Tue Sep 21 11:18:47 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 /usr/local/software/freesurfer/7.1.0/bin/recon-all -s 32004 -i /home/mp2011/rds/rds-p00500_encrypt-URQgmO1brZ0/p00500/ENCRYPT_images/32004/mp2rage/n4mag0000_PSIR_skulled_std.nii -qcache -all subjid 32004 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Actual FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 build-stamp.txt: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize unlimited coredumpsize 0 kbytes memoryuse 12247040 kbytes vmemoryuse unlimited descriptors 1024 memorylocked unlimited maxproc 4096 maxlocks unlimited maxsignal 767357 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 187G 10G 156G 45M 20G 176G Swap: 15G 42M 15G ######################################## 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: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:52-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:53-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:53-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:53-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/09/21-10:18:53-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/09/21-10:18:53-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-183 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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/software/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/software/freesurfer/7.1.0/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 mri_convert /rds/project/rds-URQgmO1brZ0/p00500/ENCRYPT_images/32004/mp2rage/n4mag0000_PSIR_skulled_std.nii /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig/001.mgz mri_convert /rds/project/rds-URQgmO1brZ0/p00500/ENCRYPT_images/32004/mp2rage/n4mag0000_PSIR_skulled_std.nii /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig/001.mgz reading from /rds/project/rds-URQgmO1brZ0/p00500/ENCRYPT_images/32004/mp2rage/n4mag0000_PSIR_skulled_std.nii... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -0, 0) j_ras = (-0, 1, 0) k_ras = (0, -0, 1) writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig/001.mgz... @#@FSTIME 2021:09:21:11:18:53 mri_convert N 2 e 5.23 S 0.25 U 3.92 P 79% M 93500 F 0 R 2804 W 0 c 15 w 2546 I 179208 O 103328 L 6.01 4.97 5.55 @#@FSLOADPOST 2021:09:21:11:18:59 mri_convert N 2 6.57 5.10 5.59 #-------------------------------------------- #@# MotionCor Tue Sep 21 11:19:00 BST 2021 Found 1 runs /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig/001.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 mri_convert /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz --conform mri_convert /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz --conform reading from /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -0, 0) j_ras = (-0, 1, 0) k_ras = (0, -0, 1) changing data type from float to uchar (noscale = 0)... MRIchangeType: Building histogram 0 754631 1000, flo=0, fhi=0.999, dest_type=0 Reslicing using trilinear interpolation writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz... @#@FSTIME 2021:09:21:11:19:04 mri_convert N 3 e 6.31 S 0.06 U 6.22 P 99% M 116484 F 0 R 7403 W 0 c 38 w 16 I 0 O 8952 L 6.84 5.18 5.62 @#@FSLOADPOST 2021:09:21:11:19:10 mri_convert N 3 7.75 5.43 5.69 mri_add_xform_to_header -c /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach.xfm /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz INFO: extension is mgz @#@FSTIME 2021:09:21:11:19:10 mri_add_xform_to_header N 4 e 0.54 S 0.02 U 0.51 P 98% M 19692 F 0 R 1456 W 0 c 2 w 21 I 0 O 8952 L 7.75 5.43 5.69 @#@FSLOADPOST 2021:09:21:11:19:11 mri_add_xform_to_header N 4 7.75 5.43 5.69 #-------------------------------------------- #@# Talairach Tue Sep 21 11:19:11 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri /usr/local/software/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 cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux Tue Sep 21 11:19:11 BST 2021 Found /dev/shm , will use for temp dir tmpdir is /dev/shm/tmp.mri_nu_correct.mni.179809 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o /dev/shm/tmp.mri_nu_correct.mni.179809/nu0.mgz Using shrink factor: 4 mri_convert /dev/shm/tmp.mri_nu_correct.mni.179809/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert /dev/shm/tmp.mri_nu_correct.mni.179809/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from /dev/shm/tmp.mri_nu_correct.mni.179809/nu0.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Tue Sep 21 11:22:26 BST 2021 mri_nu_correct.mni done @#@FSTIME 2021:09:21:11:19:11 mri_nu_correct.mni N 12 e 194.92 S 0.26 U 194.16 P 99% M 486232 F 0 R 64954 W 0 c 224 w 265 I 0 O 8848 L 7.75 5.43 5.69 @#@FSLOADPOST 2021:09:21:11:22:26 mri_nu_correct.mni N 12 13.87 9.69 7.32 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... Started at Tue Sep 21 11:22:26 BST 2021 Ended at Tue Sep 21 11:22:53 BST 2021 talairach_avi done @#@FSTIME 2021:09:21:11:22:26 talairach_avi N 4 e 27.21 S 0.93 U 20.09 P 77% M 253968 F 0 R 38577 W 0 c 77 w 814 I 0 O 295232 L 13.87 9.69 7.32 @#@FSLOADPOST 2021:09:21:11:22:53 talairach_avi N 4 12.47 9.72 7.40 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /usr/local/software/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/software/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 1.11773 -0.10001 -0.05072 -1.03751; 0.09846 1.00595 0.24327 -56.80216; 0.01407 -0.32615 1.21270 -29.45151; 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 Tue Sep 21 11:22:55 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7473, pval=0.6675 >= threshold=0.0050) @#@FSTIME 2021:09:21:11:22:55 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 66% M 2180 F 0 R 648 W 0 c 1 w 14 I 0 O 0 L 12.19 9.71 7.41 @#@FSLOADPOST 2021:09:21:11:22:55 talairach_afd N 4 12.19 9.71 7.41 awk -f /usr/local/software/freesurfer/7.1.0/bin/extract_talairach_avi_QA.awk /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach_avi.log tal_QC_AZS /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach_avi.log TalAviQA: 0.96288 z-score: -3 #-------------------------------------------- #@# Nu Intensity Correction Tue Sep 21 11:22:55 BST 2021 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 --ants-n4 /usr/bin/bc /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri /usr/local/software/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 cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux Tue Sep 21 11:22:55 BST 2021 Found /dev/shm , will use for temp dir tmpdir is /dev/shm/tmp.mri_nu_correct.mni.183372 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz Using shrink factor: 4 mri_binarize --i /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz --min -1 --o /dev/shm/tmp.mri_nu_correct.mni.183372/ones.mgz 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri cmdline mri_binarize --i /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz --min -1 --o /dev/shm/tmp.mri_nu_correct.mni.183372/ones.mgz sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 input /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz frame 0 nErode3d 0 nErode2d 0 output /dev/shm/tmp.mri_nu_correct.mni.183372/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.183372/ones.mgz --i orig.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.183372/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.183372/input.mean.dat 7.1.0 cwd cmdline mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.183372/ones.mgz --i orig.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.183372/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.183372/input.mean.dat sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 whitesurfname white UseRobust 0 Loading /dev/shm/tmp.mri_nu_correct.mni.183372/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.183372/input.mean.dat mri_segstats done mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.183372/ones.mgz --i /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.183372/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.183372/output.mean.dat 7.1.0 cwd cmdline mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.183372/ones.mgz --i /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.183372/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.183372/output.mean.dat sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 whitesurfname white UseRobust 0 Loading /dev/shm/tmp.mri_nu_correct.mni.183372/ones.mgz Loading /dev/shm/tmp.mri_nu_correct.mni.183372/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.183372/output.mean.dat mri_segstats done mris_calc -o /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz mul 1.05904077542500963407 Saving result to '/dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz' (type = MGH ) [ ok ] mri_convert /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz nu.mgz --like orig.mgz mri_convert /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz nu.mgz --like orig.mgz reading from /dev/shm/tmp.mri_nu_correct.mni.183372/nu0.