=c3po., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, 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 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=25520728.0, rms=33.677 001: dt: 0.5000, sse=18980698.0, rms=29.011 (13.857%) 002: dt: 0.5000, sse=13926164.0, rms=24.809 (14.484%) 003: dt: 0.5000, sse=10218528.0, rms=21.203 (14.536%) 004: dt: 0.5000, sse=7604573.5, rms=18.235 (13.995%) 005: dt: 0.5000, sse=5707040.0, rms=15.734 (13.717%) 006: dt: 0.5000, sse=4166233.8, rms=13.362 (15.077%) 007: dt: 0.5000, sse=2955561.8, rms=11.149 (16.563%) 008: dt: 0.5000, sse=2016439.5, rms=9.066 (18.682%) 009: dt: 0.5000, sse=1392693.0, rms=7.363 (18.787%) 010: dt: 0.5000, sse=1022347.4, rms=6.130 (16.744%) 011: dt: 0.5000, sse=858241.0, rms=5.494 (10.370%) 012: dt: 0.5000, sse=766053.5, rms=5.101 (7.163%) 013: dt: 0.5000, sse=736844.8, rms=4.968 (2.605%) 014: dt: 0.5000, sse=703639.9, rms=4.812 (3.138%) rms = 4.7970/4.8119, sse=701005.2/703639.9, time step reduction 1 of 3 to 0.250 0 0 1 015: dt: 0.5000, sse=701005.1, rms=4.797 (0.310%) 016: dt: 0.2500, sse=448504.4, rms=3.394 (29.249%) 017: dt: 0.2500, sse=395147.2, rms=3.018 (11.089%) 018: dt: 0.2500, sse=382668.5, rms=2.920 (3.226%) 019: dt: 0.2500, sse=375746.6, rms=2.865 (1.875%) rms = 2.8422/2.8655, sse=372963.7/375746.6, time step reduction 2 of 3 to 0.125 0 0 1 020: dt: 0.2500, sse=372963.8, rms=2.842 (0.813%) 021: dt: 0.1250, sse=345681.2, rms=2.614 (8.022%) rms = 2.5809/2.6142, sse=341914.8/345681.2, time step reduction 3 of 3 to 0.062 0 0 1 022: dt: 0.1250, sse=341914.8, rms=2.581 (1.274%) maximum number of reductions reached, breaking from loop positioning took 1.4 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 57.9810870; border_low = 33.9432600; outside_low = 10.0000000; outside_hi = 51.9716300; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=1 had to be increased for 4357 vertices, nripped=5455 mean border=53.9, 850 (69) missing vertices, mean dist 0.1 [0.1 (%46.2)->0.4 (%53.8))] %37 local maxima, %39 large gradients and %19 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0453 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=c3po., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=540363.5, rms=3.754 rms = 3.9449/3.7535, sse=573910.3/540363.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 023: dt: 0.2500, sse=442034.0, rms=3.110 (17.139%) 024: dt: 0.2500, sse=394821.9, rms=2.746 (11.702%) 025: dt: 0.2500, sse=382111.8, rms=2.642 (3.779%) rms = 2.6162/2.6425, sse=379065.8/382111.8, time step reduction 2 of 3 to 0.125 0 0 1 026: dt: 0.2500, sse=379065.8, rms=2.616 (0.995%) 027: dt: 0.1250, sse=365922.5, rms=2.498 (4.524%) rms = 2.4720/2.4978, sse=363110.7/365922.5, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=363110.7, rms=2.472 (1.035%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 57.9810870; border_low = 33.9432600; outside_low = 10.0000000; outside_hi = 51.9716300; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 4933 vertices, nripped=5455 mean border=52.8, 1034 (55) missing vertices, mean dist 0.1 [0.1 (%45.5)->0.3 (%54.5))] %53 local maxima, %23 large gradients and %18 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0256 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=c3po., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=428636.9, rms=2.988 rms = 3.9267/2.9880, sse=574094.3/428636.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 029: dt: 0.2500, sse=375964.3, rms=2.561 (14.293%) 030: dt: 0.2500, sse=369782.3, rms=2.507 (2.088%) rms = 2.4925/2.5074, sse=367831.2/369782.3, time step reduction 2 of 3 to 0.125 0 0 1 031: dt: 0.2500, sse=367831.2, rms=2.493 (0.593%) 032: dt: 0.1250, sse=358650.2, rms=2.407 (3.445%) rms = 2.3940/2.4067, sse=357259.1/358650.2, time step reduction 3 of 3 to 0.062 0 0 1 033: dt: 0.1250, sse=357259.2, rms=2.394 (0.526%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 57.9810870; border_low = 33.9432600; outside_low = 10.0000000; outside_hi = 51.9716300; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=117489 Gdiag_no=-1 vno start=0, stop=117489 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 4231 vertices, nripped=5455 mean border=52.0, 2088 (41) missing vertices, mean dist 0.1 [0.1 (%49.4)->0.2 (%50.6))] %57 local maxima, %18 large gradients and %18 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0162 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=c3po., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=388696.3, rms=2.667 rms = 3.4170/2.6671, sse=490441.0/388696.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=366416.6, rms=2.471 (7.346%) rms = 2.4322/2.4712, sse=361782.7/366416.5, time step reduction 2 of 3 to 0.125 0 0 1 035: dt: 0.2500, sse=361782.7, rms=2.432 (1.576%) 036: dt: 0.1250, sse=354768.6, rms=2.366 (2.737%) rms = 2.3378/2.3656, sse=351695.7/354768.6, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=351695.7, rms=2.338 (1.177%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes Pinning medial wall to white surface Writing output to ../surf/lh.pial.T1 #ET# mris_place_surface 2.77 minutes #VMPC# mris_make_surfaces VmPeak 1415964 mris_place_surface done @#@FSTIME 2020:08:24:14:09:11 mris_place_surface N 26 e 172.58 S 0.30 U 171.81 P 99% M 1041660 F 0 R 185523 W 0 c 155 w 338 I 0 O 8272 L 1.00 0.99 1.04 @#@FSLOADPOST 2020:08:24:14:12:03 mris_place_surface N 26 1.04 1.00 1.04 #-------------------------------------------- #@# T1PialSurf rh Mon Aug 24 14:12:03 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white 7.1.0 7.1.0 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white Reading in input surface ../surf/rh.white Not smoothing input surface Area 232996 0.33659 0.13273 0.000995 2.1995 Corner 698988 60.00000 15.69302 0.197158 178.8795 Edge 349494 0.89452 0.21718 0.035892 3.6093 Hinge 349494 11.05592 11.14374 0.000122 179.7627 Reading white surface coordinates from ../surf/rh.white Reading repulsion surface coordinates from ../surf/rh.white Reading in aparc ../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) Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=20540, wmmin=5, clip=110 MRIfindBrightNonWM(): 297 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 65.0135 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex+hipamyg.label INFO: rip surface needed but not specified, so using input surface Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 58250: xyz = (4.02023,-12.1207,53.6293) oxyz = (4.02023,-12.1207,53.6293) wxzy = (4.02023,-12.1207,53.6293) pxyz = (4.02023,-12.1207,53.6293) n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 58.9810870; border_low = 34.9432600; outside_low = 10.0000000; outside_hi = 52.9716300; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=2 had to be increased for 113 vertices, nripped=5932 mean border=56.4, 205 (205) missing vertices, mean dist 1.9 [0.0 (%0.0)->2.5 (%100.0))] %20 local maxima, %51 large gradients and %24 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1430 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=c3po., nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, 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 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=24609006.0, rms=33.277 001: dt: 0.5000, sse=18390562.0, rms=28.734 (13.652%) 002: dt: 0.5000, sse=13606135.0, rms=24.675 (14.126%) 003: dt: 0.5000, sse=10115281.0, rms=21.228 (13.969%) 004: dt: 0.5000, sse=7645251.5, rms=18.402 (13.313%) 005: dt: 0.5000, sse=5825782.0, rms=16.004 (13.034%) 006: dt: 0.5000, sse=4322737.0, rms=13.708 (14.342%) 007: dt: 0.5000, sse=3120519.8, rms=11.548 (15.760%) 008: dt: 0.5000, sse=2186603.5, rms=9.537 (17.416%) 009: dt: 0.5000, sse=1544900.8, rms=7.861 (17.575%) 010: dt: 0.5000, sse=1138670.0, rms=6.581 (16.281%) 011: dt: 0.5000, sse=926286.1, rms=5.799 (11.885%) 012: dt: 0.5000, sse=805220.4, rms=5.300 (8.607%) 013: dt: 0.5000, sse=748548.5, rms=5.047 (4.758%) 014: dt: 0.5000, sse=705169.9, rms=4.845 (4.019%) 015: dt: 0.5000, sse=689986.2, rms=4.769 (1.552%) 016: dt: 0.5000, sse=671427.4, rms=4.677 (1.934%) rms = 4.6443/4.6772, sse=665271.4/671427.4, time step reduction 1 of 3 to 0.250 0 0 1 017: dt: 0.5000, sse=665271.4, rms=4.644 (0.703%) 018: dt: 0.2500, sse=433788.8, rms=3.300 (28.953%) 019: dt: 0.2500, sse=382043.4, rms=2.919 (11.532%) 020: dt: 0.2500, sse=369881.8, rms=2.820 (3.392%) 021: dt: 0.2500, sse=362638.4, rms=2.761 (2.107%) rms = 2.7404/2.7607, sse=360359.4/362638.4, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=360359.4, rms=2.740 (0.738%) 023: dt: 0.1250, sse=335604.6, rms=2.524 (7.913%) rms = 2.4939/2.5235, sse=332404.3/335604.6, time step reduction 3 of 3 to 0.062 0 0 1 024: dt: 0.1250, sse=332404.3, rms=2.494 (1.173%) maximum number of reductions reached, breaking from loop positioning took 1.5 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 58.9810870; border_low = 34.9432600; outside_low = 10.0000000; outside_hi = 52.9716300; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=1 had to be increased for 4309 vertices, nripped=5932 mean border=54.5, 836 (36) missing vertices, mean dist 0.1 [0.1 (%44.7)->0.4 (%55.3))] %37 local maxima, %38 large gradients and %19 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0450 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=c3po., nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=567982.0, rms=3.919 rms = 3.9079/3.9191, sse=566509.0/567982.0, time step reduction 1 of 3 to 0.250 0 0 1 025: dt: 0.5000, sse=566509.0, rms=3.908 (0.287%) 026: dt: 0.2500, sse=423128.8, rms=2.965 (24.138%) 027: dt: 0.2500, sse=397256.5, rms=2.760 (6.916%) rms = 2.7291/2.7596, sse=393764.6/397256.5, time step reduction 2 of 3 to 0.125 0 0 1 028: dt: 0.2500, sse=393764.6, rms=2.729 (1.105%) 029: dt: 0.1250, sse=367895.2, rms=2.501 (8.369%) rms = 2.4659/2.5007, sse=364119.6/367895.2, time step reduction 3 of 3 to 0.062 0 0 1 030: dt: 0.1250, sse=364119.6, rms=2.466 (1.391%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 58.9810870; border_low = 34.9432600; outside_low = 10.0000000; outside_hi = 52.9716300; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 4888 vertices, nripped=5932 mean border=53.4, 1098 (30) missing vertices, mean dist 0.1 [0.1 (%45.2)->0.3 (%54.8))] %52 local maxima, %23 large gradients and %19 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0255 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=c3po., nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=434961.4, rms=3.027 rms = 3.8954/3.0273, sse=567809.7/434961.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 031: dt: 0.2500, sse=380535.5, rms=2.586 (14.580%) 032: dt: 0.2500, sse=371574.8, rms=2.506 (3.073%) rms = 2.4844/2.5064, sse=368782.3/371574.8, time step reduction 2 of 3 to 0.125 0 0 1 033: dt: 0.2500, sse=368782.2, rms=2.484 (0.878%) 034: dt: 0.1250, sse=359393.6, rms=2.395 (3.593%) rms = 2.3787/2.3952, sse=357645.7/359393.6, time step reduction 3 of 3 to 0.062 0 0 1 035: dt: 0.1250, sse=357645.7, rms=2.379 (0.685%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 95.0837330; border_hi = 58.9810870; border_low = 34.9432600; outside_low = 10.0000000; outside_hi = 52.9716300; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=116500 Gdiag_no=-1 vno start=0, stop=116500 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 4196 vertices, nripped=5932 mean border=52.6, 2067 (27) missing vertices, mean dist 0.1 [0.1 (%49.2)->0.2 (%50.8))] %57 local maxima, %18 large gradients and %18 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0163 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=c3po., nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=385090.9, rms=2.627 rms = 3.3290/2.6271, sse=476957.7/385090.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 036: dt: 0.2500, sse=363666.9, rms=2.433 (7.371%) rms = 2.3937/2.4334, sse=358996.4/363666.9, time step reduction 2 of 3 to 0.125 0 0 1 037: dt: 0.2500, sse=358996.4, rms=2.394 (1.634%) 038: dt: 0.1250, sse=352665.6, rms=2.332 (2.585%) rms = 2.3071/2.3318, sse=349971.1/352665.6, time step reduction 3 of 3 to 0.062 0 0 1 039: dt: 0.1250, sse=349971.1, rms=2.307 (1.059%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes Pinning medial wall to white surface removing intersecting faces 000: 6 intersecting 001: 4 intersecting terminating search with 0 intersecting Writing output to ../surf/rh.pial.T1 #ET# mris_place_surface 2.90 minutes #VMPC# mris_make_surfaces VmPeak 1427536 mris_place_surface done @#@FSTIME 2020:08:24:14:12:04 mris_place_surface N 26 e 180.16 S 0.32 U 179.35 P 99% M 1053248 F 0 R 183726 W 0 c 160 w 390 I 0 O 8200 L 1.04 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:04 mris_place_surface N 26 1.00 1.00 1.04 #@# white curv lh Mon Aug 24 14:15:04 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv insurf ../surf/lh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv @#@FSTIME 2020:08:24:14:15:04 mris_place_surface N 5 e 1.48 S 0.04 U 1.42 P 98% M 163960 F 0 R 25643 W 0 c 3 w 55 I 0 O 920 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:05 mris_place_surface N 5 1.00 1.00 1.04 #@# white area lh Mon Aug 24 14:15:05 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area writing curvature file ../surf/lh.area @#@FSTIME 2020:08:24:14:15:05 mris_place_surface N 3 e 0.66 S 0.05 U 0.60 P 98% M 163668 F 0 R 23898 W 0 c 2 w 51 I 0 O 920 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:06 mris_place_surface N 3 1.00 1.00 1.04 #@# pial curv lh Mon Aug 24 14:15:06 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial insurf ../surf/lh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv.pial @#@FSTIME 2020:08:24:14:15:06 mris_place_surface N 5 e 1.50 S 0.05 U 1.43 P 99% M 163828 F 0 R 25609 W 0 c 5 w 34 I 0 O 920 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:08 mris_place_surface N 5 1.00 1.00 1.04 #@# pial area lh Mon Aug 24 14:15:08 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial writing curvature file ../surf/lh.area.pial @#@FSTIME 2020:08:24:14:15:08 mris_place_surface N 3 e 0.67 S 0.06 U 0.60 P 98% M 163664 F 0 R 25570 W 0 c 3 w 43 I 0 O 920 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:09 mris_place_surface N 3 1.00 1.00 1.04 #@# thickness lh Mon Aug 24 14:15:09 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness 0 of 117489 vertices processed 25000 of 117489 vertices processed 50000 of 117489 vertices processed 75000 of 117489 vertices processed 100000 of 117489 vertices processed 0 of 117489 vertices processed 25000 of 117489 vertices processed 50000 of 117489 vertices processed 75000 of 117489 vertices processed 100000 of 117489 vertices processed thickness calculation complete, 30:230 truncations. 58525 vertices at 0 distance 109965 vertices at 1 distance 47331 vertices at 2 distance 13374 vertices at 3 distance 3844 vertices at 4 distance 1289 vertices at 5 distance 407 vertices at 6 distance 113 vertices at 7 distance 41 vertices at 8 distance 23 vertices at 9 distance 19 vertices at 10 distance 16 vertices at 11 distance 14 vertices at 12 distance 7 vertices at 13 distance 3 vertices at 14 distance 0 vertices at 15 distance 2 vertices at 16 distance 2 vertices at 17 distance 0 vertices at 18 distance 1 vertices at 19 distance 2 vertices at 20 distance writing curvature file ../surf/lh.thickness @#@FSTIME 2020:08:24:14:15:09 mris_place_surface N 6 e 22.33 S 0.04 U 22.22 P 99% M 164616 F 0 R 25299 W 0 c 13 w 46 I 0 O 928 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:31 mris_place_surface N 6 1.00 1.00 1.04 #@# area and vertex vol lh Mon Aug 24 14:15:31 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m lh /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.volume masking with /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Total face volume 184413 Total vertex volume 184237 (mask=0) #@# BRUA84m lh 184237 vertexvol Done @#@FSTIME 2020:08:24:14:15:31 vertexvol N 4 e 1.38 S 0.11 U 1.20 P 95% M 267808 F 0 R 37644 W 0 c 14 w 253 I 976 O 2768 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:33 vertexvol N 4 1.00 1.00 1.04 #@# white curv rh Mon Aug 24 14:15:33 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv insurf ../surf/rh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv @#@FSTIME 2020:08:24:14:15:33 mris_place_surface N 5 e 1.44 S 0.04 U 1.37 P 99% M 162412 F 0 R 25196 W 0 c 3 w 51 I 0 O 912 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:34 mris_place_surface N 5 1.00 1.00 1.04 #@# white area rh Mon Aug 24 14:15:34 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area writing curvature file ../surf/rh.area @#@FSTIME 2020:08:24:14:15:34 mris_place_surface N 3 e 0.66 S 0.05 U 0.59 P 98% M 162360 F 0 R 25183 W 0 c 3 w 48 I 0 O 912 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:35 mris_place_surface N 3 1.00 1.00 1.04 #@# pial curv rh Mon Aug 24 14:15:35 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial insurf ../surf/rh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv.pial @#@FSTIME 2020:08:24:14:15:35 mris_place_surface N 5 e 1.44 S 0.05 U 1.38 P 99% M 162644 F 0 R 24044 W 0 c 3 w 50 I 0 O 912 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:37 mris_place_surface N 5 1.00 1.00 1.04 #@# pial area rh Mon Aug 24 14:15:37 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial writing curvature file ../surf/rh.area.pial @#@FSTIME 2020:08:24:14:15:37 mris_place_surface N 3 e 0.65 S 0.05 U 0.58 P 98% M 162360 F 0 R 24672 W 0 c 2 w 48 I 0 O 912 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:15:37 mris_place_surface N 3 1.00 1.00 1.04 #@# thickness rh Mon Aug 24 14:15:37 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness 0 of 116500 vertices processed 25000 of 116500 vertices processed 50000 of 116500 vertices processed 75000 of 116500 vertices processed 100000 of 116500 vertices processed 0 of 116500 vertices processed 25000 of 116500 vertices processed 50000 of 116500 vertices processed 75000 of 116500 vertices processed 100000 of 116500 vertices processed thickness calculation complete, 93:441 truncations. 56538 vertices at 0 distance 106124 vertices at 1 distance 49509 vertices at 2 distance 14482 vertices at 3 distance 4331 vertices at 4 distance 1328 vertices at 5 distance 435 vertices at 6 distance 114 vertices at 7 distance 45 vertices at 8 distance 14 vertices at 9 distance 17 vertices at 10 distance 21 vertices at 11 distance 6 vertices at 12 distance 7 vertices at 13 distance 9 vertices at 14 distance 5 vertices at 15 distance 5 vertices at 16 distance 4 vertices at 17 distance 4 vertices at 18 distance 0 vertices at 19 distance 2 vertices at 20 distance writing curvature file ../surf/rh.thickness @#@FSTIME 2020:08:24:14:15:37 mris_place_surface N 6 e 22.39 S 0.05 U 22.27 P 99% M 163300 F 0 R 23765 W 0 c 9 w 44 I 0 O 912 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:16:00 mris_place_surface N 6 1.00 1.00 1.04 #@# area and vertex vol rh Mon Aug 24 14:16:00 EDT 2020 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m rh /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.volume masking with /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Total face volume 186974 Total vertex volume 186786 (mask=0) #@# BRUA84m rh 186786 vertexvol Done @#@FSTIME 2020:08:24:14:16:00 vertexvol N 4 e 1.33 S 0.09 U 1.20 P 97% M 265612 F 0 R 38195 W 0 c 12 w 256 I 0 O 2736 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:16:01 vertexvol N 4 1.00 1.00 1.04 #----------------------------------------- #@# Curvature Stats lh Mon Aug 24 14:16:01 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm BRUA84m 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 [ BRUA84m/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 vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 167 ] Gb_filter = 0 WARN: S lookup min: -0.168159 WARN: S explicit min: 0.000000 vertex = 1312 @#@FSTIME 2020:08:24:14:16:01 mris_curvature_stats N 11 e 2.15 S 0.06 U 2.01 P 96% M 161840 F 1 R 24110 W 0 c 5 w 240 I 40 O 7400 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:16:04 mris_curvature_stats N 11 1.00 1.00 1.04 #----------------------------------------- #@# Curvature Stats rh Mon Aug 24 14:16:04 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm BRUA84m 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 [ BRUA84m/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 vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 183 ] Gb_filter = 0 @#@FSTIME 2020:08:24:14:16:04 mris_curvature_stats N 11 e 2.21 S 0.05 U 2.07 P 96% M 160764 F 0 R 24315 W 0 c 3 w 284 I 0 O 7344 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:16:06 mris_curvature_stats N 11 1.00 1.00 1.04 #-------------------------------------------- #@# Cortical ribbon mask Mon Aug 24 14:16:06 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m SUBJECTS_DIR is /autofs/space/bb8_001/ewoks/2/users/recons_7 loading input data... Running hemis serially Processing left hemi computing distance to left white surface computing distance to left pial surface Processing right hemi computing distance to right white surface computing distance to right pial surface hemi masks overlap voxels = 32 writing volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/ribbon.mgz mris_volmask took 3.78 minutes writing ribbon files @#@FSTIME 2020:08:24:14:16:06 mris_volmask N 12 e 226.92 S 0.24 U 226.04 P 99% M 904080 F 1 R 116298 W 0 c 70 w 159 I 792 O 752 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:19:53 mris_volmask N 12 1.02 1.01 1.04 #----------------------------------------- #@# Cortical Parc 2 lh Mon Aug 24 14:19:53 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 BRUA84m lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.1.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.1.0 7.1.0 reading atlas from /usr/local/freesurfer/7.1.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 3.0 using min determinant for regularization = 0.088 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 47 labels changed using aseg relabeling using gibbs priors... 000: 8109 changed, 117489 examined... 001: 1895 changed, 31390 examined... 002: 501 changed, 10023 examined... 003: 205 changed, 2944 examined... 004: 102 changed, 1188 examined... 005: 49 changed, 583 examined... 006: 28 changed, 294 examined... 007: 17 changed, 154 examined... 008: 8 changed, 85 examined... 009: 5 changed, 48 examined... 010: 1 changed, 29 examined... 011: 0 changed, 8 examined... 29 labels changed using aseg 000: 210 total segments, 124 labels (1758 vertices) changed 001: 92 total segments, 6 labels (17 vertices) changed 002: 86 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 43 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 873 vertices marked for relabeling... 873 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 11 seconds. @#@FSTIME 2020:08:24:14:19:53 mris_ca_label N 11 e 11.30 S 0.47 U 10.73 P 99% M 1532048 F 0 R 285988 W 0 c 13 w 117 I 42432 O 1848 L 1.02 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:20:04 mris_ca_label N 11 0.95 1.00 1.04 #----------------------------------------- #@# Cortical Parc 2 rh Mon Aug 24 14:20:04 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 BRUA84m rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.1.0/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.1.0 7.1.0 reading atlas from /usr/local/freesurfer/7.1.0/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.021 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1 labels changed using aseg relabeling using gibbs priors... 000: 8128 changed, 116500 examined... 001: 1848 changed, 31819 examined... 002: 547 changed, 9817 examined... 003: 267 changed, 3253 examined... 004: 115 changed, 1547 examined... 005: 48 changed, 699 examined... 006: 24 changed, 278 examined... 007: 14 changed, 140 examined... 008: 6 changed, 71 examined... 009: 2 changed, 34 examined... 010: 1 changed, 14 examined... 011: 2 changed, 7 examined... 012: 2 changed, 10 examined... 013: 0 changed, 10 examined... 4 labels changed using aseg 000: 236 total segments, 148 labels (2029 vertices) changed 001: 90 total segments, 4 labels (42 vertices) changed 002: 86 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 41 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1022 vertices marked for relabeling... 1022 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 11 seconds. @#@FSTIME 2020:08:24:14:20:04 mris_ca_label N 11 e 11.33 S 0.47 U 10.78 P 99% M 1631424 F 0 R 299572 W 0 c 12 w 115 I 42776 O 1832 L 0.95 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:20:16 mris_ca_label N 11 0.95 1.00 1.04 #----------------------------------------- #@# Cortical Parc 3 lh Mon Aug 24 14:20:16 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 BRUA84m lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.1.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.1.0 7.1.0 reading atlas from /usr/local/freesurfer/7.1.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1275 labels changed using aseg relabeling using gibbs priors... 000: 1797 changed, 117489 examined... 001: 455 changed, 8331 examined... 002: 133 changed, 2551 examined... 003: 72 changed, 784 examined... 004: 33 changed, 405 examined... 005: 19 changed, 182 examined... 006: 7 changed, 99 examined... 007: 8 changed, 44 examined... 008: 7 changed, 48 examined... 009: 3 changed, 39 examined... 010: 4 changed, 21 examined... 011: 7 changed, 28 examined... 012: 6 changed, 35 examined... 013: 2 changed, 33 examined... 014: 2 changed, 13 examined... 015: 1 changed, 14 examined... 016: 2 changed, 6 examined... 017: 1 changed, 13 examined... 018: 1 changed, 7 examined... 019: 1 changed, 7 examined... 020: 1 changed, 7 examined... 021: 1 changed, 7 examined... 022: 0 changed, 7 examined... 333 labels changed using aseg 000: 50 total segments, 17 labels (139 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 572 vertices marked for relabeling... 572 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2020:08:24:14:20:16 mris_ca_label N 11 e 8.45 S 0.23 U 8.14 P 99% M 864944 F 0 R 140366 W 0 c 10 w 103 I 42976 O 1840 L 0.95 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:20:24 mris_ca_label N 11 0.96 1.00 1.04 #----------------------------------------- #@# Cortical Parc 3 rh Mon Aug 24 14:20:24 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 BRUA84m rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.1.0/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.1.0 7.1.0 reading atlas from /usr/local/freesurfer/7.1.0/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.009 0 singular and 325 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1244 labels changed using aseg relabeling using gibbs priors... 000: 1768 changed, 116500 examined... 001: 412 changed, 8381 examined... 002: 129 changed, 2367 examined... 003: 53 changed, 724 examined... 004: 34 changed, 303 examined... 005: 15 changed, 193 examined... 006: 14 changed, 90 examined... 007: 6 changed, 75 examined... 008: 3 changed, 37 examined... 009: 3 changed, 18 examined... 010: 1 changed, 12 examined... 011: 2 changed, 6 examined... 012: 2 changed, 11 examined... 013: 5 changed, 13 examined... 014: 1 changed, 17 examined... 015: 0 changed, 7 examined... 267 labels changed using aseg 000: 44 total segments, 11 labels (120 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 9 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 755 vertices marked for relabeling... 755 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2020:08:24:14:20:25 mris_ca_label N 11 e 8.48 S 0.24 U 8.18 P 99% M 837088 F 0 R 138774 W 0 c 8 w 110 I 42952 O 1824 L 0.96 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:20:33 mris_ca_label N 11 0.96 1.00 1.04 #----------------------------------------- #@# WM/GM Contrast lh Mon Aug 24 14:20:33 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts pctsurfcon --s BRUA84m --lh-only Log file is /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts/pctsurfcon.log Mon Aug 24 14:20:33 EDT 2020 setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts /usr/local/freesurfer/7.1.0/bin/pctsurfcon pctsurfcon 7.1.0 Linux c3po.