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to nu.mgz... mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz type change took 0 minutes and 6 seconds. mapping (15, 129) to ( 3, 110) Tue Sep 21 11:26:35 BST 2021 mri_nu_correct.mni done @#@FSTIME 2021:09:21:11:22:55 mri_nu_correct.mni N 9 e 219.13 S 0.85 U 217.59 P 99% M 610268 F 0 R 220531 W 0 c 716 w 704 I 0 O 21888 L 12.19 9.71 7.41 @#@FSLOADPOST 2021:09:21:11:26:35 mri_nu_correct.mni N 9 13.49 12.24 8.96 mri_add_xform_to_header -c /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach.xfm nu.mgz nu.mgz INFO: extension is mgz @#@FSTIME 2021:09:21:11:26:35 mri_add_xform_to_header N 4 e 0.49 S 0.01 U 0.46 P 97% M 19780 F 0 R 1491 W 0 c 1 w 44 I 0 O 7712 L 13.49 12.24 8.96 @#@FSLOADPOST 2021:09:21:11:26:35 mri_add_xform_to_header N 4 13.49 12.24 8.96 #-------------------------------------------- #@# Intensity Normalization Tue Sep 21 11:26:35 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 1.11773 -0.10001 -0.05072 -1.03751; 0.09846 1.00595 0.24327 -56.80216; 0.01407 -0.32615 1.21270 -29.45151; 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 = 20 Starting OpenSpline(): npoints = 20 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 76 (76), valley at 0 (0) csf peak at 38, setting threshold to 63 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 77 (77), valley at 0 (0) csf peak at 38, setting threshold to 64 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 1 minutes and 40 seconds. @#@FSTIME 2021:09:21:11:26:35 mri_normalize N 7 e 100.60 S 0.31 U 99.99 P 99% M 578696 F 0 R 24922 W 0 c 417 w 38 I 0 O 7520 L 13.49 12.24 8.96 @#@FSLOADPOST 2021:09:21:11:28:16 mri_normalize N 7 15.02 13.21 9.64 #-------------------------------------------- #@# Skull Stripping Tue Sep 21 11:28:16 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_em_register -skull nu.mgz /usr/local/software/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/software/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=39.0 skull bounding box = (62, 48, 24) --> (184, 183, 228) finding center of left hemi white matter using (103, 93, 126) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 108, using box (88,76,101) --> (117, 109,151) to find MRI wm before smoothing, mri peak at 107 robust fit to distribution - 106 +- 5.0 after smoothing, mri peak at 107, scaling input intensities by 1.009 scaling channel 0 by 1.00935 initial log_p = -4.481 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.483705 @ (0.000, 0.000, 0.000) max log p = -4.374808 @ (5.263, -5.263, -15.789) max log p = -4.312319 @ (-7.895, -2.632, 2.632) max log p = -4.263439 @ (1.316, 1.316, 1.316) max log p = -4.260339 @ (1.974, -0.658, -0.658) max log p = -4.255006 @ (-0.987, 0.987, 0.329) max log p = -4.255006 @ (0.000, 0.000, 0.000) max log p = -4.255006 @ (0.000, 0.000, 0.000) Found translation: (-0.3, -6.3, -12.2): log p = -4.255 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.086, old_max_log_p =-4.255 (thresh=-4.3) 1.05465 -0.03594 0.13412 -18.39388; 0.00000 1.19413 0.31997 -65.88953; -0.13885 -0.27296 1.01871 35.93357; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 54 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.051, old_max_log_p =-4.086 (thresh=-4.1) 0.97555 -0.03324 0.12406 -7.63166; 0.00000 1.19413 0.31997 -65.88953; -0.13885 -0.27296 1.01871 35.93357; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 54 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.051, old_max_log_p =-4.051 (thresh=-4.0) 0.97555 -0.03324 0.12406 -7.63166; 0.00000 1.19413 0.31997 -65.88953; -0.13885 -0.27296 1.01871 35.93357; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 54 seconds. **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.958, old_max_log_p =-4.051 (thresh=-4.0) 0.99751 0.01120 0.10109 -13.75816; -0.02287 1.14250 0.23556 -44.99198; -0.09946 -0.18446 0.98329 26.87758; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 48 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.911, old_max_log_p =-3.958 (thresh=-4.0) 0.99762 -0.02635 0.09434 -7.65213; 0.01316 1.16896 0.21156 -50.22187; -0.09643 -0.14006 0.95362 23.96009; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 49 seconds. **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.911, old_max_log_p =-3.911 (thresh=-3.9) 0.99762 -0.02635 0.09434 -7.65213; 0.01316 1.16896 0.21156 -50.22187; -0.09643 -0.14006 0.95362 23.96009; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 49 seconds. **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.891, old_max_log_p =-3.911 (thresh=-3.9) 0.99490 -0.02508 0.08598 -6.92224; 0.01313 1.16757 0.21144 -50.44658; -0.08769 -0.13995 0.95100 22.68760; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 32 seconds. **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.882, old_max_log_p =-3.891 (thresh=-3.9) 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 30 seconds. **************************************** Nine parameter search. iteration 8 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.882, old_max_log_p =-3.882 (thresh=-3.9) 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 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 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 0.00000 0.00000 0.00000 1.00000; nsamples 3292 Quasinewton: input matrix 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 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: 011: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.882 (old=-4.481) transform before final EM align: 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 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 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 0.00000 0.00000 0.00000 1.00000; nsamples 364986 Quasinewton: input matrix 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 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: 013: -log(p) = 4.3 tol 0.000000 final transform: 0.99380 -0.01552 0.08767 -8.34246; 0.00427 1.16519 0.21825 -49.85220; -0.08790 -0.14967 0.95035 24.16405; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach_with_skull.lta... #VMPC# mri_em_register VmPeak 904424 FSRUNTIME@ mri_em_register 0.2820 hours 1 threads registration took 16 minutes and 55 seconds. @#@FSTIME 2021:09:21:11:28:16 mri_em_register N 4 e 1015.09 S 2.52 U 1009.29 P 99% M 625360 F 0 R 1136271 W 0 c 4630 w 48 I 0 O 16 L 15.02 13.21 9.64 @#@FSLOADPOST 2021:09:21:11:45:11 mri_em_register N 4 16.97 16.70 14.39 mri_watershed -T1 -brain_atlas /usr/local/software/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=124 y=108 z=127 r=80 first estimation of the main basin volume: 2174434 voxels Looking for seedpoints 2 found in the cerebellum 18 found in the rest of the brain global maximum in x=105, y=105, z=94, Imax=255 CSF=16, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 10 percent done. Analyze... main basin size=9604841964 voxels, voxel volume =1.000 = 9604841964 mmm3 = 9604841.472 cm3 done. PostAnalyze...Basin Prior 1282 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=125,y=123, z=115, r=10268 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 45954 RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 3384 LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 2970 RIGHT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 19386 LEFT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 19530 OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=17 , nb = 684 (2) Problem with the least square interpolation in GM_MIN calculation. CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 4, 4, 16, 57 after analyzing : 4, 18, 25, 27 RIGHT_CER before analyzing : 4, 4, 16, 57 after analyzing : 4, 18, 25, 27 LEFT_CER before analyzing : 4, 4, 16, 57 after analyzing : 4, 18, 25, 27 RIGHT_BRAIN before analyzing : 4, 4, 15, 58 after analyzing : 4, 18, 25, 28 LEFT_BRAIN before analyzing : 4, 4, 17, 57 after analyzing : 4, 18, 25, 27 OTHER before analyzing : 17, 46, 87, 108 after analyzing : 17, 73, 87, 81 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...64 iterations *********************VALIDATION********************* curvature mean = -0.012, std = 0.011 curvature mean = 72.318, std = 9.901 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 1.64, sigma = 2.57 after rotation: sse = 1.64, sigma = 2.57 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 1.73, its var is 2.86 before Erosion-Dilatation 0.18% 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...29 iterations mri_strip_skull: done peeling brain Brain Size = 1812000 voxels, voxel volume = 1.000 mm3 = 1812000 mmm3 = 1812.000 cm3 MRImask(): AllowDiffGeom = 1 ****************************** Saving brainmask.auto.mgz done mri_watershed utimesec 15.021021 mri_watershed stimesec 0.499836 mri_watershed ru_maxrss 816100 mri_watershed ru_ixrss 0 mri_watershed ru_idrss 0 mri_watershed ru_isrss 0 mri_watershed ru_minflt 390457 mri_watershed ru_majflt 0 mri_watershed ru_nswap 0 mri_watershed ru_inblock 0 mri_watershed ru_oublock 2960 mri_watershed ru_msgsnd 0 mri_watershed ru_msgrcv 0 mri_watershed ru_nsignals 0 mri_watershed ru_nvcsw 63 mri_watershed ru_nivcsw 110 mri_watershed done @#@FSTIME 2021:09:21:11:45:11 mri_watershed N 6 e 15.64 S 0.54 U 15.02 P 99% M 816100 F 0 R 390482 W 0 c 111 w 64 I 0 O 2960 L 16.97 16.70 14.39 @#@FSLOADPOST 2021:09:21:11:45:27 mri_watershed N 6 17.26 16.77 14.45 cp brainmask.auto.mgz brainmask.mgz #------------------------------------- #@# EM Registration Tue Sep 21 11:45:28 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_em_register -uns 3 -mask brainmask.mgz nu.mgz /usr/local/software/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/software/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=16.0 skull bounding box = (61, 60, 36) --> (194, 194, 211) finding center of left hemi white matter using (105, 105, 124) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (89,89,102) --> (121, 121,145) to find MRI wm before smoothing, mri peak at 107 robust fit to distribution - 106 +- 4.8 after smoothing, mri peak at 106, scaling input intensities by 1.009 scaling channel 0 by 1.00943 initial log_p = -4.115 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.126073 @ (0.000, 0.000, 0.000) max log p = -3.965887 @ (5.263, -5.263, -15.789) max log p = -3.887327 @ (-2.632, 2.632, 2.632) max log p = -3.823785 @ (-3.947, -1.316, -1.316) max log p = -3.788588 @ (3.289, 1.974, 0.658) max log p = -3.788588 @ (0.000, 0.000, 0.000) max log p = -3.788588 @ (0.000, 0.000, 0.000) max log p = -3.788588 @ (0.000, 0.000, 0.000) Found translation: (2.0, -2.0, -13.8): log p = -3.789 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.624, old_max_log_p =-3.789 (thresh=-3.8) 1.06580 -0.03632 0.13553 -17.99726; 0.00000 1.02750 0.27532 -38.13697; -0.12074 -0.23736 0.88584 51.15107; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 39 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.620, old_max_log_p =-3.624 (thresh=-3.6) 1.06580 -0.03632 0.13553 -17.99726; 0.01694 1.12842 0.16914 -40.88130; -0.11970 -0.10121 0.91420 23.56698; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 40 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.620, old_max_log_p =-3.620 (thresh=-3.6) 1.06580 -0.03632 0.13553 -17.99726; 0.01694 1.12842 0.16914 -40.88130; -0.11970 -0.10121 0.91420 23.56698; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 40 seconds. **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.408, old_max_log_p =-3.620 (thresh=-3.6) 1.02812 -0.06510 0.09698 -6.92486; 0.04240 1.07586 0.22329 -44.09908; -0.08458 -0.17913 0.92165 31.48958; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 36 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.404, old_max_log_p =-3.408 (thresh=-3.4) 1.00884 -0.06388 0.09516 -4.41748; 0.04319 1.09603 0.22748 -47.16262; -0.08458 -0.17913 0.92165 31.48958; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 39 seconds. **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.404, old_max_log_p =-3.404 (thresh=-3.4) 1.00884 -0.06388 0.09516 -4.41748; 0.04319 1.09603 0.22748 -47.16262; -0.08458 -0.17913 0.92165 31.48958; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 40 seconds. **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.375, old_max_log_p =-3.404 (thresh=-3.4) 1.00947 -0.04271 0.08399 -5.80489; 0.02580 1.09410 0.23336 -45.39977; -0.06879 -0.18979 0.92441 30.47445; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 27 seconds. **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.371, old_max_log_p =-3.375 (thresh=-3.4) 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 24 seconds. **************************************** Nine parameter search. iteration 8 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.371, old_max_log_p =-3.371 (thresh=-3.4) 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 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 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 0.00000 0.00000 0.00000 1.00000; nsamples 2841 Quasinewton: input matrix 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 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: 011: -log(p) = -0.0 tol 0.000010 Resulting transform: 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.371 (old=-4.115) transform before final EM align: 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 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 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 0.00000 0.00000 0.00000 1.00000; nsamples 315638 Quasinewton: input matrix 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 0.00000 0.00000 0.00000 1.00000; dfp_em_step_func: 012: -log(p) = 3.9 after pass:transform: ( 1.01, -0.04, 0.08, -5.65) ( 0.03, 1.10, 0.23, -45.79) ( -0.07, -0.19, 0.93, 30.30) dfp_em_step_func: 013: -log(p) = 3.9 after pass:transform: ( 1.01, -0.04, 0.08, -5.65) ( 0.03, 1.10, 0.23, -45.79) ( -0.07, -0.19, 0.93, 30.30) dfp_em_step_func: 014: -log(p) = 3.9 after pass:transform: ( 1.01, -0.04, 0.08, -5.65) ( 0.03, 1.10, 0.23, -45.79) ( -0.07, -0.19, 0.93, 30.30) 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 TOLERANCESpass 2 through quasi-newton minimization... 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: 016: -log(p) = 3.9 tol 0.000000 final transform: 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... #VMPC# mri_em_register VmPeak 891864 FSRUNTIME@ mri_em_register 0.2588 hours 1 threads registration took 15 minutes and 32 seconds. @#@FSTIME 2021:09:21:11:45:28 mri_em_register N 7 e 931.66 S 2.33 U 926.52 P 99% M 613992 F 0 R 1082736 W 0 c 3534 w 104 I 0 O 32 L 17.26 16.77 14.45 @#@FSLOADPOST 2021:09:21:12:00:59 mri_em_register N 7 16.18 16.37 15.59 #-------------------------------------- #@# CA Normalize Tue Sep 21 12:01:00 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /usr/local/software/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/software/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=16.0 skull bounding box = (61, 60, 36) --> (194, 194, 211) finding center of left hemi white matter using (105, 105, 124) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (89,89,102) --> (121, 121,145) to find MRI wm before smoothing, mri peak at 107 robust fit to distribution - 106 +- 4.8 after smoothing, mri peak at 106, scaling input intensities by 1.009 scaling channel 0 by 1.00943 using 246437 sample points... INFO: compute sample coordinates transform 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78577; -0.06896 -0.19023 0.92658 30.29879; 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 (123, 62, 36) --> (193, 167, 210) Left_Cerebral_White_Matter: limiting intensities to 97.0 --> 132.0 0 of 119 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (63, 64, 33) --> (130, 167, 209) Right_Cerebral_White_Matter: limiting intensities to 99.0 --> 132.0 0 of 82 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (131, 142, 65) --> (180, 183, 122) finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (87, 142, 60) --> (131, 184, 121) finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 133, 102) --> (145, 195, 133) Brain_Stem: limiting intensities to 91.0 --> 132.0 0 of 13 (0.0%) samples deleted using 214 total control points for intensity normalization... bias field = 0.976 +- 0.064 2 of 214 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 62, 36) --> (193, 167, 210) Left_Cerebral_White_Matter: limiting intensities to 91.0 --> 132.0 0 of 182 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (63, 64, 33) --> (130, 167, 209) Right_Cerebral_White_Matter: limiting intensities to 93.0 --> 132.0 0 of 164 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (131, 142, 65) --> (180, 183, 122) finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (87, 142, 60) --> (131, 184, 121) finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 133, 102) --> (145, 195, 133) Brain_Stem: limiting intensities to 88.0 --> 132.0 1 of 44 (2.3%) samples deleted using 390 total control points for intensity normalization... bias field = 1.006 +- 0.067 0 of 389 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 62, 36) --> (193, 167, 210) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 0 of 269 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (63, 64, 33) --> (130, 167, 209) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 0 of 284 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (131, 142, 65) --> (180, 183, 122) finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (87, 142, 60) --> (131, 184, 121) finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 133, 102) --> (145, 195, 133) Brain_Stem: limiting intensities to 88.0 --> 132.0 15 of 61 (24.6%) samples deleted using 614 total control points for intensity normalization... bias field = 1.017 +- 0.061 1 of 591 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 1 minutes and 10 seconds. @#@FSTIME 2021:09:21:12:01:00 mri_ca_normalize N 8 e 70.49 S 0.64 U 69.59 P 99% M 874548 F 0 R 383098 W 0 c 463 w 73 I 0 O 3896 L 16.18 16.37 15.59 @#@FSLOADPOST 2021:09:21:12:02:10 mri_ca_normalize N 8 17.01 16.52 15.70 #-------------------------------------- #@# CA Reg Tue Sep 21 12:02:10 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_ca_register -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /usr/local/software/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/software/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 0.916231 #FOTS# QuadFit found better minimum quadopt=(dt=165.337,rms=0.846594) vs oldopt=(dt=92.48,rms=0.863021) #GCMRL# 0 dt 165.337287 rms 0.847 7.600% neg 0 invalid 762 tFOTS 16.8000 tGradient 8.3650 tsec 26.5300 #FOTS# QuadFit found better minimum quadopt=(dt=271.742,rms=0.827261) vs oldopt=(dt=369.92,rms=0.829) #GCMRL# 1 dt 271.741615 rms 0.827 2.284% neg 0 invalid 762 tFOTS 16.8750 tGradient 8.3290 tsec 26.4900 #FOTS# QuadFit found better minimum quadopt=(dt=241.065,rms=0.816418) vs oldopt=(dt=369.92,rms=0.818959) #GCMRL# 2 dt 241.065202 rms 0.816 1.311% neg 0 invalid 762 tFOTS 17.6930 tGradient 8.0420 tsec 27.0340 #FOTS# QuadFit found better minimum quadopt=(dt=145.364,rms=0.81111) vs oldopt=(dt=92.48,rms=0.812099) #GCMRL# 3 dt 145.364341 rms 0.811 0.650% neg 0 invalid 762 tFOTS 17.9700 tGradient 8.3010 tsec 27.5670 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.803818) vs oldopt=(dt=369.92,rms=0.804542) #GCMRL# 4 dt 517.888000 rms 0.804 0.899% neg 0 invalid 762 tFOTS 16.8390 tGradient 8.0530 tsec 26.1850 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.800109) vs oldopt=(dt=92.48,rms=0.800403) #GCMRL# 5 dt 129.472000 rms 0.800 0.462% neg 0 invalid 762 tFOTS 17.9570 tGradient 8.4960 tsec 27.8260 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.796336) vs oldopt=(dt=369.92,rms=0.796872) #GCMRL# 6 dt 517.888000 rms 0.796 0.472% neg 0 invalid 762 tFOTS 16.9010 tGradient 7.9300 tsec 26.1390 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.794071) vs oldopt=(dt=92.48,rms=0.794399) #GCMRL# 7 dt 129.472000 rms 0.794 0.284% neg 0 invalid 762 tFOTS 17.8940 tGradient 8.0310 tsec 27.1760 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.791685) vs oldopt=(dt=369.92,rms=0.792158) #GCMRL# 8 dt 517.888000 rms 0.792 0.300% neg 0 invalid 762 tFOTS 18.1170 tGradient 8.2110 tsec 27.6170 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.789991) vs oldopt=(dt=92.48,rms=0.790233) #GCMRL# 9 dt 129.472000 rms 0.790 0.000% neg 0 invalid 762 tFOTS 17.8470 tGradient 8.2660 tsec 27.4430 #GCMRL# 10 dt 129.472000 rms 0.789 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8380 tsec 9.1160 #GCMRL# 11 dt 129.472000 rms 0.788 0.144% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8680 tsec 9.1580 #GCMRL# 12 dt 129.472000 rms 0.786 0.225% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.9850 tsec 9.2760 #GCMRL# 13 dt 129.472000 rms 0.784 0.262% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8750 tsec 9.2360 #GCMRL# 14 dt 129.472000 rms 0.782 0.274% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.0650 tsec 9.3710 #GCMRL# 15 dt 129.472000 rms 0.780 0.256% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.1040 tsec 9.3880 #GCMRL# 16 dt 129.472000 rms 0.779 0.226% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2350 tsec 9.5310 #GCMRL# 17 dt 129.472000 rms 0.777 0.227% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.9720 tsec 9.3070 #GCMRL# 18 dt 129.472000 rms 0.775 0.217% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.9950 tsec 9.3030 #GCMRL# 19 dt 129.472000 rms 0.774 0.199% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.1390 tsec 9.4490 #GCMRL# 20 dt 129.472000 rms 0.772 0.181% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6740 tsec 9.9800 #GCMRL# 21 dt 129.472000 rms 0.771 0.176% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.1470 tsec 9.4660 #GCMRL# 22 dt 129.472000 rms 0.769 0.174% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.0010 tsec 9.3100 #GCMRL# 23 dt 129.472000 rms 0.768 0.151% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6210 tsec 9.9100 #GCMRL# 24 dt 129.472000 rms 0.767 0.139% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.5860 tsec 9.8780 #GCMRL# 25 dt 129.472000 rms 0.766 