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.1.0 mri_vol2surf --mov /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166736/lh.wm.mgh --regheader BRUA84m --cortex srcvol = /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz as target reference. -------- original matrix ----------- -0.28713 0.94497 0.15681 -0.00003; -0.95689 -0.27550 -0.09193 0.00003; -0.04367 -0.17645 0.98334 -0.00002; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Reading surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 = 66076 Masking with /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166736/lh.wm.mgh Dim: 117489 1 1 mri_vol2surf --mov /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166736/lh.gm.mgh --projfrac 0.3 --regheader BRUA84m --cortex srcvol = /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz as target reference. -------- original matrix ----------- -0.28713 0.94497 0.15681 -0.00003; -0.95689 -0.27550 -0.09193 0.00003; -0.04367 -0.17645 0.98334 -0.00002; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Reading surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Done reading source surface Reading thickness /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 = 79355 Masking with /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166736/lh.gm.mgh Dim: 117489 1 1 mri_concat /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166736/lh.wm.mgh /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166736/lh.gm.mgh --paired-diff-norm --mul 100 --o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.w-g.pct.mgh mri_segstats --in /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.w-g.pct.mgh --annot BRUA84m lh aparc --sum /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/stats/lh.w-g.pct.stats --snr 7.1.0 cwd cmdline mri_segstats --in /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.w-g.pct.mgh --annot BRUA84m lh aparc --sum /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/stats/lh.w-g.pct.stats --snr sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.w-g.pct.mgh Vertex Area is 0.668455 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 @#@FSTIME 2020:08:24:14:20:33 pctsurfcon N 3 e 2.98 S 0.21 U 2.64 P 95% M 252072 F 4 R 73320 W 0 c 30 w 403 I 2320 O 2952 L 0.96 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:20:36 pctsurfcon N 3 0.97 1.00 1.04 #----------------------------------------- #@# WM/GM Contrast rh Mon Aug 24 14:20:36 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts pctsurfcon --s BRUA84m --rh-only Log file is /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts/pctsurfcon.log Mon Aug 24 14:20:36 EDT 2020 setenv SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 cd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/scripts /usr/local/freesurfer/7.1.0/bin/pctsurfcon pctsurfcon 7.1.0 Linux c3po.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.1.0 mri_vol2surf --mov /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166807/rh.wm.mgh --regheader BRUA84m --cortex srcvol = /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz as target reference. -------- original matrix ----------- -0.28713 0.94497 0.15681 -0.00003; -0.95689 -0.27550 -0.09193 0.00003; -0.04367 -0.17645 0.98334 -0.00002; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Reading surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 = 65934 Masking with /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166807/rh.wm.mgh Dim: 116500 1 1 mri_vol2surf --mov /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166807/rh.gm.mgh --projfrac 0.3 --regheader BRUA84m --cortex srcvol = /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/orig.mgz as target reference. -------- original matrix ----------- -0.28713 0.94497 0.15681 -0.00003; -0.95689 -0.27550 -0.09193 0.00003; -0.04367 -0.17645 0.98334 -0.00002; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Reading surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Done reading source surface Reading thickness /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 = 78712 Masking with /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Writing to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166807/rh.gm.mgh Dim: 116500 1 1 mri_concat /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166807/rh.wm.mgh /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/tmp.pctsurfcon.166807/rh.gm.mgh --paired-diff-norm --mul 100 --o /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.w-g.pct.mgh mri_segstats --in /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.w-g.pct.mgh --annot BRUA84m rh aparc --sum /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/stats/rh.w-g.pct.stats --snr 7.1.0 cwd cmdline mri_segstats --in /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.w-g.pct.mgh --annot BRUA84m rh aparc --sum /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/stats/rh.w-g.pct.stats --snr sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.w-g.pct.mgh Vertex Area is 0.673178 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 @#@FSTIME 2020:08:24:14:20:36 pctsurfcon N 3 e 2.87 S 0.20 U 2.60 P 97% M 250960 F 0 R 72139 W 0 c 32 w 442 I 0 O 2928 L 0.97 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:20:39 pctsurfcon N 3 0.97 1.00 1.04 #----------------------------------------- #@# Relabel Hypointensities Mon Aug 24 14:20:39 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz reading input surface ../surf/lh.white... relabeling lh hypointensities... 2032 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 2106 voxels changed to hypointensity... 4120 hypointense voxels neighboring cortex changed @#@FSTIME 2020:08:24:14:20:39 mri_relabel_hypointensities N 3 e 11.95 S 0.14 U 11.75 P 99% M 477496 F 2 R 51104 W 0 c 15 w 57 I 1328 O 600 L 0.97 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:20:51 mri_relabel_hypointensities N 3 0.97 1.00 1.04 #----------------------------------------- #@# APas-to-ASeg Mon Aug 24 14:20:51 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/ribbon.mgz --threads 1 --lh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label --lh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white --lh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial --rh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label --rh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white --rh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 outvol aseg.mgz 36 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/ribbon.mgz Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Done loading 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 nrelabeled = 98444 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 969536 mri_surf2volseg done @#@FSTIME 2020:08:24:14:20:51 mri_surf2volseg N 20 e 9.95 S 0.14 U 9.73 P 99% M 815756 F 1 R 68611 W 0 c 10 w 103 I 792 O 624 L 0.97 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:21:01 mri_surf2volseg N 20 0.98 1.00 1.04 mri_brainvol_stats BRUA84m ComputeBrainVolumeStats2 VoxelVol=1, KeepCSF=1 #CBVS2 MaskVol 1422896.0 #CBVS2 BrainSegVol 929152.0 #CBVS2 BrainSegVolNotVent 893835.0 #CBVS2 SupraTentVol 817251.0 #CBVS2 SupraTentVolNotVent 781934.0 #CBVS2 lhCtxGM 184548.7 #CBVS2 rhCtxGM 186895.6 #CBVS2 lhCerebralWM 187044.0 #CBVS2 rhCerebralWM 186433.0 #CBVS2 SubCortGMVol 38264.0 #CBVS2 CerebellumVol 111901.0 #CBVS2 CerebellumGMVol 93337.0 #CBVS2 VentChorVol 30956.0 #CBVS2 3rd4th5thCSF 4361.0 #CBVS2 AllCSF 35317.0 #CBVS2 CCVol 2800.0 @#@FSTIME 2020:08:24:14:21:01 mri_brainvol_stats N 1 e 3.52 S 0.09 U 3.33 P 97% M 218328 F 6 R 39611 W 0 c 5 w 73 I 6208 O 8 L 0.98 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:21:05 mri_brainvol_stats N 1 0.98 1.00 1.04 #----------------------------------------- #@# AParc-to-ASeg aparc Mon Aug 24 14:21:05 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_surf2volseg --o aparc+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.aparc.annot 1000 --lh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label --lh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white --lh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial --rh-annot /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.aparc.annot 2000 --rh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label --rh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white --rh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 outvol aparc+aseg.mgz 36 avail.processors, using 1 Loading aseg.mgz Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7498 vertices from lh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 7402 vertices from rh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Done loading 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 nrelabeled = 370172 ndotcheck = 13984 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 953608 mri_surf2volseg done @#@FSTIME 2020:08:24:14:21:05 mri_surf2volseg N 25 e 76.61 S 0.12 U 76.29 P 99% M 799904 F 0 R 66778 W 0 c 30 w 154 I 0 O 728 L 0.98 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:22:22 mri_surf2volseg N 25 0.99 1.00 1.04 #----------------------------------------- #@# AParc-to-ASeg aparc.a2009s Mon Aug 24 14:22:22 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri mri_surf2volseg --o aparc.a2009s+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.aparc.a2009s.annot 11100 --lh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label --lh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white --lh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial --rh-annot /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.aparc.a2009s.annot 12100 --rh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label --rh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white --rh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 outvol aparc.a2009s+aseg.mgz 36 avail.processors, using 1 Loading aseg.mgz Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7498 vertices from lh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2009.txt) reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2009.txt) Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 7402 vertices from rh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2009.txt) reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2009.txt) Done loading 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 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/autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label --lh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white --lh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial --rh-annot /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.aparc.DKTatlas.annot 2000 --rh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label --rh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white --rh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 outvol aparc.DKTatlas+aseg.mgz 36 avail.processors, using 1 Loading aseg.mgz Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7498 vertices from lh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 7402 vertices from rh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Done loading 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 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/autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white --lh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial --rh-annot /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.aparc.annot 4000 --rh-cortex-mask /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label --rh-white /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white --rh-pial /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 outvol wmparc.mgz 36 avail.processors, using 1 Loading aparc+aseg.mgz Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7498 vertices from lh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 7402 vertices from rh hemi Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Done loading 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 nrelabeled = 370677 ndotcheck = 3667 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 953608 mri_surf2volseg done @#@FSTIME 2020:08:24:14:24:51 mri_surf2volseg N 25 e 30.79 S 0.14 U 30.56 P 99% M 799884 F 0 R 69846 W 0 c 14 w 152 I 0 O 808 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:25:22 mri_surf2volseg N 25 1.00 1.00 1.04 mri_segstats --seed 1234 --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 BRUA84m --surf-wm-vol --ctab /usr/local/freesurfer/7.1.0/WMParcStatsLUT.txt --etiv setting seed for random number genererator to 1234 7.1.0 cwd cmdline mri_segstats --seed 1234 --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 BRUA84m --surf-wm-vol --ctab /usr/local/freesurfer/7.1.0/WMParcStatsLUT.txt --etiv sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) Loading mri/wmparc.mgz Getting Brain Volume Statistics 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 @#@FSTIME 2020:08:24:14:25:22 mri_segstats N 24 e 295.87 S 0.15 U 294.99 P 99% M 241748 F 0 R 69261 W 0 c 376 w 71 I 56 O 24 L 1.00 1.00 1.04 @#@FSLOADPOST 2020:08:24:14:30:18 mri_segstats N 24 1.03 1.01 1.04 #----------------------------------------- #@# Parcellation Stats lh Mon Aug 24 14:30:18 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 184413 Total vertex volume 184237 (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) = 1289180 mm^3 (det: 1.511120 ) 1556 1049 2250 2.199 0.382 0.106 0.020 11 1.3 bankssts 913 596 1559 2.307 0.651 0.126 0.022 12 1.0 caudalanteriorcingulate 2469 1637 4311 2.453 0.427 0.121 0.027 21 2.8 caudalmiddlefrontal 1859 1181 2199 1.640 0.550 0.136 0.035 26 2.6 cuneus 637 421 1469 2.829 0.675 0.107 0.026 6 0.5 entorhinal 3998 2759 7913 2.469 0.572 0.129 0.026 48 4.2 fusiform 6359 4377 10885 2.285 0.436 0.125 0.027 71 7.0 inferiorparietal 5057 3519 10439 2.586 0.569 0.124 0.028 61 5.8 inferiortemporal 1209 798 1910 2.271 0.739 0.116 0.026 12 1.3 isthmuscingulate 5255 3426 6522 1.744 0.478 0.142 0.035 74 7.6 lateraloccipital 3562 2493 6546 2.517 0.527 0.137 0.032 45 4.3 lateralorbitofrontal 3591 2421 4379 1.706 0.534 0.130 0.032 45 4.8 lingual 2553 1884 4787 2.357 0.566 0.143 0.033 44 3.5 medialorbitofrontal 4340 2969 8672 2.524 0.500 0.125 0.028 53 4.5 middletemporal 898 565 1587 2.643 0.711 0.092 0.018 5 0.6 parahippocampal 2041 1231 2799 2.082 0.452 0.107 0.023 16 1.8 paracentral 2045 1386 3779 2.440 0.440 0.124 0.026 22 2.2 parsopercularis 879 638 1970 2.528 0.500 0.145 0.035 14 1.1 parsorbitalis 1726 1154 2873 2.261 0.445 0.120 0.028 17 1.8 parstriangularis 1667 1192 1437 1.338 0.267 0.142 0.035 20 2.6 pericalcarine 5605 3550 7363 1.898 0.549 0.110 0.025 51 5.7 postcentral 1592 1119 2811 2.381 0.605 0.144 0.034 25 2.4 posteriorcingulate 5594 3473 8640 2.333 0.497 0.108 0.024 44 5.6 precentral 4878 3276 7344 2.139 0.516 0.125 0.027 52 5.4 precuneus 916 632 1910 2.634 0.739 0.128 0.028 12 1.0 rostralanteriorcingulate 7002 4874 12095 2.252 0.467 0.133 0.030 84 8.4 rostralmiddlefrontal 8979 6114 16985 2.526 0.466 0.123 0.027 87 10.0 superiorfrontal 7712 5073 10964 1.979 0.473 0.115 0.023 74 7.1 superiorparietal 5487 3625 9558 2.420 0.552 0.113 0.024 52 5.8 superiortemporal 5280 3584 9024 2.375 0.448 0.128 0.025 57 5.8 supramarginal 323 263 944 2.760 0.466 0.185 0.050 6 0.7 frontalpole 642 524 2356 3.399 0.450 0.150 0.037 13 0.9 temporalpole 599 336 720 2.088 0.358 0.111 0.029 5 0.6 transversetemporal 2768 1902 5237 2.813 0.769 0.125 0.034 29 4.0 insula @#@FSTIME 2020:08:24:14:30:18 mris_anatomical_stats N 14 e 11.38 S 0.10 U 11.14 P 98% M 416596 F 2 R 49203 W 0 c 8 w 239 I 1960 O 304 L 1.03 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:30:30 mris_anatomical_stats N 14 1.02 1.01 1.04 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 BRUA84m lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 184413 Total vertex volume 184237 (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) = 1289180 mm^3 (det: 1.511120 ) 1556 1000 2250 2.199 0.382 0.113 0.032 18 2.0 bankssts 913 748 1559 2.307 0.651 0.187 0.086 76 3.0 caudalanteriorcingulate 2469 1792 4311 2.453 0.427 0.140 0.031 3682 2.9 caudalmiddlefrontal 1859 1529 2199 1.640 0.550 0.142 0.035 23 2.6 cuneus 637 624 1469 2.829 0.675 0.213 0.060 17 1.9 entorhinal 3998 3595 7913 2.469 0.572 0.155 0.039 90 6.6 fusiform 6359 5191 10885 2.285 0.436 0.135 0.028 106 7.2 inferiorparietal 5057 4480 10439 2.586 0.569 0.150 0.037 176 7.4 inferiortemporal 1209 913 1910 2.271 0.739 0.143 0.040 27 1.9 isthmuscingulate 5255 4254 6522 1.744 0.478 0.149 0.037 103 7.4 lateraloccipital 3562 2811 6546 2.517 0.527 0.148 0.040 120 5.4 lateralorbitofrontal 3591 2947 4379 1.706 0.534 0.142 0.035 56 5.3 lingual 2553 2279 4787 2.357 0.566 0.158 0.037 58 3.9 medialorbitofrontal 4340 3815 8672 2.524 0.500 0.147 0.035 82 6.0 middletemporal 898 682 1587 2.643 0.711 0.143 0.042 16 1.8 parahippocampal 2041 1476 2799 2.082 0.452 0.114 0.023 20 1.9 paracentral 2045 1723 3779 2.440 0.440 0.144 0.033 32 2.6 parsopercularis 879 960 1970 2.528 0.500 0.179 0.040 12 1.4 parsorbitalis 1726 1397 2873 2.261 0.445 0.149 0.031 24 2.3 parstriangularis 1667 1031 1437 1.338 0.267 0.109 0.026 20 1.7 pericalcarine 5605 4267 7363 1.898 0.549 0.118 0.023 60 5.3 postcentral 1592 1280 2811 2.381 0.605 0.157 0.052 51 3.3 posteriorcingulate 5594 3920 8640 2.333 0.497 0.104 0.022 63 4.9 precentral 4878 3582 7344 2.139 0.516 0.136 0.034 85 6.6 precuneus 916 785 1910 2.634 0.739 0.169 0.048 56 2.1 rostralanteriorcingulate 7002 5757 12095 2.252 0.467 0.143 0.031 115 8.5 rostralmiddlefrontal 8979 7175 16985 2.526 0.466 0.136 0.032 171 10.6 superiorfrontal 7712 6020 10964 1.979 0.473 0.128 0.024 103 7.5 superiorparietal 5487 4239 9558 2.420 0.552 0.116 0.025 57 5.3 superiortemporal 5280 3906 9024 2.375 0.448 0.132 0.031 77 6.6 supramarginal 323 420 944 2.760 0.466 0.218 0.043 5 0.6 frontalpole 642 932 2356 3.399 0.450 0.224 0.046 9 1.5 temporalpole 599 380 720 2.088 0.358 0.095 0.022 3 0.5 transversetemporal 2768 1739 5237 2.813 0.769 0.132 0.039 39 4.5 insula @#@FSTIME 2020:08:24:14:30:30 mris_anatomical_stats N 14 e 11.26 S 0.10 U 11.07 P 99% M 416600 F 0 R 48254 W 0 c 11 w 203 I 0 O 296 L 1.02 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:30:41 mris_anatomical_stats N 14 1.02 1.01 1.04 #----------------------------------------- #@# Parcellation Stats rh Mon Aug 24 14:30:41 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 186974 Total vertex volume 186786 (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) = 1289180 mm^3 (det: 1.511120 ) 996 658 1587 2.395 0.388 0.097 0.019 6 0.8 bankssts 908 601 1337 2.077 0.594 0.127 0.021 13 0.8 caudalanteriorcingulate 3515 2283 6278 2.504 0.451 0.111 0.024 27 3.5 caudalmiddlefrontal 1986 1220 2279 1.726 0.486 0.134 0.036 27 3.1 cuneus 722 463 2175 3.053 0.877 0.121 0.030 8 0.8 entorhinal 4379 2969 8760 2.573 0.581 0.123 0.029 52 4.8 fusiform 6947 4802 12844 2.419 0.487 0.128 0.027 86 7.6 inferiorparietal 5078 3494 10085 2.535 0.551 0.119 0.025 58 5.4 inferiortemporal 1093 710 1700 2.179 0.692 0.117 0.029 13 1.1 isthmuscingulate 5955 3894 8384 1.928 0.602 0.135 0.033 78 7.8 lateraloccipital 3265 2402 6603 2.632 0.549 0.151 0.040 44 5.7 lateralorbitofrontal 3502 2252 3991 1.669 0.506 0.132 0.034 53 5.3 lingual 2688 1946 5088 2.366 0.613 0.137 0.033 40 3.4 medialorbitofrontal 4519 3257 9776 2.567 0.519 0.127 0.027 53 4.9 middletemporal 927 561 1429 2.326 0.605 0.092 0.018 7 0.6 parahippocampal 2020 1260 2743 2.049 0.453 0.109 0.023 17 1.9 paracentral 1815 1257 3379 2.397 0.415 0.120 0.026 18 1.8 parsopercularis 979 803 2199 2.431 0.470 0.176 0.045 20 1.8 parsorbitalis 1965 1403 3612 2.258 0.502 0.132 0.029 25 2.2 parstriangularis 1782 1268 1497 1.319 0.277 0.143 0.038 22 3.1 pericalcarine 3781 2514 6181 2.248 0.461 0.113 0.023 35 3.5 postcentral 1466 1031 2550 2.272 0.628 0.142 0.033 20 2.2 posteriorcingulate 6503 4245 8530 1.893 0.562 0.113 0.026 58 6.8 precentral 4790 3223 7374 2.262 0.534 0.129 0.029 54 5.9 precuneus 950 703 2009 2.376 0.701 0.148 0.033 19 1.3 rostralanteriorcingulate 7012 5140 12527 2.247 0.460 0.142 0.032 93 9.9 rostralmiddlefrontal 11874 7725 21419 2.489 0.476 0.117 0.027 106 12.9 superiorfrontal 5496 3646 7898 2.037 0.469 0.122 0.025 56 5.8 superiorparietal 4722 3102 8104 2.417 0.514 0.113 0.024 43 4.9 superiortemporal 3251 2216 5304 2.324 0.452 0.123 0.028 36 3.6 supramarginal 384 339 1120 2.715 0.366 0.216 0.058 13 0.8 frontalpole 725 526 2337 3.419 0.528 0.125 0.031 8 1.0 temporalpole 489 248 585 2.074 0.324 0.108 0.027 5 0.5 transversetemporal 2614 1818 5101 2.914 0.786 0.124 0.033 25 3.5 insula @#@FSTIME 2020:08:24:14:30:41 mris_anatomical_stats N 14 e 11.02 S 0.10 U 10.84 P 99% M 413292 F 0 R 48444 W 0 c 13 w 214 I 0 O 296 L 1.02 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:30:52 mris_anatomical_stats N 14 1.01 1.01 1.04 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 BRUA84m rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 186974 Total vertex volume 186786 (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) = 1289180 mm^3 (det: 1.511120 ) 996 655 1587 2.395 0.388 0.113 0.033 14 1.1 bankssts 908 696 1337 2.077 0.594 0.166 0.049 85 1.3 caudalanteriorcingulate 3515 2703 6278 2.504 0.451 0.116 0.022 36 3.2 caudalmiddlefrontal 1986 1558 2279 1.726 0.486 0.140 0.035 31 2.7 cuneus 722 914 2175 3.053 0.877 0.275 0.073 27 2.8 entorhinal 4379 3823 8760 2.573 0.581 0.143 0.035 77 6.3 fusiform 6947 5816 12844 2.419 0.487 0.138 0.031 90 8.6 inferiorparietal 5078 4442 10085 2.535 0.551 0.139 0.032 96 6.8 inferiortemporal 1093 855 1700 2.179 0.692 0.150 0.046 30 2.0 isthmuscingulate 5955 4786 8384 1.928 0.602 0.140 0.037 150 7.9 lateraloccipital 3265 2656 6603 2.632 0.549 0.166 0.123 156 11.7 lateralorbitofrontal 3502 2723 3991 1.669 0.506 0.131 0.036 65 5.0 lingual 2688 2417 5088 2.366 0.613 0.163 0.040 59 4.2 medialorbitofrontal 4519 4232 9776 2.567 0.519 0.154 0.036 91 6.2 middletemporal 927 699 1429 2.326 0.605 0.119 0.032 9 1.2 parahippocampal 2020 1463 2743 2.049 0.453 0.119 0.022 19 1.8 paracentral 1815 1545 3379 2.397 0.415 0.145 0.030 22 2.4 parsopercularis 979 1075 2199 2.431 0.470 0.189 0.043 24 1.5 parsorbitalis 1965 1779 3612 2.258 0.502 0.156 0.031 29 2.7 parstriangularis 1782 1092 1497 1.319 0.277 0.107 0.028 31 1.7 pericalcarine 3781 2970 6181 2.248 0.461 0.123 0.024 50 3.7 postcentral 1466 1189 2550 2.272 0.628 0.154 0.050 44 2.3 posteriorcingulate 6503 4759 8530 1.893 0.562 0.116 0.025 92 5.7 precentral 4790 3328 7374 2.262 0.534 0.124 0.031 72 5.6 precuneus 950 997 2009 2.376 0.701 0.208 0.054 63 2.0 rostralanteriorcingulate 7012 5909 12527 2.247 0.460 0.154 0.036 120 10.0 rostralmiddlefrontal 11874 9303 21419 2.489 0.476 0.127 0.027 154 12.6 superiorfrontal 5496 4129 7898 2.037 0.469 0.126 0.026 65 5.6 superiorparietal 4722 3565 8104 2.417 0.514 0.123 0.121 558 4.7 superiortemporal 3251 2322 5304 2.324 0.452 0.127 0.032 66 4.0 supramarginal 384 496 1120 2.715 0.366 0.203 0.037 4 0.7 frontalpole 725 848 2337 3.419 0.528 0.144 0.025 5 0.8 temporalpole 489 324 585 2.074 0.324 0.097 0.016 3 0.3 transversetemporal 2614 1649 5101 2.914 0.786 0.135 0.034 55 3.5 insula @#@FSTIME 2020:08:24:14:30:52 mris_anatomical_stats N 14 e 11.01 S 0.09 U 10.83 P 99% M 413288 F 0 R 47330 W 0 c 10 w 207 I 0 O 296 L 1.01 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:31:03 mris_anatomical_stats N 14 1.01 1.01 1.04 #----------------------------------------- #@# Parcellation Stats 2 lh Mon Aug 24 14:31:03 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 184413 Total vertex volume 184237 (mask=0) reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2009.txt) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) 1053 812 1982 2.217 0.506 0.157 0.035 15 1.6 G_and_S_frontomargin 949 669 1461 1.852 0.509 0.137 0.030 13 1.3 G_and_S_occipital_inf 1710 983 2376 2.071 0.494 0.106 0.027 16 1.7 G_and_S_paracentral 1095 737 2147 2.553 0.430 0.136 0.032 13 1.4 G_and_S_subcentral 529 400 1317 2.598 0.447 0.162 0.043 10 0.8 G_and_S_transv_frontopol 1760 1288 3479 2.621 0.546 0.125 0.025 18 1.7 G_and_S_cingul-Ant 1263 854 2134 2.512 0.413 0.116 0.022 9 1.4 G_and_S_cingul-Mid-Ant 1262 864 2085 2.390 0.440 0.122 0.029 13 1.3 G_and_S_cingul-Mid-Post 475 325 1191 2.801 0.507 0.144 0.036 7 0.6 G_cingul-Post-dorsal 274 164 454 2.422 0.695 0.088 0.017 2 0.1 G_cingul-Post-ventral 1672 1054 2097 1.608 0.584 0.131 0.036 26 2.4 G_cuneus 1105 768 2462 2.515 0.409 0.140 0.032 17 1.4 G_front_inf-Opercular 376 253 881 2.521 0.410 0.137 0.033 7 0.5 G_front_inf-Orbital 1030 689 2139 2.409 0.400 0.133 0.034 15 1.2 G_front_inf-Triangul 3742 2545 7911 2.441 0.453 0.142 0.035 55 5.0 G_front_middle 6504 4355 13663 2.585 0.485 0.132 0.031 83 8.2 G_front_sup 512 352 1085 2.948 0.720 0.156 0.048 10 1.0 G_Ins_lg_and_S_cent_ins 516 389 1712 3.673 0.659 0.149 0.047 8 1.2 G_insular_short 1672 1077 2950 2.165 0.463 0.144 0.033 26 2.2 G_occipital_middle 1024 651 1179 1.623 0.341 0.139 0.030 15 1.3 G_occipital_sup 1654 1107 3688 2.599 0.558 0.136 0.030 26 2.1 G_oc-temp_lat-fusifor 2487 1640 3238 1.723 0.562 0.142 0.038 37 3.9 G_oc-temp_med-Lingual 1284 821 2730 2.722 0.693 0.106 0.024 16 1.0 G_oc-temp_med-Parahip 2227 1614 5205 2.596 0.533 0.149 0.041 38 3.0 G_orbital 2293 1592 4712 2.453 0.430 0.134 0.029 31 2.7 G_pariet_inf-Angular 2638 1799 5732 2.557 0.467 0.138 0.030 39 3.2 G_pariet_inf-Supramar 2918 1935 5057 2.155 0.445 0.128 0.027 38 3.2 G_parietal_sup 2175 1274 2937 1.932 0.475 0.108 0.028 23 2.3 G_postcentral 1941 1057 3617 2.639 0.440 0.105 0.025 17 1.8 G_precentral 2532 1708 4766 2.264 0.522 0.130 0.031 34 3.0 G_precuneus 905 669 2233 2.586 0.457 0.150 0.039 18 1.5 G_rectus 536 356 826 2.450 0.872 0.135 0.049 6 1.0 G_subcallosal 455 242 549 2.009 0.357 0.088 0.023 3 0.4 G_temp_sup-G_T_transv 1933 1322 4418 2.665 0.522 0.143 0.036 30 2.8 G_temp_sup-Lateral 657 432 1355 2.956 0.586 0.094 0.018 3 0.6 G_temp_sup-Plan_polar 929 621 1611 2.456 0.396 0.109 0.017 8 0.7 G_temp_sup-Plan_tempo 2673 1867 6680 2.735 0.583 0.135 0.033 41 3.4 G_temporal_inf 2560 1739 6148 2.672 0.512 0.134 0.032 39 3.0 G_temporal_middle 324 217 361 1.931 0.355 0.104 0.022 1 0.3 Lat_Fis-ant-Horizont 305 208 461 2.577 0.453 0.133 0.034 3 0.4 Lat_Fis-ant-Vertical 1051 691 1216 2.112 0.411 0.119 0.025 8 1.2 Lat_Fis-post 1606 983 1790 1.584 0.462 0.136 0.038 23 2.5 Pole_occipital 1408 1113 4520 3.037 0.661 0.154 0.038 21 2.2 Pole_temporal 2032 1458 1864 1.465 0.487 0.141 0.033 22 3.0 S_calcarine 2626 1749 2780 1.795 0.541 0.099 0.018 13 2.1 S_central 1193 792 1509 2.121 0.432 0.104 0.016 6 0.9 S_cingul-Marginalis 407 274 640 2.822 0.393 0.102 0.019 2 0.4 S_circular_insula_ant 1345 882 1825 2.429 0.509 0.088 0.018 6 1.1 S_circular_insula_inf 1558 1010 2020 2.384 0.520 0.104 0.020 7 1.5 S_circular_insula_sup 1242 816 1879 2.364 0.440 0.098 0.018 7 0.9 S_collat_transv_ant 332 225 346 1.661 0.428 0.154 0.038 4 0.5 S_collat_transv_post 1747 1179 2289 2.110 0.410 0.110 0.020 12 1.6 S_front_inf 1205 833 1459 2.012 0.333 0.115 0.020 7 1.1 S_front_middle 2502 1687 3558 2.263 0.395 0.107 0.020 17 2.2 S_front_sup 344 229 452 2.171 0.228 0.084 0.014 1 0.2 S_interm_prim-Jensen 3184 2089 3858 2.015 0.409 0.101 0.018 19 2.4 S_intrapariet_and_P_trans 631 456 644 1.611 0.357 0.139 0.030 7 0.8 S_oc_middle_and_Lunatus 1206 794 1155 1.639 0.368 0.115 0.023 9 1.2 S_oc_sup_and_transversal 596 416 727 2.023 0.533 0.151 0.036 8 0.9 S_occipital_ant 756 517 1037 2.279 0.380 0.112 0.020 5 0.6 S_oc-temp_lat 1852 1286 2427 2.153 0.579 0.107 0.020 12 1.5 S_oc-temp_med_and_Lingual 333 233 392 2.113 0.337 0.125 0.025 2 0.4 S_orbital_lateral 579 406 717 2.157 0.571 0.131 0.026 5 0.6 S_orbital_med-olfact 1322 915 2097 2.429 0.536 0.131 0.026 14 1.5 S_orbital-H_Shaped 2034 1347 2394 1.965 0.479 0.129 0.026 20 2.3 S_parieto_occipital 1010 665 837 1.693 0.592 0.134 0.028 20 1.4 S_pericallosal 3168 2122 4168 2.032 0.441 0.117 0.023 26 3.3 S_postcentral 1265 864 1679 2.217 0.375 0.114 0.020 10 1.1 S_precentral-inf-part 812 541 1109 2.243 0.458 0.099 0.019 4 0.7 S_precentral-sup-part 470 351 583 1.994 0.456 0.130 0.020 5 0.4 S_suborbital 720 509 940 2.131 0.432 0.121 0.022 5 0.7 S_subparietal 1664 1167 2289 