0.152% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.5470 tsec 9.8740 #GCMRL# 26 dt 129.472000 rms 0.765 0.154% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7850 tsec 10.1080 #GCMRL# 27 dt 129.472000 rms 0.764 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.9380 tsec 10.2250 #GCMRL# 28 dt 129.472000 rms 0.763 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.9500 tsec 10.2920 #FOTS# QuadFit found better minimum quadopt=(dt=1183.74,rms=0.7627) vs oldopt=(dt=1479.68,rms=0.762812) #GCMRL# 29 dt 1183.744000 rms 0.763 0.000% neg 0 invalid 762 tFOTS 18.0990 tGradient 8.8430 tsec 28.2820 #GCAMreg# pass 0 level1 5 level2 1 tsec 497.02 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 0.763542 #FOTS# QuadFit found better minimum quadopt=(dt=32.368,rms=0.762678) vs oldopt=(dt=23.12,rms=0.762691) #GCMRL# 31 dt 32.368000 rms 0.763 0.113% neg 0 invalid 762 tFOTS 19.2200 tGradient 8.9470 tsec 29.4830 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 0.783042 #FOTS# QuadFit found better minimum quadopt=(dt=84.8963,rms=0.777637) vs oldopt=(dt=103.68,rms=0.777869) #GCMRL# 33 dt 84.896287 rms 0.778 0.690% neg 0 invalid 762 tFOTS 18.1580 tGradient 7.0340 tsec 26.5010 #FOTS# QuadFit found better minimum quadopt=(dt=256.955,rms=0.770449) vs oldopt=(dt=103.68,rms=0.772294) #GCMRL# 34 dt 256.955224 rms 0.770 0.924% neg 0 invalid 762 tFOTS 18.1230 tGradient 6.4050 tsec 25.8220 #FOTS# QuadFit found better minimum quadopt=(dt=89.0811,rms=0.767503) vs oldopt=(dt=25.92,rms=0.768117) #GCMRL# 35 dt 89.081081 rms 0.768 0.382% neg 0 invalid 762 tFOTS 18.1530 tGradient 6.2790 tsec 25.7420 #GCMRL# 36 dt 103.680000 rms 0.764 0.463% neg 0 invalid 762 tFOTS 18.0490 tGradient 6.2940 tsec 25.6530 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.762824) vs oldopt=(dt=25.92,rms=0.763091) #GCMRL# 37 dt 36.288000 rms 0.763 0.000% neg 0 invalid 762 tFOTS 17.9590 tGradient 6.8500 tsec 26.1480 #GCMRL# 38 dt 36.288000 rms 0.762 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.6800 tsec 7.9940 #GCMRL# 39 dt 36.288000 rms 0.762 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3870 tsec 7.6800 #GCMRL# 40 dt 36.288000 rms 0.761 0.138% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4600 tsec 7.7790 #GCMRL# 41 dt 36.288000 rms 0.759 0.186% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3320 tsec 7.6510 #GCMRL# 42 dt 36.288000 rms 0.758 0.218% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.5310 tsec 7.8410 #GCMRL# 43 dt 36.288000 rms 0.756 0.204% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.2190 tsec 7.5430 #GCMRL# 44 dt 36.288000 rms 0.755 0.190% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3820 tsec 7.7010 #GCMRL# 45 dt 36.288000 rms 0.753 0.166% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3100 tsec 7.6180 #GCMRL# 46 dt 36.288000 rms 0.752 0.142% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3090 tsec 7.6110 #GCMRL# 47 dt 36.288000 rms 0.751 0.136% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8770 tsec 8.1730 #GCMRL# 48 dt 36.288000 rms 0.750 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4530 tsec 7.7500 #GCMRL# 49 dt 36.288000 rms 0.749 0.110% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4780 tsec 7.8120 #FOTS# QuadFit found better minimum quadopt=(dt=7.776,rms=0.749449) vs oldopt=(dt=6.48,rms=0.749449) #GCMRL# 50 dt 7.776000 rms 0.749 0.000% neg 0 invalid 762 tFOTS 20.1010 tGradient 6.5490 tsec 27.9850 #GCMRL# 51 dt 7.776000 rms 0.749 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.5300 tsec 7.9080 #GCMRL# 52 dt 7.776000 rms 0.749 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.5110 tsec 7.8110 #GCMRL# 53 dt 7.776000 rms 0.749 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.5250 tsec 7.8420 #GCMRL# 54 dt 7.776000 rms 0.749 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4170 tsec 7.7270 #GCMRL# 55 dt 7.776000 rms 0.749 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4840 tsec 7.8040 #GCAMreg# pass 0 level1 4 level2 1 tsec 304.302 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 0.750254 #GCMRL# 57 dt 0.000000 rms 0.749 0.113% neg 0 invalid 762 tFOTS 18.1090 tGradient 6.5640 tsec 25.9760 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 0.792142 #FOTS# QuadFit found better minimum quadopt=(dt=2.8,rms=0.790602) vs oldopt=(dt=2,rms=0.790705) #GCMRL# 59 dt 2.800000 rms 0.791 0.194% neg 0 invalid 762 tFOTS 17.0130 tGradient 5.8030 tsec 24.1090 #FOTS# QuadFit found better minimum quadopt=(dt=0.7,rms=0.790569) vs oldopt=(dt=0.5,rms=0.790581) #GCMRL# 60 dt 0.700000 rms 0.791 0.000% neg 0 invalid 762 tFOTS 16.8670 tGradient 5.5350 tsec 23.7120 #GCMRL# 61 dt 0.700000 rms 0.791 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4640 tsec 6.7370 #GCAMreg# pass 0 level1 3 level2 1 tsec 67.618 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 0.791324 #FOTS# QuadFit found better minimum quadopt=(dt=0.175,rms=0.790565) vs oldopt=(dt=0.125,rms=0.790566) #GCMRL# 63 dt 0.175000 rms 0.791 0.096% neg 0 invalid 762 tFOTS 16.6710 tGradient 5.4380 tsec 23.3780 #FOTS# QuadFit found better minimum quadopt=(dt=0.0375,rms=0.790572) vs oldopt=(dt=0.03125,rms=0.790572) 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 0.895259 #FOTS# QuadFit found better minimum quadopt=(dt=2.95742,rms=0.871494) vs oldopt=(dt=2.88,rms=0.871509) #GCMRL# 65 dt 2.957416 rms 0.871 2.655% neg 0 invalid 762 tFOTS 15.8010 tGradient 4.5540 tsec 21.5460 #FOTS# QuadFit found better minimum quadopt=(dt=3.37533,rms=0.86316) vs oldopt=(dt=2.88,rms=0.863331) #GCMRL# 66 dt 3.375328 rms 0.863 0.956% neg 0 invalid 762 tFOTS 15.4640 tGradient 4.5060 tsec 21.1480 #FOTS# QuadFit found better minimum quadopt=(dt=3.11854,rms=0.857175) vs oldopt=(dt=2.88,rms=0.857204) #GCMRL# 67 dt 3.118541 rms 0.857 0.693% neg 0 invalid 762 tFOTS 15.4400 tGradient 4.7510 tsec 21.3750 #FOTS# QuadFit found better minimum quadopt=(dt=1.82336,rms=0.854829) vs oldopt=(dt=2.88,rms=0.855578) #GCMRL# 68 dt 1.823362 rms 0.855 0.274% neg 0 invalid 762 tFOTS 15.4300 tGradient 4.4850 tsec 21.1080 #FOTS# QuadFit found better minimum quadopt=(dt=6.51852,rms=0.850558) vs oldopt=(dt=2.88,rms=0.851785) #GCMRL# 69 dt 6.518519 rms 0.851 0.500% neg 0 invalid 762 tFOTS 16.3680 tGradient 4.3210 tsec 21.8710 #FOTS# QuadFit found better minimum quadopt=(dt=1.1087,rms=0.849788) vs oldopt=(dt=0.72,rms=0.849886) #GCMRL# 70 dt 1.108696 rms 0.850 0.000% neg 0 invalid 762 tFOTS 15.8710 tGradient 4.3800 tsec 21.5010 #GCMRL# 71 dt 1.108696 rms 0.849 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7980 tsec 6.0480 #GCMRL# 72 dt 1.108696 rms 0.849 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7180 tsec 5.9640 #GCMRL# 73 dt 1.108696 rms 0.848 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9130 tsec 6.1700 #GCMRL# 74 dt 1.108696 rms 0.848 0.067% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6320 tsec 5.8480 #GCMRL# 75 dt 1.108696 rms 0.848 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6290 tsec 5.9100 #FOTS# QuadFit found better minimum quadopt=(dt=0.09375,rms=0.847689) vs oldopt=(dt=0.045,rms=0.847689) #GCAMreg# pass 0 level1 2 level2 1 tsec 186.685 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 0.848383 #GCMRL# 77 dt 0.000000 rms 0.848 0.082% neg 0 invalid 762 tFOTS 15.6800 tGradient 4.7230 tsec 21.6610 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 0.885474 #GCMRL# 79 dt 0.000000 rms 0.885 0.075% neg 0 invalid 762 tFOTS 15.9000 tGradient 4.6860 tsec 21.8660 #GCAMreg# pass 0 level1 1 level2 1 tsec 49.916 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 0.885474 #GCMRL# 81 dt 0.000000 rms 0.885 0.075% neg 0 invalid 762 tFOTS 15.8140 tGradient 4.7170 tsec 21.8190 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 0.822727 #FOTS# QuadFit found better minimum quadopt=(dt=0.218938,rms=0.816761) vs oldopt=(dt=0.32,rms=0.817569) #GCMRL# 83 dt 0.218938 rms 0.817 0.725% neg 0 invalid 762 tFOTS 17.1490 tGradient 3.7160 tsec 22.1740 #GCMRL# 84 dt 0.020000 rms 0.817 0.000% neg 0 invalid 762 tFOTS 16.9250 tGradient 3.6470 tsec 21.9260 #GCAMreg# pass 0 level1 0 level2 1 tsec 55.309 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 0.817297 #FOTS# QuadFit found better minimum quadopt=(dt=0.012,rms=0.816523) vs oldopt=(dt=0.02,rms=0.816542) #GCMRL# 86 dt 0.012000 rms 0.817 0.095% neg 0 invalid 762 tFOTS 16.8820 tGradient 3.5840 tsec 21.8460 #FOTS# QuadFit found better minimum quadopt=(dt=0.00025,rms=0.816522) vs oldopt=(dt=0.0003125,rms=0.816522) #GCMRL# 87 dt 0.000250 rms 0.817 0.000% neg 0 invalid 762 tFOTS 16.8900 tGradient 3.6670 tsec 21.8850 GCAMregister done in 24.7349 min Starting GCAmapRenormalizeWithAlignment() without scales renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.10253 (16) mri peak = 0.12120 (27) Left_Lateral_Ventricle (4): linear fit = 1.28 x + 0.0 (2336 voxels, overlap=0.551) Left_Lateral_Ventricle (4): linear fit = 1.28 x + 0.0 (2336 voxels, peak = 21), gca=20.6 gca peak = 0.17690 (16) mri peak = 0.10846 (29) Right_Lateral_Ventricle (43): linear fit = 1.76 x + 0.0 (1334 voxels, overlap=0.231) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (1334 voxels, peak = 28), gca=24.0 gca peak = 0.28275 (96) mri peak = 0.10341 (101) Right_Pallidum (52): linear fit = 1.07 x + 0.0 (873 voxels, overlap=0.903) Right_Pallidum (52): linear fit = 1.07 x + 0.0 (873 voxels, peak = 102), gca=102.2 gca peak = 0.18948 (93) mri peak = 0.09724 (102) Left_Pallidum (13): linear fit = 1.09 x + 0.0 (661 voxels, overlap=0.635) Left_Pallidum (13): linear fit = 1.09 x + 0.0 (661 voxels, peak = 101), gca=100.9 gca peak = 0.20755 (55) mri peak = 0.12129 (50) Right_Hippocampus: unreasonable value (49.2/50.0), not in range [50, 90] - rejecting gca peak = 0.31831 (58) mri peak = 0.11293 (51) Left_Hippocampus (17): linear fit = 0.87 x + 0.0 (554 voxels, overlap=0.940) Left_Hippocampus (17): linear fit = 0.87 x + 0.0 (554 voxels, peak = 50), gca=50.2 gca peak = 0.11957 (102) mri peak = 0.09080 (104) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (64411 voxels, overlap=0.772) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (64411 voxels, peak = 105), gca=104.5 gca peak = 0.11429 (102) mri peak = 0.08105 (105) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (60398 voxels, overlap=0.785) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (60398 voxels, peak = 105), gca=104.5 gca peak = 0.14521 (59) mri peak = 0.03945 (56) Left_Cerebral_Cortex (3): linear fit = 0.94 x + 0.0 (13365 voxels, overlap=0.987) Left_Cerebral_Cortex (3): linear fit = 0.94 x + 0.0 (13365 voxels, peak = 56), gca=55.8 gca peak = 0.14336 (58) mri peak = 0.04443 (56) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (16884 voxels, overlap=0.996) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (16884 voxels, peak = 59), gca=59.4 gca peak = 0.13305 (70) mri peak = 0.06633 (60) Right_Caudate (50): linear fit = 0.89 x + 0.0 (640 voxels, overlap=0.557) Right_Caudate (50): linear fit = 0.89 x + 0.0 (640 voxels, peak = 63), gca=62.6 gca peak = 0.15761 (71) mri peak = 0.08663 (75) Left_Caudate (11): linear fit = 1.00 x + 0.0 (932 voxels, overlap=0.995) Left_Caudate (11): linear fit = 1.00 x + 0.0 (932 voxels, peak = 71), gca=71.0 gca peak = 0.13537 (57) mri peak = 0.06363 (20) Left_Cerebellum_Cortex (8): linear fit = 0.40 x + 0.0 (20084 voxels, overlap=0.001) Left_Cerebellum_Cortex (8): linear fit = 0.40 x + 0.0 (20084 voxels, peak = 23), gca=22.5 gca peak = 0.13487 (56) mri peak = 0.07415 (20) Right_Cerebellum_Cortex (47): linear fit = 0.34 x + 0.0 (24852 voxels, overlap=0.001) Right_Cerebellum_Cortex (47): linear fit = 0.34 x + 0.0 (24852 voxels, peak = 19), gca=19.3 gca peak = 0.19040 (84) mri peak = 0.04208 (23) Left_Cerebellum_White_Matter (7): linear fit = 0.96 x + 0.0 (2920 voxels, overlap=0.683) Left_Cerebellum_White_Matter (7): linear fit = 0.96 x + 0.0 (2920 voxels, peak = 81), gca=81.1 gca peak = 0.18871 (83) mri peak = 0.05443 (81) Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (2633 voxels, overlap=0.984) Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (2633 voxels, peak = 80), gca=80.1 gca peak = 0.24248 (57) mri peak = 0.11960 (54) Left_Amygdala (18): linear fit = 0.92 x + 0.0 (334 voxels, overlap=0.992) Left_Amygdala (18): linear fit = 0.92 x + 0.0 (334 voxels, peak = 52), gca=52.2 gca peak = 0.35833 (56) mri peak = 0.20767 (50) Right_Amygdala: unreasonable value (49.0/50.0), not in range [50, 90] - rejecting gca peak = 0.12897 (85) mri peak = 0.05294 (89) Left_Thalamus (10): linear fit = 1.04 x + 0.0 (4550 voxels, overlap=0.881) Left_Thalamus (10): linear fit = 1.04 x + 0.0 (4550 voxels, peak = 89), gca=88.8 gca peak = 0.13127 (83) mri peak = 0.07265 (88) Right_Thalamus (49): linear fit = 1.08 x + 0.0 (3382 voxels, overlap=0.859) Right_Thalamus (49): linear fit = 1.08 x + 0.0 (3382 voxels, peak = 89), gca=89.2 gca peak = 0.12974 (78) mri peak = 0.06985 (74) Left_Putamen (12): linear fit = 0.93 x + 0.0 (1450 voxels, overlap=0.983) Left_Putamen (12): linear fit = 0.93 x + 0.0 (1450 voxels, peak = 72), gca=72.2 gca peak = 0.17796 (79) mri peak = 0.07747 (74) Right_Putamen (51): linear fit = 0.93 x + 0.0 (1655 voxels, overlap=0.999) Right_Putamen (51): linear fit = 0.93 x + 0.0 (1655 voxels, peak = 73), gca=73.1 gca peak = 0.10999 (80) mri peak = 0.07024 (91) Brain_Stem (16): linear fit = 1.12 x + 0.0 (6808 voxels, overlap=0.416) Brain_Stem (16): linear fit = 1.12 x + 0.0 (6808 voxels, peak = 90), gca=90.0 gca peak = 0.13215 (88) mri peak = 0.06499 (100) Right_VentralDC (60): linear fit = 1.13 x + 0.0 (937 voxels, overlap=0.428) Right_VentralDC (60): linear fit = 1.13 x + 0.0 (937 voxels, peak = 100), gca=99.9 gca peak = 0.11941 (89) mri peak = 0.07790 (96) Left_VentralDC (28): linear fit = 1.13 x + 0.0 (1159 voxels, overlap=0.285) Left_VentralDC (28): linear fit = 1.13 x + 0.0 (1159 voxels, peak = 101), gca=101.0 gca peak = 0.20775 (25) mri peak = 0.05803 (21) gca peak = 0.13297 (21) mri peak = 0.09690 (20) Fourth_Ventricle (15): linear fit = 0.93 x + 0.0 (517 voxels, overlap=0.921) Fourth_Ventricle (15): linear fit = 0.93 x + 0.0 (517 voxels, peak = 19), gca=19.4 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.19087 (28) gca peak Left_Cerebellum_Cortex = 0.13537 (57) 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_Cerebellum_Cortex = 0.13487 (56) gca peak Right_Hippocampus = 0.20755 (55) gca peak Right_Amygdala = 0.35833 (56) 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 setting label Right_Hippocampus based on Left_Hippocampus = 0.87 x + 0: 50 setting label Right_Amygdala based on Left_Amygdala = 0.92 x + 0: 52 estimating mean gm scale to be 0.92 x + 0.0 estimating mean wm scale to be 1.02 x + 0.0 estimating mean csf scale to be 1.24 x + 0.0 setting left cbm cortex = 0.92 x + 0.00 setting right cbm cortex = 0.92 x + 0.00 Right_Pallidum too bright - rescaling by 0.992 (from 1.065) to 101.4 (was 102.2) saving intensity scales to talairach.label_intensities.txt GCAmapRenormalizeWithAlignment() took 4.2731 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 0.821162 #FOTS# QuadFit found better minimum quadopt=(dt=221.952,rms=0.804788) vs oldopt=(dt=369.92,rms=0.809803) #GCMRL# 89 dt 221.952000 rms 0.805 1.994% neg 0 invalid 762 tFOTS 16.3820 tGradient 7.7120 tsec 25.3380 #FOTS# QuadFit found better minimum quadopt=(dt=218.746,rms=0.797978) vs oldopt=(dt=92.48,rms=0.800508) #GCMRL# 90 dt 218.746269 rms 0.798 0.846% neg 0 invalid 762 tFOTS 17.0980 tGradient 7.4470 tsec 25.7840 #FOTS# QuadFit found better minimum quadopt=(dt=132.87,rms=0.79428) vs oldopt=(dt=92.48,rms=0.794834) #GCMRL# 91 dt 132.869565 rms 0.794 0.464% neg 0 invalid 762 tFOTS 17.2090 tGradient 7.5080 tsec 25.9720 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.789108) vs oldopt=(dt=369.92,rms=0.789576) #GCMRL# 92 dt 517.888000 rms 0.789 0.651% neg 0 invalid 762 tFOTS 16.1730 tGradient 7.4520 tsec 24.9000 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.786252) vs oldopt=(dt=92.48,rms=0.786477) #GCMRL# 93 dt 129.472000 rms 0.786 0.362% neg 0 invalid 762 tFOTS 17.0900 tGradient 7.5860 tsec 25.9220 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.783671) vs oldopt=(dt=369.92,rms=0.783769) #GCMRL# 94 dt 443.904000 rms 0.784 0.328% neg 0 invalid 762 tFOTS 16.1140 tGradient 7.3800 tsec 24.7360 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.781678) vs oldopt=(dt=92.48,rms=0.781831) #GCMRL# 95 dt 129.472000 rms 0.782 0.254% neg 0 invalid 762 tFOTS 17.1720 tGradient 7.4410 tsec 25.8670 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.77958) vs oldopt=(dt=369.92,rms=0.77959) #GCMRL# 96 dt 443.904000 rms 0.780 0.268% neg 0 invalid 762 tFOTS 16.1790 tGradient 7.5320 tsec 24.9320 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.77779) vs oldopt=(dt=92.48,rms=0.777901) #GCMRL# 97 dt 129.472000 rms 0.778 0.230% neg 0 invalid 762 tFOTS 18.1730 tGradient 7.7520 tsec 27.1800 #GCMRL# 98 dt 369.920000 rms 0.776 0.188% neg 0 invalid 762 tFOTS 16.2720 tGradient 7.5710 tsec 25.0570 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.775027) vs oldopt=(dt=92.48,rms=0.775177) #GCMRL# 99 dt 129.472000 rms 0.775 0.168% neg 0 invalid 762 tFOTS 17.2210 tGradient 7.6840 tsec 26.1380 #GCMRL# 100 dt 369.920000 rms 0.774 0.131% neg 0 invalid 762 tFOTS 16.1280 tGradient 7.7090 tsec 25.0990 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.772887) vs oldopt=(dt=92.48,rms=0.773058) #GCMRL# 101 dt 129.472000 rms 0.773 0.145% neg 0 invalid 762 tFOTS 17.4220 tGradient 7.9090 tsec 26.6040 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.771912) vs oldopt=(dt=369.92,rms=0.771954) #GCMRL# 102 dt 443.904000 rms 0.772 0.126% neg 0 invalid 762 tFOTS 17.1040 tGradient 7.7060 tsec 26.0710 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.770771) vs oldopt=(dt=92.48,rms=0.770913) #GCMRL# 103 dt 129.472000 rms 0.771 0.148% neg 0 invalid 762 tFOTS 17.4790 tGradient 7.4940 tsec 26.2220 #GCMRL# 104 dt 369.920000 rms 0.770 0.110% neg 0 invalid 762 tFOTS 17.2570 tGradient 7.4700 tsec 25.9720 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.768993) vs oldopt=(dt=92.48,rms=0.76911) #GCMRL# 105 dt 129.472000 rms 0.769 0.121% neg 0 invalid 762 tFOTS 17.0580 tGradient 7.6070 tsec 25.9380 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.768118) vs oldopt=(dt=369.92,rms=0.76812) #GCMRL# 106 dt 443.904000 rms 0.768 0.114% neg 0 invalid 762 tFOTS 17.3550 tGradient 7.3980 tsec 25.9810 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.767081) vs oldopt=(dt=92.48,rms=0.767172) #GCMRL# 107 dt 129.472000 rms 0.767 0.135% neg 0 invalid 762 tFOTS 17.2340 tGradient 7.6130 tsec 26.0930 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.766454) vs oldopt=(dt=369.92,rms=0.766469) #GCMRL# 108 dt 295.936000 rms 0.766 0.082% neg 0 invalid 762 tFOTS 17.2560 tGradient 7.5080 tsec 26.0190 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.765754) vs oldopt=(dt=92.48,rms=0.765875) #GCMRL# 109 dt 129.472000 rms 0.766 0.091% neg 0 invalid 762 tFOTS 17.2750 tGradient 7.5360 tsec 26.0080 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.765039) vs oldopt=(dt=369.92,rms=0.765074) #GCMRL# 110 dt 517.888000 rms 0.765 0.093% neg 0 invalid 762 tFOTS 17.1970 tGradient 7.5480 tsec 25.9800 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.763989) vs oldopt=(dt=92.48,rms=0.764115) #GCMRL# 111 dt 129.472000 rms 0.764 0.137% neg 0 invalid 762 tFOTS 17.4800 tGradient 7.5770 tsec 26.3100 #FOTS# QuadFit found better minimum quadopt=(dt=221.952,rms=0.763566) vs oldopt=(dt=369.92,rms=0.76363) #GCMRL# 112 dt 221.952000 rms 0.764 0.055% neg 0 invalid 762 tFOTS 17.1940 tGradient 7.5710 tsec 26.0040 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.763088) vs oldopt=(dt=92.48,rms=0.763198) #GCMRL# 113 dt 129.472000 rms 0.763 0.063% neg 0 invalid 762 tFOTS 17.1930 tGradient 7.3510 tsec 25.8000 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.762228) vs oldopt=(dt=369.92,rms=0.762372) #GCMRL# 114 dt 517.888000 rms 0.762 0.113% neg 0 invalid 762 tFOTS 17.3230 tGradient 7.5560 tsec 26.1210 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.761507) vs oldopt=(dt=92.48,rms=0.761623) #GCMRL# 115 dt 129.472000 rms 0.762 0.095% neg 0 invalid 762 tFOTS 17.3110 tGradient 7.5200 tsec 26.0840 #GCMRL# 116 dt 369.920000 rms 0.761 0.000% neg 0 invalid 762 tFOTS 17.2310 tGradient 7.5920 tsec 26.1090 #GCAMreg# pass 0 level1 5 level2 1 tsec 739.23 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 0.762201 #FOTS# QuadFit found better minimum quadopt=(dt=110.976,rms=0.760694) vs oldopt=(dt=92.48,rms=0.760713) #GCMRL# 118 dt 110.976000 rms 0.761 0.198% neg 0 invalid 762 tFOTS 17.3510 tGradient 7.4890 tsec 26.0910 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.760632) vs oldopt=(dt=92.48,rms=0.760636) #GCMRL# 119 dt 129.472000 rms 0.761 0.000% neg 