2.274 0.440 0.116 0.021 13 1.6 S_temporal_inf 5526 3788 7677 2.189 0.388 0.112 0.021 44 5.1 S_temporal_sup 316 198 334 1.917 0.332 0.114 0.026 3 0.4 S_temporal_transverse @#@FSTIME 2020:08:24:14:31:03 mris_anatomical_stats N 14 e 11.72 S 0.09 U 11.48 P 98% M 416600 F 0 R 48707 W 0 c 12 w 365 I 0 O 632 L 1.01 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:31:15 mris_anatomical_stats N 14 1.01 1.01 1.04 #----------------------------------------- #@# Parcellation Stats 2 rh Mon Aug 24 14:31:15 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m rh white computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 186974 Total vertex volume 186786 (mask=0) reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2009.txt) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) 859 698 1654 2.296 0.442 0.183 0.042 19 1.8 G_and_S_frontomargin 1058 697 1931 2.215 0.735 0.126 0.027 14 1.1 G_and_S_occipital_inf 1200 784 1593 1.830 0.413 0.106 0.023 11 1.1 G_and_S_paracentral 1307 875 2339 2.539 0.396 0.126 0.028 14 1.4 G_and_S_subcentral 1077 836 2321 2.306 0.488 0.151 0.035 17 1.4 G_and_S_transv_frontopol 2837 2024 5228 2.466 0.499 0.133 0.029 35 3.5 G_and_S_cingul-Ant 1674 1077 2603 2.386 0.438 0.122 0.025 16 1.7 G_and_S_cingul-Mid-Ant 1274 886 2165 2.343 0.447 0.135 0.032 13 1.8 G_and_S_cingul-Mid-Post 447 320 1200 2.749 0.422 0.162 0.040 9 0.7 G_cingul-Post-dorsal 229 130 460 2.605 0.668 0.111 0.041 3 0.3 G_cingul-Post-ventral 1959 1206 2230 1.652 0.501 0.134 0.037 27 3.1 G_cuneus 1207 842 2749 2.564 0.386 0.134 0.035 17 1.6 G_front_inf-Opercular 437 329 831 2.187 0.463 0.158 0.039 8 0.7 G_front_inf-Orbital 794 584 1838 2.420 0.523 0.147 0.038 12 1.1 G_front_inf-Triangul 3864 2738 8614 2.514 0.457 0.139 0.034 58 5.0 G_front_middle 7618 4881 15235 2.526 0.516 0.121 0.029 81 9.0 G_front_sup 454 315 1046 3.294 0.835 0.128 0.040 6 0.5 G_Ins_lg_and_S_cent_ins 575 440 1677 3.416 0.652 0.183 0.062 11 1.6 G_insular_short 2362 1651 4747 2.432 0.534 0.147 0.037 40 3.3 G_occipital_middle 1257 771 1620 1.816 0.423 0.124 0.030 18 1.3 G_occipital_sup 1978 1283 4125 2.605 0.546 0.128 0.035 30 2.6 G_oc-temp_lat-fusifor 2225 1418 2703 1.690 0.520 0.137 0.036 32 3.5 G_oc-temp_med-Lingual 1294 803 3122 2.787 0.754 0.117 0.030 15 1.5 G_oc-temp_med-Parahip 2177 1734 5880 2.760 0.505 0.166 0.047 44 4.1 G_orbital 2378 1602 5414 2.638 0.460 0.136 0.032 36 2.9 G_pariet_inf-Angular 1475 1001 2735 2.415 0.405 0.132 0.031 22 1.8 G_pariet_inf-Supramar 1701 1137 3070 2.252 0.419 0.135 0.030 22 2.1 G_parietal_sup 1194 798 2586 2.448 0.390 0.131 0.029 15 1.4 G_postcentral 2345 1446 3084 1.804 0.496 0.111 0.027 24 2.4 G_precentral 2113 1413 4090 2.395 0.479 0.134 0.032 29 2.7 G_precuneus 765 586 1914 2.487 0.496 0.157 0.037 16 1.3 G_rectus 437 279 639 2.411 0.804 0.113 0.038 4 0.5 G_subcallosal 457 229 535 2.031 0.313 0.114 0.027 5 0.4 G_temp_sup-G_T_transv 1472 991 3259 2.545 0.487 0.127 0.031 20 1.8 G_temp_sup-Lateral 819 527 1571 2.883 0.702 0.090 0.017 4 0.6 G_temp_sup-Plan_polar 712 478 1292 2.411 0.467 0.119 0.031 8 0.7 G_temp_sup-Plan_tempo 2589 1780 6180 2.653 0.587 0.126 0.029 36 3.1 G_temporal_inf 2446 1824 6423 2.706 0.510 0.138 0.031 37 3.0 G_temporal_middle 412 276 596 2.160 0.475 0.108 0.016 3 0.3 Lat_Fis-ant-Horizont 280 189 361 2.299 0.322 0.105 0.018 2 0.2 Lat_Fis-ant-Vertical 1183 766 1373 2.115 0.493 0.103 0.020 6 1.1 Lat_Fis-post 2507 1587 3176 1.730 0.569 0.136 0.037 33 3.7 Pole_occipital 1898 1393 5903 3.083 0.656 0.143 0.034 30 2.6 Pole_temporal 1762 1240 1599 1.460 0.565 0.146 0.038 32 3.3 S_calcarine 1884 1259 2064 1.841 0.414 0.113 0.023 15 1.8 S_central 1033 696 1358 2.135 0.375 0.119 0.026 8 1.2 S_cingul-Marginalis 528 357 828 2.568 0.566 0.102 0.020 3 0.5 S_circular_insula_ant 1062 706 1444 2.457 0.693 0.084 0.015 4 0.8 S_circular_insula_inf 1257 850 1620 2.255 0.474 0.112 0.023 7 1.3 S_circular_insula_sup 1344 904 2047 2.442 0.364 0.096 0.015 7 0.9 S_collat_transv_ant 422 290 461 1.692 0.404 0.144 0.034 4 0.6 S_collat_transv_post 1619 1133 2508 2.232 0.456 0.122 0.026 14 1.8 S_front_inf 1640 1164 2086 2.024 0.374 0.123 0.024 13 1.8 S_front_middle 3064 1948 4379 2.398 0.392 0.100 0.018 16 2.6 S_front_sup 328 231 394 2.110 0.363 0.114 0.020 2 0.3 S_interm_prim-Jensen 2110 1414 2617 2.083 0.363 0.108 0.019 14 1.7 S_intrapariet_and_P_trans 824 588 1069 1.918 0.479 0.141 0.028 9 1.0 S_oc_middle_and_Lunatus 1619 1071 1846 1.889 0.444 0.118 0.023 14 1.6 S_oc_sup_and_transversal 717 503 909 1.837 0.422 0.144 0.035 9 1.1 S_occipital_ant 979 695 1564 2.400 0.531 0.117 0.026 7 1.0 S_oc-temp_lat 1815 1220 2276 2.102 0.547 0.096 0.015 10 1.2 S_oc-temp_med_and_Lingual 296 228 505 2.062 0.465 0.153 0.034 5 0.4 S_orbital_lateral 601 439 857 2.214 0.617 0.133 0.027 5 0.7 S_orbital_med-olfact 1215 871 2057 2.537 0.492 0.149 0.036 14 2.0 S_orbital-H_Shaped 1955 1282 2322 2.122 0.593 0.121 0.024 18 2.1 S_parieto_occipital 1378 892 1121 1.670 0.563 0.127 0.025 23 1.4 S_pericallosal 1345 904 1906 2.160 0.440 0.090 0.016 6 1.0 S_postcentral 1875 1241 2728 2.289 0.423 0.107 0.020 12 1.7 S_precentral-inf-part 1426 977 1336 1.567 0.414 0.101 0.020 7 1.3 S_precentral-sup-part 397 290 621 2.301 0.760 0.150 0.026 4 0.5 S_suborbital 927 657 1287 2.129 0.332 0.125 0.025 8 1.1 S_subparietal 1458 1009 1921 2.270 0.427 0.112 0.018 10 1.3 S_temporal_inf 4772 3227 6836 2.343 0.431 0.112 0.021 35 4.5 S_temporal_sup 100 68 106 1.867 0.346 0.154 0.023 1 0.1 S_temporal_transverse @#@FSTIME 2020:08:24:14:31:15 mris_anatomical_stats N 14 e 11.43 S 0.10 U 11.19 P 98% M 413292 F 0 R 48482 W 0 c 12 w 375 I 0 O 632 L 1.01 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:31:27 mris_anatomical_stats N 14 1.01 1.01 1.04 #----------------------------------------- #@# Parcellation Stats 3 lh Mon Aug 24 14:31:27 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 184413 Total vertex volume 184237 (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) = 1289180 mm^3 (det: 1.511120 ) 1530 986 2538 2.423 0.596 0.125 0.024 18 1.7 caudalanteriorcingulate 2623 1744 4547 2.446 0.428 0.121 0.027 22 3.0 caudalmiddlefrontal 2563 1637 3094 1.708 0.553 0.133 0.033 34 3.4 cuneus 580 379 1353 2.828 0.689 0.108 0.027 10 0.4 entorhinal 3711 2539 6918 2.423 0.536 0.126 0.025 44 4.0 fusiform 6542 4491 10887 2.274 0.434 0.126 0.026 71 7.3 inferiorparietal 5111 3570 11141 2.607 0.602 0.126 0.028 63 5.7 inferiortemporal 1189 784 1881 2.288 0.730 0.115 0.026 11 1.3 isthmuscingulate 5215 3387 6438 1.732 0.465 0.142 0.034 74 7.3 lateraloccipital 3962 2828 7641 2.509 0.551 0.146 0.038 57 5.6 lateralorbitofrontal 3657 2474 4426 1.695 0.533 0.130 0.032 45 4.8 lingual 2208 1627 4276 2.346 0.581 0.144 0.035 39 3.2 medialorbitofrontal 5699 3895 10589 2.458 0.516 0.123 0.027 65 6.2 middletemporal 957 603 1683 2.615 0.710 0.092 0.018 5 0.7 parahippocampal 2392 1462 3382 2.124 0.456 0.109 0.023 19 2.2 paracentral 1901 1288 3512 2.467 0.437 0.127 0.026 21 2.1 parsopercularis 892 630 1767 2.419 0.465 0.128 0.028 11 1.0 parsorbitalis 2092 1391 3448 2.256 0.432 0.118 0.026 21 2.1 parstriangularis 1634 1167 1404 1.342 0.270 0.140 0.034 18 2.5 pericalcarine 6443 4110 8387 1.915 0.537 0.113 0.025 61 6.6 postcentral 1740 1217 2996 2.385 0.586 0.142 0.034 27 2.5 posteriorcingulate 5503 3410 8547 2.345 0.495 0.108 0.024 43 5.4 precentral 4750 3209 7369 2.147 0.508 0.124 0.026 51 5.2 precuneus 1407 979 2771 2.615 0.643 0.127 0.025 17 1.4 rostralanteriorcingulate 5019 3486 8649 2.257 0.474 0.133 0.029 60 6.0 rostralmiddlefrontal 9554 6590 18339 2.484 0.485 0.125 0.028 98 10.7 superiorfrontal 6288 4122 9073 1.994 0.476 0.112 0.022 58 5.6 superiorparietal 7180 4866 13458 2.487 0.589 0.117 0.026 71 7.7 superiortemporal 4799 3274 8462 2.388 0.454 0.128 0.026 53 5.4 supramarginal 590 330 713 2.103 0.353 0.111 0.028 5 0.6 transversetemporal 2260 1566 4552 2.936 0.756 0.120 0.030 22 3.0 insula @#@FSTIME 2020:08:24:14:31:27 mris_anatomical_stats N 14 e 11.24 S 0.09 U 11.07 P 99% M 416600 F 0 R 48196 W 0 c 11 w 200 I 0 O 272 L 1.01 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:31:38 mris_anatomical_stats N 14 1.01 1.01 1.04 #----------------------------------------- #@# Parcellation Stats 3 rh Mon Aug 24 14:31:38 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 BRUA84m rh white computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 186974 Total vertex volume 186786 (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) = 1289180 mm^3 (det: 1.511120 ) 964 638 1404 2.082 0.591 0.129 0.021 14 0.8 caudalanteriorcingulate 3708 2420 6475 2.470 0.478 0.114 0.024 29 3.9 caudalmiddlefrontal 2463 1536 2845 1.722 0.468 0.130 0.034 31 3.5 cuneus 639 410 1800 2.970 0.853 0.118 0.029 7 0.7 entorhinal 3947 2671 7315 2.501 0.508 0.120 0.028 46 4.3 fusiform 6930 4803 12822 2.422 0.492 0.129 0.028 86 7.8 inferiorparietal 5454 3753 11499 2.590 0.614 0.121 0.026 62 5.8 inferiortemporal 1058 689 1630 2.178 0.676 0.118 0.028 13 1.1 isthmuscingulate 6009 3933 8409 1.915 0.601 0.136 0.033 80 7.8 lateraloccipital 3556 2697 7717 2.680 0.562 0.161 0.041 60 6.5 lateralorbitofrontal 3455 2227 3930 1.667 0.505 0.131 0.033 52 5.1 lingual 1983 1468 4019 2.418 0.635 0.148 0.034 33 2.8 medialorbitofrontal 5376 3831 11010 2.527 0.503 0.122 0.025 58 5.4 middletemporal 999 608 1541 2.324 0.618 0.094 0.019 8 0.7 parahippocampal 2166 1341 2971 2.064 0.465 0.106 0.023 18 2.0 paracentral 2090 1438 3924 2.394 0.397 0.118 0.026 21 2.1 parsopercularis 905 659 1637 2.254 0.442 0.145 0.036 14 1.2 parsorbitalis 1882 1367 3505 2.273 0.526 0.137 0.030 24 2.3 parstriangularis 1726 1230 1468 1.333 0.300 0.143 0.037 21 3.0 pericalcarine 4162 2771 6908 2.247 0.452 0.114 0.023 39 3.9 postcentral 1544 1085 2680 2.289 0.629 0.141 0.033 21 2.2 posteriorcingulate 6376 4117 8619 1.943 0.567 0.112 0.026 58 6.6 precentral 4853 3271 7588 2.273 0.529 0.130 0.030 56 6.1 precuneus 1236 887 2336 2.330 0.679 0.137 0.030 21 1.6 rostralanteriorcingulate 4756 3502 8462 2.241 0.466 0.143 0.033 63 7.1 rostralmiddlefrontal 14388 9662 26003 2.431 0.497 0.122 0.028 141 16.2 superiorfrontal 4366 2867 6175 2.045 0.467 0.123 0.025 45 4.6 superiorparietal 6231 4132 11938 2.558 0.622 0.115 0.026 58 6.9 superiortemporal 3053 2083 4898 2.311 0.441 0.120 0.028 32 3.4 supramarginal 498 253 598 2.085 0.323 0.113 0.028 5 0.5 transversetemporal 2325 1631 4660 2.934 0.771 0.123 0.031 22 2.8 insula @#@FSTIME 2020:08:24:14:31:38 mris_anatomical_stats N 14 e 11.10 S 0.09 U 10.93 P 99% M 413292 F 0 R 48386 W 0 c 12 w 193 I 0 O 280 L 1.01 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:31:49 mris_anatomical_stats N 14 1.01 1.01 1.04 #-------------------------------------------- #@# ASeg Stats Mon Aug 24 14:31:49 EDT 2020 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m mri_segstats --seed 1234 --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 /usr/local/freesurfer/7.1.0/ASegStatsLUT.txt --subject BRUA84m setting seed for random number genererator to 1234 7.1.0 cwd cmdline mri_segstats --seed 1234 --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 /usr/local/freesurfer/7.1.0/ASegStatsLUT.txt --subject BRUA84m sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) Computing euler number orig.nofix lheno = -8, rheno = -6 orig.nofix lhholes = 5, rhholes = 4 Loading mri/aseg.mgz Getting Brain Volume Statistics 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 @#@FSTIME 2020:08:24:14:31:49 mri_segstats N 32 e 157.65 S 0.12 U 157.14 P 99% M 282044 F 0 R 54680 W 0 c 200 w 77 I 0 O 32 L 1.01 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:27 mri_segstats N 32 1.00 1.01 1.04 /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label #-------------------------------------------- #@# BA_exvivo Labels lh Mon Aug 24 14:34:27 EDT 2020 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA1_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 88 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 4217 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:27 mri_label2label N 12 e 3.77 S 0.12 U 3.53 P 96% M 516636 F 0 R 58893 W 0 c 5 w 155 I 17624 O 256 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:31 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA2_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 254 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 8163 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:31 mri_label2label N 12 e 4.24 S 0.12 U 4.06 P 98% M 517028 F 0 R 59530 W 0 c 6 w 42 I 632 O 488 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:35 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3a_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 11 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 4088 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:35 mri_label2label N 12 e 3.63 S 0.13 U 3.47 P 99% M 516632 F 0 R 57412 W 0 c 5 w 31 I 320 O 200 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:39 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3b_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 80 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 6063 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:39 mri_label2label N 12 e 3.93 S 0.12 U 3.76 P 98% M 516700 F 0 R 58380 W 0 c 5 w 38 I 472 O 320 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:43 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4a_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 26 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 5810 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:43 mri_label2label N 12 e 3.88 S 0.10 U 3.74 P 98% M 516688 F 0 R 59695 W 0 c 5 w 37 I 456 O 296 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:47 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4p_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 12 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 4082 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:47 mri_label2label N 12 e 3.68 S 0.11 U 3.51 P 98% M 516752 F 0 R 58438 W 0 c 5 w 33 I 320 O 208 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:51 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA6_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 107 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 13696 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:51 mri_label2label N 12 e 6.35 S 0.12 U 6.16 P 99% M 517228 F 0 R 58062 W 0 c 5 w 40 I 1056 O 696 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:34:57 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA44_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 57 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 4238 mri_label2label: Done @#@FSTIME 2020:08:24:14:34:57 mri_label2label N 12 e 3.65 S 0.11 U 3.51 P 99% M 516704 F 0 R 58305 W 0 c 6 w 44 I 328 O 232 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:01 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA45_exvivo.label --trgsubject BRUA84m --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 225 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 3647 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:01 mri_label2label N 12 e 3.55 S 0.11 U 3.43 P 99% M 516544 F 0 R 57914 W 0 c 7 w 36 I 272 O 256 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:04 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V1_exvivo.label --trgsubject BRUA84m --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 446 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 5087 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:05 mri_label2label N 12 e 3.71 S 0.12 U 3.57 P 99% M 516652 F 0 R 58963 W 0 c 6 w 37 I 376 O 368 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:08 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V2_exvivo.label --trgsubject BRUA84m --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 814 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 8928 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:08 mri_label2label N 12 e 4.38 S 0.11 U 4.21 P 98% M 516972 F 0 R 58006 W 0 c 5 w 48 I 664 O 632 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:13 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.MT_exvivo.label --trgsubject BRUA84m --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 59 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 2077 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:13 mri_label2label N 12 e 3.46 S 0.13 U 3.29 P 98% M 516616 F 0 R 58209 W 0 c 4 w 32 I 168 O 136 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:16 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject BRUA84m --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 103 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 1393 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:16 mri_label2label N 12 e 3.37 S 0.10 U 3.24 P 99% M 516464 F 0 R 58903 W 0 c 6 w 28 I 120 O 96 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:20 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject BRUA84m --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 56 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1255 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:20 mri_label2label N 12 e 3.35 S 0.11 U 3.22 P 99% M 516536 F 0 R 59110 W 0 c 4 w 27 I 112 O 96 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:23 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG1.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.FG1.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.FG1.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 414 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 414 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 23 Checking for and removing duplicates Writing label file ./lh.FG1.mpm.vpnl.label 437 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:23 mri_label2label N 12 e 3.29 S 0.12 U 3.14 P 99% M 516492 F 0 R 58815 W 0 c 5 w 27 I 40 O 32 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:27 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG2.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.FG2.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.FG2.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 703 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 703 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 40 Checking for and removing duplicates Writing label file ./lh.FG2.mpm.vpnl.label 743 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:27 mri_label2label N 12 e 3.34 S 0.12 U 3.19 P 99% M 516436 F 0 R 58381 W 0 c 4 w 44 I 72 O 56 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:30 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG3.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.FG3.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.FG3.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1873 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1873 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 74 Checking for and removing duplicates Writing label file ./lh.FG3.mpm.vpnl.label 1947 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:30 mri_label2label N 12 e 3.52 S 0.11 U 3.34 P 98% M 516584 F 0 R 58320 W 0 c 6 w 35 I 176 O 136 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:34 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG4.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.FG4.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.FG4.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2101 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2101 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 368 Checking for and removing duplicates Writing label file ./lh.FG4.mpm.vpnl.label 2469 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:34 mri_label2label N 12 e 3.51 S 0.11 U 3.36 P 99% M 516492 F 0 R 58405 W 0 c 4 w 34 I 200 O 208 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:37 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc1.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.hOc1.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.hOc1.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3877 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3877 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 345 Checking for and removing duplicates Writing label file ./lh.hOc1.mpm.vpnl.label 4222 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:37 mri_label2label N 12 e 3.67 S 0.12 U 3.49 P 98% M 516624 F 0 R 58950 W 0 c 6 w 33 I 360 O 312 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:41 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc2.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.hOc2.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.hOc2.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2919 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2919 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 336 Checking for and removing duplicates Writing label file ./lh.hOc2.mpm.vpnl.label 3255 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:41 mri_label2label N 12 e 3.60 S 0.10 U 3.48 P 99% M 516524 F 0 R 58418 W 0 c 7 w 35 I 272 O 240 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:45 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc3v.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.hOc3v.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.hOc3v.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1286 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1286 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 164 Checking for and removing duplicates Writing label file ./lh.hOc3v.mpm.vpnl.label 1450 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:45 mri_label2label N 12 e 3.44 S 0.12 U 3.28 P 99% M 516460 F 0 R 58732 W 0 c 5 w 29 I 128 O 112 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:48 mri_label2label N 12 1.00 1.01 1.04 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc4v.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./lh.hOc4v.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./lh.hOc4v.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1006 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1006 nlabel points Performing mapping from target back to the source label 117489 Number of reverse mapping hits = 130 Checking for and removing duplicates Writing label file ./lh.hOc4v.mpm.vpnl.label 1136 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:48 mri_label2label N 12 e 3.37 S 0.10 U 3.24 P 99% M 516544 F 0 R 60304 W 0 c 6 w 27 I 96 O 88 L 1.00 1.01 1.04 @#@FSLOADPOST 2020:08:24:14:35:52 mri_label2label N 12 1.08 1.03 1.05 mris_label2annot --s BRUA84m --ctab /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt --hemi lh --a mpm.vpnl --maxstatwinner --noverbose --l lh.FG1.mpm.vpnl.label --l lh.FG2.mpm.vpnl.label --l lh.FG3.mpm.vpnl.label --l lh.FG4.mpm.vpnl.label --l lh.hOc1.mpm.vpnl.label --l lh.hOc2.mpm.vpnl.label --l lh.hOc3v.mpm.vpnl.label --l lh.hOc4v.mpm.vpnl.label Reading ctab /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt Number of ctab entries 9 7.1.0 cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label cmdline mris_label2annot --s BRUA84m --ctab /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt --hemi lh --a mpm.vpnl --maxstatwinner --noverbose --l lh.FG1.mpm.vpnl.label --l lh.FG2.mpm.vpnl.label --l lh.FG3.mpm.vpnl.label --l lh.FG4.mpm.vpnl.label --l lh.hOc1.mpm.vpnl.label --l lh.hOc2.mpm.vpnl.label --l lh.hOc3v.mpm.vpnl.label --l lh.hOc4v.mpm.vpnl.label sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 subject BRUA84m hemi lh SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 ColorTable /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.orig 1 1376057 FG1 2 16711935 FG2 3 16711680 FG3 4 1705837 FG4 5 25600 hOc1 6 255 hOc2 7 16776960 hOc3v 8 65535 hOc4v Mapping unhit to unknown Found 104516 unhit vertices Writing annot to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.mpm.vpnl.annot @#@FSTIME 2020:08:24:14:35:52 mris_label2annot N 26 e 0.58 S 0.03 U 0.50 P 94% M 134320 F 0 R 19262 W 0 c 1 w 182 I 8 O 1840 L 1.08 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:35:52 mris_label2annot N 26 1.08 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1032 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:52 mri_label2label N 12 e 3.36 S 0.11 U 3.22 P 99% M 516328 F 0 R 59856 W 0 c 6 w 28 I 96 O 64 L 1.08 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:35:56 mri_label2label N 12 1.08 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 96 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 2188 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:56 mri_label2label N 12 e 3.44 S 0.11 U 3.30 P 99% M 516560 F 0 R 58673 W 0 c 5 w 31 I 192 O 152 L 1.08 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:35:59 mri_label2label N 12 1.07 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 4 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1508 mri_label2label: Done @#@FSTIME 2020:08:24:14:35:59 mri_label2label N 12 e 3.40 S 0.12 U 3.25 P 99% M 516564 F 0 R 59746 W 0 c 6 w 32 I 136 O 80 L 1.07 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:03 mri_label2label N 12 1.07 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 16 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2012 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:03 mri_label2label N 12 e 3.44 S 0.12 U 3.29 P 99% M 516544 F 0 R 58719 W 0 c 8 w 34 I 184 O 104 L 1.07 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:06 mri_label2label N 12 1.06 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 19 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 2338 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:06 mri_label2label N 12 e 3.43 S 0.12 U 3.27 P 98% M 516564 F 0 R 57629 W 0 c 7 w 36 I 208 O 128 L 1.06 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:10 mri_label2label N 12 1.06 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 8 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 1557 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:10 mri_label2label N 12 e 3.38 S 0.11 U 3.24 P 99% M 516528 F 0 R 58832 W 0 c 4 w 28 I 144 O 96 L 1.06 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:13 mri_label2label N 12 1.06 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 20 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 7055 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:13 mri_label2label N 12 e 3.98 S 0.12 U 3.81 P 98% M 516804 F 0 R 59410 W 0 c 5 w 34 I 616 O 336 L 1.06 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:17 mri_label2label N 12 1.05 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 1930 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:17 mri_label2label N 12 e 3.42 S 0.10 U 3.28 P 98% M 516548 F 0 R 58618 W 0 c 9 w 32 I 168 O 112 L 1.05 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:21 mri_label2label N 12 1.05 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 125 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1276 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:21 mri_label2label N 12 e 3.33 S 0.11 U 3.18 P 98% M 516456 F 0 R 58900 W 0 c 4 w 27 I 104 O 96 L 1.05 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:24 mri_label2label N 12 1.05 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 295 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 3700 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:24 mri_label2label N 12 e 3.57 S 0.11 U 3.41 P 98% M 516612 F 0 R 58769 W 0 c 9 w 34 I 304 O 264 L 1.05 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:28 mri_label2label N 12 1.05 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 387 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 3721 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:28 mri_label2label N 12 e 3.54 S 0.11 U 3.41 P 99% M 516532 F 0 R 58429 W 0 c 8 w 38 I 296 O 272 L 1.05 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:31 mri_label2label N 12 1.04 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 9 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 522 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:31 mri_label2label N 12 e 3.26 S 0.10 U 3.14 P 99% M 516432 F 0 R 58373 W 0 c 8 w 30 I 48 O 40 L 1.04 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:35 