0 invalid 762 tFOTS 17.4400 tGradient 7.6250 tsec 26.3380 #GCMRL# 120 dt 129.472000 rms 0.761 0.017% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5190 tsec 8.7910 #GCMRL# 121 dt 129.472000 rms 0.760 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5740 tsec 8.8570 #GCMRL# 122 dt 129.472000 rms 0.760 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5670 tsec 8.8290 #GCMRL# 123 dt 129.472000 rms 0.760 0.063% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8470 tsec 9.1220 #GCMRL# 124 dt 129.472000 rms 0.759 0.091% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6430 tsec 8.9010 #GCMRL# 125 dt 129.472000 rms 0.758 0.121% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5300 tsec 8.7920 #GCMRL# 126 dt 129.472000 rms 0.757 0.126% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6640 tsec 8.9200 #GCMRL# 127 dt 129.472000 rms 0.756 0.122% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6900 tsec 8.9180 #GCMRL# 128 dt 129.472000 rms 0.755 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6900 tsec 8.9610 #GCMRL# 129 dt 129.472000 rms 0.754 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5720 tsec 8.8380 #GCMRL# 130 dt 129.472000 rms 0.754 0.111% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5580 tsec 8.8270 #GCMRL# 131 dt 129.472000 rms 0.753 0.110% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5740 tsec 8.8470 #GCMRL# 132 dt 129.472000 rms 0.752 0.104% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6930 tsec 8.9520 #GCMRL# 133 dt 129.472000 rms 0.751 0.105% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6450 tsec 8.9140 #GCMRL# 134 dt 129.472000 rms 0.750 0.095% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8400 tsec 9.0990 #GCMRL# 135 dt 129.472000 rms 0.750 0.086% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5380 tsec 8.7770 #GCMRL# 136 dt 129.472000 rms 0.749 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.0920 tsec 9.3670 #GCMRL# 137 dt 129.472000 rms 0.748 0.089% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5920 tsec 8.8430 #GCMRL# 138 dt 129.472000 rms 0.748 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4310 tsec 8.6990 #GCMRL# 139 dt 129.472000 rms 0.747 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8990 tsec 9.1530 #GCMRL# 140 dt 129.472000 rms 0.746 0.110% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.1300 tsec 9.3750 #GCMRL# 141 dt 129.472000 rms 0.745 0.091% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4350 tsec 8.7040 #GCMRL# 142 dt 129.472000 rms 0.745 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4940 tsec 8.7590 #GCMRL# 143 dt 129.472000 rms 0.744 0.091% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5040 tsec 8.7400 #GCMRL# 144 dt 129.472000 rms 0.743 0.090% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7160 tsec 8.9850 #GCMRL# 145 dt 129.472000 rms 0.743 0.083% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5180 tsec 8.7760 #GCMRL# 146 dt 129.472000 rms 0.742 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5420 tsec 8.7930 #GCMRL# 147 dt 129.472000 rms 0.742 0.053% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7540 tsec 9.0160 #GCMRL# 148 dt 129.472000 rms 0.741 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7390 tsec 8.9960 #GCMRL# 149 dt 129.472000 rms 0.741 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4820 tsec 8.7260 #GCMRL# 150 dt 129.472000 rms 0.741 0.056% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4260 tsec 8.6840 #GCMRL# 151 dt 129.472000 rms 0.740 0.071% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4470 tsec 8.7040 #GCMRL# 152 dt 129.472000 rms 0.740 0.071% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6210 tsec 8.8890 #GCMRL# 153 dt 129.472000 rms 0.739 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7680 tsec 9.0080 #GCMRL# 154 dt 129.472000 rms 0.739 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4740 tsec 8.7150 #GCMRL# 155 dt 129.472000 rms 0.738 0.063% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5380 tsec 8.7920 #GCMRL# 156 dt 129.472000 rms 0.738 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4370 tsec 8.7770 #GCMRL# 157 dt 129.472000 rms 0.737 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7510 tsec 9.0050 #GCMRL# 158 dt 129.472000 rms 0.737 0.053% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8380 tsec 9.0840 #GCMRL# 159 dt 129.472000 rms 0.736 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7330 tsec 8.9910 #GCMRL# 160 dt 129.472000 rms 0.736 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6850 tsec 8.9590 #GCMRL# 161 dt 129.472000 rms 0.736 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6270 tsec 8.8780 #GCMRL# 162 dt 129.472000 rms 0.736 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7460 tsec 8.9850 #GCMRL# 163 dt 129.472000 rms 0.735 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7550 tsec 9.0350 #GCMRL# 164 dt 129.472000 rms 0.735 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6610 tsec 9.0080 #GCMRL# 165 dt 129.472000 rms 0.735 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3800 tsec 8.6270 #GCMRL# 166 dt 129.472000 rms 0.735 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4710 tsec 8.7430 #GCMRL# 167 dt 129.472000 rms 0.734 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5060 tsec 8.7780 #GCMRL# 168 dt 129.472000 rms 0.734 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5090 tsec 8.7770 #GCMRL# 169 dt 129.472000 rms 0.734 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4940 tsec 8.7430 #GCMRL# 170 dt 129.472000 rms 0.734 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5010 tsec 8.7780 #GCMRL# 171 dt 129.472000 rms 0.733 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5900 tsec 8.8750 #GCMRL# 172 dt 129.472000 rms 0.733 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4970 tsec 8.7590 #GCMRL# 173 dt 129.472000 rms 0.733 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4990 tsec 8.7380 #GCMRL# 174 dt 129.472000 rms 0.733 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5340 tsec 8.8170 #GCMRL# 175 dt 129.472000 rms 0.733 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7920 tsec 9.0730 #GCMRL# 176 dt 129.472000 rms 0.732 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6210 tsec 8.8610 #GCMRL# 177 dt 129.472000 rms 0.732 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5940 tsec 8.8560 #GCMRL# 178 dt 129.472000 rms 0.732 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4590 tsec 8.7380 #GCMRL# 179 dt 129.472000 rms 0.732 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5320 tsec 8.7960 #GCMRL# 180 dt 129.472000 rms 0.731 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6330 tsec 8.9690 #GCMRL# 181 dt 129.472000 rms 0.731 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6780 tsec 8.9190 #GCMRL# 182 dt 129.472000 rms 0.731 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5160 tsec 8.7700 #GCMRL# 183 dt 129.472000 rms 0.731 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5370 tsec 8.7990 #GCMRL# 184 dt 129.472000 rms 0.731 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6510 tsec 8.8600 #GCMRL# 185 dt 129.472000 rms 0.730 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5440 tsec 8.8160 #GCMRL# 186 dt 129.472000 rms 0.730 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6530 tsec 8.9290 #GCMRL# 187 dt 129.472000 rms 0.730 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5420 tsec 8.8000 #GCMRL# 188 dt 129.472000 rms 0.730 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5740 tsec 8.8380 #GCMRL# 189 dt 129.472000 rms 0.730 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6730 tsec 8.9330 #GCMRL# 190 dt 129.472000 rms 0.729 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3400 tsec 8.5820 #GCMRL# 191 dt 129.472000 rms 0.729 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4990 tsec 8.7630 #GCMRL# 192 dt 129.472000 rms 0.729 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6800 tsec 8.9410 #GCMRL# 193 dt 129.472000 rms 0.729 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5130 tsec 8.8100 #GCMRL# 194 dt 1479.680000 rms 0.729 0.000% neg 0 invalid 762 tFOTS 18.3260 tGradient 7.5680 tsec 27.1910 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 0.731476 #FOTS# QuadFit found better minimum quadopt=(dt=233.931,rms=0.722862) vs oldopt=(dt=103.68,rms=0.724436) #GCMRL# 196 dt 233.931034 rms 0.723 1.178% neg 0 invalid 762 tFOTS 17.3320 tGradient 5.6920 tsec 24.2400 #FOTS# QuadFit found better minimum quadopt=(dt=106.308,rms=0.715228) vs oldopt=(dt=103.68,rms=0.715238) #GCMRL# 197 dt 106.307891 rms 0.715 1.056% neg 0 invalid 762 tFOTS 17.0730 tGradient 6.0150 tsec 24.3420 #FOTS# QuadFit found better minimum quadopt=(dt=114.174,rms=0.711649) vs oldopt=(dt=103.68,rms=0.71166) #GCMRL# 198 dt 114.174216 rms 0.712 0.500% neg 0 invalid 762 tFOTS 17.3560 tGradient 5.6650 tsec 24.2190 #GCMRL# 199 dt 103.680000 rms 0.708 0.515% neg 0 invalid 762 tFOTS 17.1980 tGradient 5.9270 tsec 24.3950 #FOTS# QuadFit found better minimum quadopt=(dt=103,rms=0.705187) vs oldopt=(dt=103.68,rms=0.705188) #GCMRL# 200 dt 103.000000 rms 0.705 0.395% neg 0 invalid 762 tFOTS 17.2360 tGradient 5.6810 tsec 24.1280 #FOTS# QuadFit found better minimum quadopt=(dt=117.385,rms=0.702119) vs oldopt=(dt=103.68,rms=0.702134) #GCMRL# 201 dt 117.385366 rms 0.702 0.435% neg 0 invalid 762 tFOTS 16.9230 tGradient 5.9400 tsec 24.1190 #FOTS# QuadFit found better minimum quadopt=(dt=77.977,rms=0.699746) vs oldopt=(dt=103.68,rms=0.699976) #GCMRL# 202 dt 77.977011 rms 0.700 0.338% neg 0 invalid 762 tFOTS 16.9200 tGradient 5.5470 tsec 23.6740 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.697097) vs oldopt=(dt=103.68,rms=0.697253) #GCMRL# 203 dt 145.152000 rms 0.697 0.378% neg 0 invalid 762 tFOTS 16.0630 tGradient 5.7510 tsec 23.0640 #FOTS# QuadFit found better minimum quadopt=(dt=67.4025,rms=0.69485) vs oldopt=(dt=103.68,rms=0.69534) #GCMRL# 204 dt 67.402532 rms 0.695 0.322% neg 0 invalid 762 tFOTS 17.2390 tGradient 5.8240 tsec 24.2780 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.692221) vs oldopt=(dt=103.68,rms=0.692698) #GCMRL# 205 dt 145.152000 rms 0.692 0.378% neg 0 invalid 762 tFOTS 16.0520 tGradient 5.8770 tsec 23.1250 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.69069) vs oldopt=(dt=103.68,rms=0.690764) #GCMRL# 206 dt 82.944000 rms 0.691 0.221% neg 0 invalid 762 tFOTS 16.9780 tGradient 