mri_label2label N 12 1.04 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 488 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:35 mri_label2label N 12 e 3.27 S 0.11 U 3.12 P 99% M 516484 F 0 R 58759 W 0 c 7 w 33 I 48 O 40 L 1.04 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:38 mri_label2label N 12 1.04 1.03 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 117489 Number of reverse mapping hits = 28 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 478 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:38 mri_label2label N 12 e 3.32 S 0.11 U 3.17 P 99% M 516488 F 0 R 58701 W 0 c 6 w 30 I 48 O 40 L 1.04 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:42 mri_label2label N 12 1.04 1.03 1.05 mris_label2annot --s BRUA84m --hemi lh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.perirhinal_exvivo.label --l lh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose Reading ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label cmdline mris_label2annot --s BRUA84m --hemi lh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.perirhinal_exvivo.label --l lh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 subject BRUA84m hemi lh SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 ColorTable /usr/local/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 83789 unhit vertices Writing annot to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.BA_exvivo.annot @#@FSTIME 2020:08:24:14:36:42 mris_label2annot N 38 e 0.61 S 0.04 U 0.53 P 94% M 134760 F 0 R 20043 W 0 c 1 w 225 I 8 O 1840 L 1.04 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:42 mris_label2annot N 38 1.04 1.03 1.05 mris_label2annot --s BRUA84m --hemi lh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose Reading ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label cmdline mris_label2annot --s BRUA84m --hemi lh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 subject BRUA84m hemi lh SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 ColorTable /usr/local/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 97690 unhit vertices Writing annot to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/lh.BA_exvivo.thresh.annot @#@FSTIME 2020:08:24:14:36:42 mris_label2annot N 38 e 0.57 S 0.05 U 0.49 P 95% M 134540 F 0 R 20064 W 0 c 2 w 226 I 0 O 1840 L 1.04 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:43 mris_label2annot N 38 1.04 1.03 1.05 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab BRUA84m lh white computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 184413 Total vertex volume 184237 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/freesurfer/7.1.0/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) 1042 592 1409 1.925 0.467 0.115 0.031 13 1.1 BA1_exvivo 4014 2630 5819 2.099 0.491 0.115 0.023 35 4.1 BA2_exvivo 885 628 885 1.693 0.458 0.134 0.027 7 1.0 BA3a_exvivo 2004 1289 2577 1.836 0.647 0.106 0.025 17 2.2 BA3b_exvivo 1433 798 2121 2.280 0.506 0.102 0.027 12 1.4 BA4a_exvivo 1146 656 1611 2.418 0.446 0.084 0.018 5 0.8 BA4p_exvivo 6993 4526 13062 2.503 0.474 0.114 0.025 59 7.2 BA6_exvivo 1866 1289 3293 2.385 0.391 0.130 0.027 23 2.1 BA44_exvivo 2575 1728 4702 2.351 0.418 0.126 0.029 29 2.9 BA45_exvivo 2888 1932 2875 1.428 0.448 0.137 0.038 38 4.6 V1_exvivo 6165 4006 6989 1.625 0.469 0.140 0.035 86 8.9 V2_exvivo 1410 985 2306 2.043 0.516 0.144 0.033 20 2.0 MT_exvivo 686 487 1515 3.042 0.613 0.118 0.026 5 0.7 perirhinal_exvivo 593 375 1259 2.447 1.211 0.100 0.028 6 0.6 entorhinal_exvivo @#@FSTIME 2020:08:24:14:36:43 mris_anatomical_stats N 12 e 3.41 S 0.11 U 3.26 P 98% M 412732 F 0 R 47742 W 0 c 7 w 141 I 0 O 144 L 1.04 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:46 mris_anatomical_stats N 12 1.03 1.03 1.05 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab BRUA84m lh white computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 184413 Total vertex volume 184237 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/freesurfer/7.1.0/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) 651 341 890 1.985 0.385 0.130 0.043 11 0.9 BA1_exvivo 1647 1095 2151 1.925 0.459 0.113 0.022 14 1.6 BA2_exvivo 752 535 690 1.641 0.408 0.140 0.028 7 1.0 BA3a_exvivo 1179 765 1147 1.433 0.331 0.084 0.016 6 0.9 BA3b_exvivo 1356 770 1961 2.270 0.491 0.093 0.023 8 1.1 BA4a_exvivo 956 550 1287 2.378 0.450 0.084 0.019 4 0.7 BA4p_exvivo 3773 2359 6975 2.523 0.504 0.111 0.025 30 3.9 BA6_exvivo 1187 828 2233 2.455 0.390 0.133 0.027 15 1.3 BA44_exvivo 1084 696 2173 2.444 0.400 0.129 0.032 14 1.3 BA45_exvivo 3039 2045 3100 1.440 0.460 0.136 0.037 39 4.7 V1_exvivo 3167 2052 3543 1.560 0.475 0.149 0.039 51 5.2 V2_exvivo 361 271 698 2.006 0.579 0.149 0.030 5 0.5 MT_exvivo 288 204 571 2.985 0.550 0.121 0.024 2 0.3 perirhinal_exvivo 359 220 871 2.900 0.646 0.072 0.020 2 0.2 entorhinal_exvivo @#@FSTIME 2020:08:24:14:36:46 mris_anatomical_stats N 12 e 3.42 S 0.08 U 3.30 P 98% M 412732 F 0 R 48378 W 0 c 10 w 124 I 0 O 136 L 1.03 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:50 mris_anatomical_stats N 12 1.03 1.03 1.05 #-------------------------------------------- #@# BA_exvivo Labels rh Mon Aug 24 14:36:50 EDT 2020 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA1_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 3 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 3965 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:50 mri_label2label N 12 e 3.68 S 0.13 U 3.45 P 97% M 514444 F 0 R 57576 W 0 c 8 w 106 I 17600 O 152 L 1.03 1.03 1.05 @#@FSLOADPOST 2020:08:24:14:36:54 mri_label2label N 12 1.03 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA2_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 4 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 6691 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:54 mri_label2label N 12 e 3.84 S 0.11 U 3.69 P 99% M 514544 F 0 R 58193 W 0 c 4 w 38 I 520 O 224 L 1.03 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:36:58 mri_label2label N 12 1.03 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3a_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 2 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 3982 mri_label2label: Done @#@FSTIME 2020:08:24:14:36:58 mri_label2label N 12 e 3.56 S 0.11 U 3.43 P 99% M 514516 F 0 R 59424 W 0 c 7 w 34 I 312 O 152 L 1.03 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:01 mri_label2label N 12 1.03 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3b_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 7 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 4529 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:01 mri_label2label N 12 e 3.60 S 0.11 U 3.47 P 99% M 514468 F 0 R 58695 W 0 c 7 w 39 I 352 O 176 L 1.03 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:05 mri_label2label N 12 1.02 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4a_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 48 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 5795 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:05 mri_label2label N 12 e 3.74 S 0.10 U 3.58 P 98% M 514580 F 0 R 59456 W 0 c 9 w 41 I 440 O 280 L 1.02 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:09 mri_label2label N 12 1.02 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4p_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 1 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 4474 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:09 mri_label2label N 12 e 3.61 S 0.11 U 3.48 P 99% M 514468 F 0 R 58870 W 0 c 5 w 37 I 344 O 176 L 1.02 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:12 mri_label2label N 12 1.02 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA6_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 1216 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 13472 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:12 mri_label2label N 12 e 5.50 S 0.10 U 5.34 P 99% M 515004 F 0 R 58559 W 0 c 10 w 67 I 936 O 872 L 1.02 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:18 mri_label2label N 12 1.02 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA44_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 478 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 7390 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:18 mri_label2label N 12 e 3.94 S 0.11 U 3.79 P 99% M 514620 F 0 R 59479 W 0 c 7 w 46 I 528 O 480 L 1.02 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:22 mri_label2label N 12 1.02 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA45_exvivo.label --trgsubject BRUA84m --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 319 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 5674 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:22 mri_label2label N 12 e 3.69 S 0.11 U 3.55 P 99% M 514660 F 0 R 57919 W 0 c 9 w 39 I 416 O 360 L 1.02 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:26 mri_label2label N 12 1.02 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V1_exvivo.label --trgsubject BRUA84m --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 552 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 5279 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:26 mri_label2label N 12 e 3.67 S 0.14 U 3.48 P 98% M 514476 F 0 R 58421 W 0 c 8 w 41 I 376 O 384 L 1.02 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:30 mri_label2label N 12 1.02 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V2_exvivo.label --trgsubject BRUA84m --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 863 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 8879 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:30 mri_label2label N 12 e 4.19 S 0.11 U 4.05 P 99% M 514856 F 0 R 57724 W 0 c 9 w 56 I 640 O 632 L 1.02 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:34 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.MT_exvivo.label --trgsubject BRUA84m --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 379 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 2311 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:34 mri_label2label N 12 e 3.38 S 0.11 U 3.24 P 99% M 514388 F 0 R 59073 W 0 c 6 w 41 I 160 O 184 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:37 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject BRUA84m --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 76 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1114 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:37 mri_label2label N 12 e 3.30 S 0.12 U 3.15 P 99% M 514152 F 0 R 58349 W 0 c 9 w 35 I 96 O 80 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:41 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject BRUA84m --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 51 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 803 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:41 mri_label2label N 12 e 3.24 S 0.11 U 3.10 P 99% M 514256 F 0 R 57835 W 0 c 4 w 29 I 72 O 64 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:44 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG1.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.FG1.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.FG1.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 541 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 541 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 63 Checking for and removing duplicates Writing label file ./rh.FG1.mpm.vpnl.label 604 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:44 mri_label2label N 12 e 3.26 S 0.12 U 3.12 P 99% M 514252 F 0 R 58340 W 0 c 8 w 27 I 56 O 48 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:47 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG2.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.FG2.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.FG2.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 721 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 721 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 164 Checking for and removing duplicates Writing label file ./rh.FG2.mpm.vpnl.label 885 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:47 mri_label2label N 12 e 3.23 S 0.13 U 3.07 P 99% M 514304 F 0 R 58062 W 0 c 5 w 30 I 72 O 72 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:51 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG3.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.FG3.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.FG3.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1523 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1523 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 132 Checking for and removing duplicates Writing label file ./rh.FG3.mpm.vpnl.label 1655 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:51 mri_label2label N 12 e 3.36 S 0.12 U 3.20 P 98% M 514292 F 0 R 58125 W 0 c 14 w 31 I 144 O 128 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:54 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG4.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.FG4.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.FG4.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1586 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1586 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 261 Checking for and removing duplicates Writing label file ./rh.FG4.mpm.vpnl.label 1847 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:54 mri_label2label N 12 e 3.31 S 0.09 U 3.21 P 99% M 514308 F 0 R 58640 W 0 c 7 w 33 I 152 O 160 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:37:57 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc1.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.hOc1.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.hOc1.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3667 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3667 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 419 Checking for and removing duplicates Writing label file ./rh.hOc1.mpm.vpnl.label 4086 mri_label2label: Done @#@FSTIME 2020:08:24:14:37:58 mri_label2label N 12 e 3.53 S 0.12 U 3.39 P 99% M 514440 F 0 R 58812 W 0 c 8 w 35 I 328 O 296 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:01 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc2.