5.8180 tsec 24.0390 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.688552) vs oldopt=(dt=103.68,rms=0.688702) #GCMRL# 207 dt 145.152000 rms 0.689 0.310% neg 0 invalid 762 tFOTS 16.1480 tGradient 5.9500 tsec 23.3420 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.686898) vs oldopt=(dt=103.68,rms=0.687471) #GCMRL# 208 dt 62.208000 rms 0.687 0.240% neg 0 invalid 762 tFOTS 17.0670 tGradient 5.7240 tsec 24.0140 #FOTS# QuadFit found better minimum quadopt=(dt=248.832,rms=0.684333) vs oldopt=(dt=414.72,rms=0.684759) #GCMRL# 209 dt 248.832000 rms 0.684 0.373% neg 0 invalid 762 tFOTS 16.0770 tGradient 5.7040 tsec 23.0270 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.682703) vs oldopt=(dt=25.92,rms=0.683055) #GCMRL# 210 dt 36.288000 rms 0.683 0.238% neg 0 invalid 762 tFOTS 16.0880 tGradient 5.9690 tsec 23.2540 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.681469) vs oldopt=(dt=103.68,rms=0.681499) #GCMRL# 211 dt 124.416000 rms 0.681 0.181% neg 0 invalid 762 tFOTS 16.1630 tGradient 5.8740 tsec 23.2860 #FOTS# QuadFit found better minimum quadopt=(dt=93.7465,rms=0.679974) vs oldopt=(dt=103.68,rms=0.679993) #GCMRL# 212 dt 93.746479 rms 0.680 0.219% neg 0 invalid 762 tFOTS 17.0500 tGradient 5.6850 tsec 23.9380 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.679002) vs oldopt=(dt=103.68,rms=0.679059) #GCMRL# 213 dt 82.944000 rms 0.679 0.143% neg 0 invalid 762 tFOTS 17.0660 tGradient 5.9810 tsec 24.2860 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.677616) vs oldopt=(dt=103.68,rms=0.677693) #GCMRL# 214 dt 145.152000 rms 0.678 0.204% neg 0 invalid 762 tFOTS 16.0010 tGradient 5.5420 tsec 22.7740 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.676738) vs oldopt=(dt=25.92,rms=0.676921) #GCMRL# 215 dt 36.288000 rms 0.677 0.130% neg 0 invalid 762 tFOTS 14.9800 tGradient 5.9190 tsec 22.1590 #GCMRL# 216 dt 414.720000 rms 0.674 0.344% neg 0 invalid 762 tFOTS 16.1660 tGradient 5.7590 tsec 23.2400 #FOTS# QuadFit found better minimum quadopt=(dt=66.1333,rms=0.671952) vs oldopt=(dt=25.92,rms=0.672554) #GCMRL# 217 dt 66.133333 rms 0.672 0.364% neg 0 invalid 762 tFOTS 16.0210 tGradient 5.7470 tsec 22.9890 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.671235) vs oldopt=(dt=103.68,rms=0.671312) #GCMRL# 218 dt 82.944000 rms 0.671 0.107% neg 0 invalid 762 tFOTS 16.1970 tGradient 5.9080 tsec 23.3280 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.670348) vs oldopt=(dt=103.68,rms=0.670353) #GCMRL# 219 dt 124.416000 rms 0.670 0.132% neg 0 invalid 762 tFOTS 16.2040 tGradient 5.7560 tsec 23.2090 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.669785) vs oldopt=(dt=25.92,rms=0.669908) #GCMRL# 220 dt 36.288000 rms 0.670 0.084% neg 0 invalid 762 tFOTS 17.0510 tGradient 5.8940 tsec 24.1790 #FOTS# QuadFit found better minimum quadopt=(dt=580.608,rms=0.667306) vs oldopt=(dt=414.72,rms=0.667515) #GCMRL# 221 dt 580.608000 rms 0.667 0.370% neg 0 invalid 762 tFOTS 16.3750 tGradient 5.8180 tsec 23.4570 #FOTS# QuadFit found better minimum quadopt=(dt=65.6842,rms=0.6653) vs oldopt=(dt=25.92,rms=0.665709) #GCMRL# 222 dt 65.684211 rms 0.665 0.301% neg 0 invalid 762 tFOTS 16.3200 tGradient 6.0220 tsec 23.5790 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.664909) vs oldopt=(dt=25.92,rms=0.664991) #GCMRL# 223 dt 36.288000 rms 0.665 0.059% neg 0 invalid 762 tFOTS 16.1700 tGradient 6.2350 tsec 23.6480 #GCMRL# 224 dt 414.720000 rms 0.664 0.190% neg 0 invalid 762 tFOTS 16.2180 tGradient 6.2030 tsec 23.6710 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.662446) vs oldopt=(dt=25.92,rms=0.66265) #GCMRL# 225 dt 36.288000 rms 0.662 0.180% neg 0 invalid 762 tFOTS 16.3720 tGradient 5.8720 tsec 23.4630 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.661592) vs oldopt=(dt=103.68,rms=0.661755) #GCMRL# 226 dt 145.152000 rms 0.662 0.129% neg 0 invalid 762 tFOTS 16.2340 tGradient 6.1120 tsec 23.6230 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.66142) vs oldopt=(dt=25.92,rms=0.661468) #GCMRL# 227 dt 36.288000 rms 0.661 0.000% neg 0 invalid 762 tFOTS 17.0740 tGradient 5.9750 tsec 24.3220 #GCMRL# 228 dt 36.288000 rms 0.661 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0540 tsec 7.2750 #GCMRL# 229 dt 36.288000 rms 0.661 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9220 tsec 7.1170 #GCMRL# 230 dt 36.288000 rms 0.660 0.068% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0540 tsec 7.2560 #GCMRL# 231 dt 36.288000 rms 0.660 0.087% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0450 tsec 7.2970 #GCMRL# 232 dt 36.288000 rms 0.659 0.104% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9200 tsec 7.2430 #GCMRL# 233 dt 36.288000 rms 0.658 0.116% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9780 tsec 7.2360 #GCMRL# 234 dt 36.288000 rms 0.658 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9530 tsec 7.2020 #GCMRL# 235 dt 36.288000 rms 0.657 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0430 tsec 7.2970 #GCMRL# 236 dt 36.288000 rms 0.656 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8080 tsec 7.0670 #GCMRL# 237 dt 36.288000 rms 0.655 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8550 tsec 7.1100 #GCMRL# 238 dt 36.288000 rms 0.654 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7710 tsec 7.0280 #GCMRL# 239 dt 36.288000 rms 0.654 0.123% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6840 tsec 6.9120 #GCMRL# 240 dt 36.288000 rms 0.653 0.123% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8380 tsec 7.0690 #GCMRL# 241 dt 36.288000 rms 0.652 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8350 tsec 7.0800 #GCMRL# 242 dt 36.288000 rms 0.651 0.109% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1220 tsec 7.3370 #GCMRL# 243 dt 36.288000 rms 0.651 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1030 tsec 7.3190 #GCMRL# 244 dt 36.288000 rms 0.650 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0750 tsec 7.3180 #GCMRL# 245 dt 36.288000 rms 0.649 0.096% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1260 tsec 7.3630 #GCMRL# 246 dt 36.288000 rms 0.649 0.090% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9850 tsec 7.2640 #GCMRL# 247 dt 36.288000 rms 0.648 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0190 tsec 7.2690 #GCMRL# 248 dt 36.288000 rms 0.648 0.089% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8970 tsec 7.1600 #GCMRL# 249 dt 36.288000 rms 0.647 0.089% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0300 tsec 7.2890 #GCMRL# 250 dt 36.288000 rms 0.646 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.1480 tsec 7.3830 #GCMRL# 251 dt 36.288000 rms 0.646 0.077% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9990 tsec 7.2350 #GCMRL# 252 dt 36.288000 rms 0.645 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9580 tsec 7.1910 #GCMRL# 253 dt 36.288000 rms 0.645 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8460 tsec 7.1070 #GCMRL# 254 dt 36.288000 rms 0.644 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8130 tsec 7.0710 #GCMRL# 255 dt 36.288000 rms 0.644 0.082% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7370 tsec 6.9910 #GCMRL# 256 dt 36.288000 rms 0.643 0.078% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7280 tsec 6.9880 #GCMRL# 257 dt 36.288000 rms 0.643 0.080% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7700 tsec 7.0090 #GCMRL# 258 dt 36.288000 rms 0.642 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8690 tsec 7.1390 #GCMRL# 259 dt 36.288000 rms 0.642 0.068% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8080 tsec 7.0710 #GCMRL# 260 dt 36.288000 rms 0.642 0.059% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8360 tsec 7.0430 #GCMRL# 261 dt 36.288000 rms 0.641 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6960 tsec 6.9540 #GCMRL# 262 dt 36.288000 rms 0.641 0.077% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7310 tsec 6.9790 #GCMRL# 263 dt 36.288000 rms 0.640 0.071% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7370 tsec 6.9760 #GCMRL# 264 dt 36.288000 rms 0.640 0.072% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6620 tsec 6.9150 #GCMRL# 265 dt 36.288000 rms 0.639 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6950 tsec 6.9450 #GCMRL# 266 dt 36.288000 rms 0.639 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6890 tsec 6.9540 #GCMRL# 267 dt 36.288000 rms 0.639 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6770 tsec 6.9260 #GCMRL# 268 dt 36.288000 rms 0.638 0.067% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8330 tsec 7.0820 #GCMRL# 269 dt 36.288000 rms 0.638 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8490 tsec 7.1170 #GCMRL# 270 dt 36.288000 rms 0.637 0.059% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8230 tsec 7.1600 #GCMRL# 271 dt 36.288000 rms 0.637 0.058% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8280 tsec 7.0900 #GCMRL# 272 dt 36.288000 rms 0.637 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8770 tsec 7.1240 #GCMRL# 273 dt 36.288000 rms 0.636 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6620 tsec 6.9240 #GCMRL# 274 dt 36.288000 rms 0.636 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7010 tsec 6.9670 #GCMRL# 275 dt 36.288000 rms 0.636 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7490 tsec 7.0130 #GCMRL# 276 dt 36.288000 rms 0.635 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7160 tsec 6.9740 #GCMRL# 277 dt 36.288000 rms 0.635 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6550 tsec 6.9210 #GCMRL# 278 dt 36.288000 rms 0.635 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7180 tsec 6.9860 #GCMRL# 279 dt 36.288000 rms 0.635 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7770 tsec 7.0240 #GCMRL# 280 dt 36.288000 rms 0.634 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7490 tsec 7.0120 #GCMRL# 281 dt 36.288000 rms 0.634 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7910 tsec 7.0480 #GCMRL# 282 dt 36.288000 rms 0.634 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7610 tsec 7.1120 #GCMRL# 283 dt 36.288000 rms 0.633 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7270 tsec 7.0030 #GCMRL# 284 dt 36.288000 rms 0.633 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6850 tsec 6.9480 #GCMRL# 285 dt 36.288000 rms 0.633 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8810 tsec 7.1260 #GCMRL# 286 dt 36.288000 rms 0.633 