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.hOc2.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.hOc2.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2719 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2719 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 334 Checking for and removing duplicates Writing label file ./rh.hOc2.mpm.vpnl.label 3053 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:01 mri_label2label N 12 e 3.49 S 0.12 U 3.36 P 99% M 514348 F 0 R 58239 W 0 c 7 w 31 I 248 O 224 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:05 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc3v.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.hOc3v.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.hOc3v.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1228 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1228 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 131 Checking for and removing duplicates Writing label file ./rh.hOc3v.mpm.vpnl.label 1359 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:05 mri_label2label N 12 e 3.34 S 0.10 U 3.20 P 99% M 514284 F 0 R 58655 W 0 c 4 w 35 I 112 O 104 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:08 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc4v.mpm.vpnl.label --trgsubject BRUA84m --trglabel ./rh.hOc4v.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = BRUA84m trglabel = ./rh.hOc4v.mpm.vpnl.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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1025 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1025 nlabel points Performing mapping from target back to the source label 116500 Number of reverse mapping hits = 103 Checking for and removing duplicates Writing label file ./rh.hOc4v.mpm.vpnl.label 1128 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:08 mri_label2label N 12 e 3.32 S 0.11 U 3.19 P 99% M 514148 F 0 R 59369 W 0 c 7 w 34 I 96 O 88 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:11 mri_label2label N 12 1.01 1.02 1.05 mris_label2annot --s BRUA84m --ctab /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt --hemi rh --a mpm.vpnl --maxstatwinner --noverbose --l rh.FG1.mpm.vpnl.label --l rh.FG2.mpm.vpnl.label --l rh.FG3.mpm.vpnl.label --l rh.FG4.mpm.vpnl.label --l rh.hOc1.mpm.vpnl.label --l rh.hOc2.mpm.vpnl.label --l rh.hOc3v.mpm.vpnl.label --l rh.hOc4v.mpm.vpnl.label Reading ctab /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt Number of ctab entries 9 7.1.0 cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label cmdline mris_label2annot --s BRUA84m --ctab /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt --hemi rh --a mpm.vpnl --maxstatwinner --noverbose --l rh.FG1.mpm.vpnl.label --l rh.FG2.mpm.vpnl.label --l rh.FG3.mpm.vpnl.label --l rh.FG4.mpm.vpnl.label --l rh.hOc1.mpm.vpnl.label --l rh.hOc2.mpm.vpnl.label --l rh.hOc3v.mpm.vpnl.label --l rh.hOc4v.mpm.vpnl.label sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 subject BRUA84m hemi rh SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 ColorTable /usr/local/freesurfer/7.1.0/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.orig 1 1376057 FG1 2 16711935 FG2 3 16711680 FG3 4 1705837 FG4 5 25600 hOc1 6 255 hOc2 7 16776960 hOc3v 8 65535 hOc4v Mapping unhit to unknown Found 103990 unhit vertices Writing annot to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.mpm.vpnl.annot @#@FSTIME 2020:08:24:14:38:12 mris_label2annot N 26 e 0.56 S 0.03 U 0.50 P 95% M 133196 F 0 R 19632 W 0 c 1 w 148 I 0 O 1824 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:12 mris_label2annot N 26 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 0 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 876 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:12 mri_label2label N 12 e 3.31 S 0.12 U 3.14 P 98% M 514328 F 0 R 58115 W 0 c 5 w 34 I 80 O 32 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:15 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 0 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 2688 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:16 mri_label2label N 12 e 3.48 S 0.09 U 3.37 P 99% M 514444 F 0 R 59397 W 0 c 5 w 28 I 240 O 88 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:19 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 0 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1698 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:19 mri_label2label N 12 e 3.37 S 0.13 U 3.22 P 99% M 514388 F 0 R 58358 W 0 c 5 w 28 I 152 O 64 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:23 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 7 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2190 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:23 mri_label2label N 12 e 3.44 S 0.10 U 3.31 P 99% M 514384 F 0 R 58674 W 0 c 5 w 35 I 192 O 88 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:26 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 14 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1402 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:26 mri_label2label N 12 e 3.36 S 0.09 U 3.23 P 99% M 514348 F 0 R 58145 W 0 c 6 w 27 I 120 O 80 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:29 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 1 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1490 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:30 mri_label2label N 12 e 3.37 S 0.14 U 3.20 P 99% M 514356 F 0 R 58619 W 0 c 4 w 40 I 136 O 72 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:33 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 482 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 7441 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:33 mri_label2label N 12 e 4.00 S 0.11 U 3.86 P 99% M 514624 F 0 R 58971 W 0 c 7 w 39 I 592 O 464 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:37 mri_label2label N 12 1.01 1.02 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 63 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1075 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:37 mri_label2label N 12 e 3.33 S 0.13 U 3.16 P 98% M 514268 F 0 R 57643 W 0 c 8 w 33 I 88 O 72 L 1.01 1.02 1.05 @#@FSLOADPOST 2020:08:24:14:38:40 mri_label2label N 12 1.00 1.01 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 67 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1245 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:40 mri_label2label N 12 e 3.34 S 0.10 U 3.20 P 98% M 514340 F 0 R 58252 W 0 c 5 w 32 I 104 O 80 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:38:44 mri_label2label N 12 1.00 1.01 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 360 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 3592 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:44 mri_label2label N 12 e 3.54 S 0.13 U 3.40 P 99% M 514488 F 0 R 58903 W 0 c 8 w 36 I 280 O 264 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:38:47 mri_label2label N 12 1.00 1.01 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 390 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 3827 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:48 mri_label2label N 12 e 3.59 S 0.10 U 3.46 P 99% M 514432 F 0 R 58197 W 0 c 6 w 38 I 296 O 280 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:38:51 mri_label2label N 12 1.00 1.01 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 59 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 327 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:51 mri_label2label N 12 e 3.28 S 0.12 U 3.13 P 99% M 514180 F 0 R 57683 W 0 c 5 w 28 I 24 O 32 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:38:54 mri_label2label N 12 1.00 1.01 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 56 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 750 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:55 mri_label2label N 12 e 3.28 S 0.09 U 3.16 P 99% M 514196 F 0 R 57718 W 0 c 4 w 29 I 64 O 56 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:38:58 mri_label2label N 12 1.00 1.01 1.05 mri_label2label --srcsubject fsaverage --srclabel /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject BRUA84m --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = BRUA84m 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 /autofs/space/bb8_001/ewoks/2/users/recons_7 FREESURFER_HOME /usr/local/freesurfer/7.1.0 Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /autofs/space/bb8_001/ewoks/2/users/recons_7/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white Reading target registration /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 116500 Number of reverse mapping hits = 24 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 315 mri_label2label: Done @#@FSTIME 2020:08:24:14:38:58 mri_label2label N 12 e 3.25 S 0.12 U 3.11 P 99% M 514120 F 0 R 58333 W 0 c 5 w 25 I 32 O 24 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:39:01 mri_label2label N 12 1.00 1.01 1.05 mris_label2annot --s BRUA84m --hemi rh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.perirhinal_exvivo.label --l rh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose Reading ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label cmdline mris_label2annot --s BRUA84m --hemi rh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.perirhinal_exvivo.label --l rh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 subject BRUA84m hemi rh SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 ColorTable /usr/local/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 81666 unhit vertices Writing annot to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.BA_exvivo.annot @#@FSTIME 2020:08:24:14:39:01 mris_label2annot N 38 e 0.59 S 0.04 U 0.52 P 95% M 133936 F 0 R 19783 W 0 c 2 w 228 I 0 O 1824 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:39:02 mris_label2annot N 38 1.00 1.01 1.05 mris_label2annot --s BRUA84m --hemi rh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose Reading ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label cmdline mris_label2annot --s BRUA84m --hemi rh --ctab /usr/local/freesurfer/7.1.0/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname c3po.nmr.mgh.harvard.edu machine x86_64 user yh896 subject BRUA84m hemi rh SUBJECTS_DIR /autofs/space/bb8_001/ewoks/2/users/recons_7 ColorTable /usr/local/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/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 97785 unhit vertices Writing annot to /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/label/rh.BA_exvivo.thresh.annot @#@FSTIME 2020:08:24:14:39:02 mris_label2annot N 38 e 0.57 S 0.05 U 0.49 P 95% M 133488 F 0 R 19101 W 0 c 2 w 197 I 0 O 1824 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:39:03 mris_label2annot N 38 1.00 1.01 1.05 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab BRUA84m rh white computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 186974 Total vertex volume 186786 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/freesurfer/7.1.0/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) 519 346 1065 2.433 0.420 0.131 0.032 6 0.6 BA1_exvivo 1742 1165 3076 2.320 0.476 0.098 0.018 13 1.4 BA2_exvivo 734 502 753 1.851 0.389 0.137 0.034 8 1.0 BA3a_exvivo 1216 828 1702 2.044 0.458 0.110 0.020 10 1.1 BA3b_exvivo 1203 742 1637 1.886 0.443 0.113 0.025 12 1.3 BA4a_exvivo 802 537 903 1.722 0.388 0.102 0.020 6 0.6 BA4p_exvivo 9172 5659 13587 2.186 0.622 0.104 0.024 67 8.9 BA6_exvivo 3584 2410 6550 2.450 0.401 0.122 0.027 37 3.9 BA44_exvivo 3451 2515 6546 2.272 0.476 0.141 0.033 48 4.7 BA45_exvivo 3141 2045 3374 1.539 0.568 0.134 0.039 46 5.3 V1_exvivo 6119 3949 6945 1.672 0.470 0.139 0.035 87 9.2 V2_exvivo 2132 1475 3261 2.102 0.595 0.141 0.032 28 2.9 MT_exvivo 379 267 772 2.748 0.614 0.132 0.023 4 0.4 perirhinal_exvivo 640 408 1998 3.002 0.852 0.099 0.024 4 0.6 entorhinal_exvivo @#@FSTIME 2020:08:24:14:39:03 mris_anatomical_stats N 12 e 3.40 S 0.10 U 3.25 P 98% M 409452 F 0 R 47274 W 0 c 7 w 139 I 0 O 136 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:39:06 mris_anatomical_stats N 12 1.00 1.01 1.05 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab BRUA84m rh white computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/mri/wm.mgz... reading input surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white... reading input pial surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.pial... reading input white surface /autofs/space/bb8_001/ewoks/2/users/recons_7/BRUA84m/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 186974 Total vertex volume 186786 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/freesurfer/7.1.0/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1289180 mm^3 (det: 1.511120 ) 278 189 647 2.510 0.349 0.149 0.039 5 0.3 BA1_exvivo 1011 674 1901 2.376 0.400 0.098 0.020 8 0.8 BA2_exvivo 630 428 607 1.819 0.354 0.146 0.038 7 1.0 BA3a_exvivo 969 644 1347 2.056 0.426 0.109 0.019 7 0.8 BA3b_exvivo 850 500 1093 1.867 0.450 0.115 0.027 9 0.9 BA4a_exvivo 664 446 680 1.650 0.368 0.096 0.016 4 0.4 BA4p_exvivo 5339 3256 7170 2.025 0.609 0.103 0.024 40 5.1 BA6_exvivo 854 613 1804 2.545 0.340 0.127 0.029 10 1.0 BA44_exvivo 925 672 1870 2.331 0.491 0.135 0.031 12 1.1 BA45_exvivo 3001 1964 3116 1.507 0.551 0.134 0.039 45 5.2 V1_exvivo 3211 2049 3512 1.613 0.449 0.147 0.038 50 5.1 V2_exvivo 309 225 413 1.890 0.373 0.176 0.038 6 0.6 MT_exvivo 37 26 54 2.776 0.230 0.169 0.033 1 0.0 perirhinal_exvivo 637 406 1541 2.810 0.683 0.105 0.023 4 0.6 entorhinal_exvivo @#@FSTIME 2020:08:24:14:39:06 mris_anatomical_stats N 12 e 3.42 S 0.09 U 3.29 P 98% M 409452 F 0 R 47827 W 0 c 8 w 129 I 0 O 144 L 1.00 1.01 1.05 @#@FSLOADPOST 2020:08:24:14:39:10 mris_anatomical_stats N 12 1.00 1.01 1.05 Started at Mon Aug 24 09:54:20 EDT 2020 Ended at Mon Aug 24 14:39:10 EDT 2020 #@#%# recon-all-run-time-hours 4.747 recon-all -s BRUA84m finished without error at Mon Aug 24 14:39:10 EDT 2020