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8520 tsec 7.1210 #GCMRL# 287 dt 36.288000 rms 0.633 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8430 tsec 7.1160 #GCMRL# 288 dt 36.288000 rms 0.632 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9030 tsec 7.1820 #GCMRL# 289 dt 36.288000 rms 0.632 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8810 tsec 7.1870 #GCMRL# 290 dt 36.288000 rms 0.632 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9250 tsec 7.1810 #GCMRL# 291 dt 36.288000 rms 0.632 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8360 tsec 7.0980 #GCMRL# 292 dt 36.288000 rms 0.632 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8740 tsec 7.1520 #GCMRL# 293 dt 36.288000 rms 0.631 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8480 tsec 7.1110 #GCMRL# 294 dt 36.288000 rms 0.631 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8840 tsec 7.1570 #GCMRL# 295 dt 36.288000 rms 0.631 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8780 tsec 7.1710 #GCMRL# 296 dt 36.288000 rms 0.631 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8900 tsec 7.1610 #GCMRL# 297 dt 36.288000 rms 0.631 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.9110 tsec 7.1840 #GCMRL# 298 dt 36.288000 rms 0.630 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8380 tsec 7.1210 #GCMRL# 299 dt 36.288000 rms 0.630 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7750 tsec 7.0600 #GCMRL# 300 dt 36.288000 rms 0.630 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7150 tsec 6.9760 #GCMRL# 301 dt 36.288000 rms 0.630 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8240 tsec 7.0870 #GCMRL# 302 dt 36.288000 rms 0.630 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8150 tsec 7.0960 #GCMRL# 303 dt 36.288000 rms 0.630 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8230 tsec 7.0820 #GCMRL# 304 dt 36.288000 rms 0.629 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7110 tsec 6.9820 #GCMRL# 305 dt 36.288000 rms 0.629 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.7580 tsec 7.0440 #FOTS# QuadFit found better minimum quadopt=(dt=331.776,rms=0.629215) vs oldopt=(dt=414.72,rms=0.629228) #GCMRL# 306 dt 331.776000 rms 0.629 0.000% neg 0 invalid 762 tFOTS 16.5050 tGradient 5.7640 tsec 23.5720 #GCAMreg# pass 0 level1 4 level2 1 tsec 1347.41 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 0.630206 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.628892) vs oldopt=(dt=25.92,rms=0.628934) #GCMRL# 308 dt 36.288000 rms 0.629 0.209% neg 0 invalid 762 tFOTS 16.5870 tGradient 5.7010 tsec 23.5480 #GCMRL# 309 dt 25.920000 rms 0.629 0.000% neg 0 invalid 762 tFOTS 17.5530 tGradient 5.6720 tsec 24.5230 #GCMRL# 310 dt 25.920000 rms 0.629 0.005% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.8760 tsec 7.1570 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 0.644006 #FOTS# QuadFit found better minimum quadopt=(dt=54.7629,rms=0.639278) vs oldopt=(dt=32,rms=0.639754) #GCMRL# 312 dt 54.762887 rms 0.639 0.734% neg 0 invalid 762 tFOTS 17.5920 tGradient 5.1060 tsec 23.9430 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.633512) vs oldopt=(dt=32,rms=0.634745) #GCMRL# 313 dt 44.800000 rms 0.634 0.902% neg 0 invalid 762 tFOTS 16.4710 tGradient 5.2560 tsec 22.9700 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.631458) vs oldopt=(dt=32,rms=0.631618) #GCMRL# 314 dt 44.800000 rms 0.631 0.324% neg 0 invalid 762 tFOTS 16.5480 tGradient 4.9130 tsec 22.7150 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.627554) vs oldopt=(dt=32,rms=0.627778) #GCMRL# 315 dt 38.400000 rms 0.628 0.618% neg 0 invalid 762 tFOTS 16.4750 tGradient 4.9510 tsec 22.6760 #GCMRL# 316 dt 32.000000 rms 0.626 0.267% neg 0 invalid 762 tFOTS 16.3800 tGradient 4.9060 tsec 22.5560 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.622498) vs oldopt=(dt=32,rms=0.623159) #GCMRL# 317 dt 44.800000 rms 0.622 0.540% neg 0 invalid 762 tFOTS 16.4000 tGradient 5.0610 tsec 22.7160 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.621513) vs oldopt=(dt=32,rms=0.621529) #GCMRL# 318 dt 25.600000 rms 0.622 0.158% neg 0 invalid 762 tFOTS 16.2790 tGradient 5.0650 tsec 22.5750 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.618937) vs oldopt=(dt=32,rms=0.619583) #GCMRL# 319 dt 44.800000 rms 0.619 0.414% neg 0 invalid 762 tFOTS 15.2390 tGradient 4.7790 tsec 21.2720 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.618067) vs oldopt=(dt=32,rms=0.618151) #GCMRL# 320 dt 44.800000 rms 0.618 0.141% neg 0 invalid 762 tFOTS 16.2450 tGradient 4.8140 tsec 22.2980 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.616045) vs oldopt=(dt=32,rms=0.616199) #GCMRL# 321 dt 44.800000 rms 0.616 0.327% neg 0 invalid 762 tFOTS 16.1980 tGradient 4.7410 tsec 22.2590 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.615198) vs oldopt=(dt=32,rms=0.61527) #GCMRL# 322 dt 25.600000 rms 0.615 0.138% neg 0 invalid 762 tFOTS 16.3040 tGradient 4.7200 tsec 22.2600 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.613218) vs oldopt=(dt=32,rms=0.61368) #GCMRL# 323 dt 44.800000 rms 0.613 0.322% neg 0 invalid 762 tFOTS 15.3280 tGradient 4.7620 tsec 21.3440 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.613001) vs oldopt=(dt=8,rms=0.613064) #GCMRL# 324 dt 11.200000 rms 0.613 0.000% neg 0 invalid 762 tFOTS 15.4080 tGradient 4.8580 tsec 21.5540 #GCMRL# 325 dt 11.200000 rms 0.613 0.052% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7830 tsec 6.0450 #GCMRL# 326 dt 11.200000 rms 0.612 0.084% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9040 tsec 6.1810 #GCMRL# 327 dt 11.200000 rms 0.611 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8110 tsec 6.1040 #GCMRL# 328 dt 11.200000 rms 0.611 0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8270 tsec 6.6160 #GCMRL# 329 dt 11.200000 rms 0.611 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8250 tsec 6.6290 #GCMRL# 330 dt 0.700000 rms 0.611 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8260 tsec 8.5300 #GCMRL# 331 dt 0.350000 rms 0.611 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7770 tsec 7.0760 #FOTS# QuadFit found better minimum quadopt=(dt=0.175,rms=0.610707) vs oldopt=(dt=0.125,rms=0.610708) #GCMRL# 332 dt 0.175000 rms 0.611 0.000% neg 0 invalid 762 tFOTS 12.4390 tGradient 4.7980 tsec 18.5450 #GCMRL# 333 dt 0.043750 rms 0.611 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8590 tsec 7.6620 #GCMRL# 334 dt 0.021875 rms 0.611 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8030 tsec 7.1240 #GCAMreg# pass 0 level1 3 level2 1 tsec 384.793 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 0.611625 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.610367) vs oldopt=(dt=8,rms=0.610435) #GCMRL# 336 dt 11.200000 rms 0.610 0.206% neg 0 invalid 762 tFOTS 17.5340 tGradient 4.8120 tsec 23.6150 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.61003) vs oldopt=(dt=32,rms=0.610085) #GCMRL# 337 dt 25.600000 rms 0.610 0.055% neg 0 invalid 762 tFOTS 17.4300 tGradient 4.8870 tsec 23.5730 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.60935) vs oldopt=(dt=32,rms=0.609435) #GCMRL# 338 dt 44.800000 rms 0.609 0.111% neg 0 invalid 762 tFOTS 17.5060 tGradient 4.9620 tsec 23.6940 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.608445) vs oldopt=(dt=32,rms=0.60866) #GCMRL# 339 dt 44.800000 rms 0.608 0.148% neg 0 invalid 762 tFOTS 15.2150 tGradient 4.7730 tsec 21.2540 #FOTS# QuadFit found better minimum quadopt=(dt=102.4,rms=0.606864) vs oldopt=(dt=128,rms=0.606951) #GCMRL# 340 dt 102.400000 rms 0.607 0.260% neg 0 invalid 762 tFOTS 16.6230 tGradient 4.7650 tsec 22.6530 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.60634) vs oldopt=(dt=8,rms=0.606475) #GCMRL# 341 dt 11.200000 rms 0.606 0.086% neg 0 invalid 762 tFOTS 16.4920 tGradient 4.6710 tsec 22.4460 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.605903) vs oldopt=(dt=8,rms=0.605973) #GCMRL# 342 dt 11.200000 rms 0.606 0.072% neg 0 invalid 762 tFOTS 15.5430 tGradient 4.7790 tsec 21.5780 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.60563) vs oldopt=(dt=8,rms=0.60569) #GCMRL# 343 dt 11.200000 rms 0.606 0.000% neg 0 invalid 762 tFOTS 15.5040 tGradient 4.7540 tsec 21.5830 #GCMRL# 344 dt 11.200000 rms 0.605 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0180 tsec 6.2950 #GCMRL# 345 dt 11.200000 rms 0.605 0.067% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9700 tsec 6.2560 #GCMRL# 346 dt 11.200000 rms 0.604 0.102% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9790 tsec 6.2600 #GCMRL# 347 dt 11.200000 rms 0.604 0.115% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0560 tsec 6.3540 #GCMRL# 348 dt 11.200000 rms 0.603 0.134% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9670 tsec 6.2390 #GCMRL# 349 dt 11.200000 rms 0.602 0.142% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9710 tsec 6.2470 #GCMRL# 350 dt 11.200000 rms 0.601 0.148% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9240 tsec 6.1990 #GCMRL# 351 dt 11.200000 rms 0.600 0.158% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9830 tsec 6.2740 #GCMRL# 352 dt 11.200000 rms 0.599 0.162% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8990 tsec 6.1620 #GCMRL# 353 dt 11.200000 rms 0.598 0.158% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7270 tsec 6.0160 #GCMRL# 354 dt 11.200000 rms 0.597 0.157% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8670 tsec 6.1340 #GCMRL# 355 dt 11.200000 rms 0.596 0.155% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8450 tsec 6.1360 #GCMRL# 356 dt 11.200000 rms 0.595 0.153% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9950 tsec 6.2740 #GCMRL# 357 dt 11.200000 rms 0.595 0.154% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9150 tsec 6.1900 #GCMRL# 358 dt 11.200000 rms 0.594 0.143% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9000 tsec 6.1980 #GCMRL# 359 dt 11.200000 rms 0.593 0.137% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0040 tsec 6.2960 #GCMRL# 360 dt 11.200000 rms 0.592 0.133% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9130 tsec 6.2000 #GCMRL# 361 dt 11.200000 rms 0.591 0.135% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9470 tsec 6.2420 #GCMRL# 362 dt 11.200000 rms 0.590 0.137% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9110 tsec 6.1780 #GCMRL# 363 dt 11.200000 rms 0.590 0.138% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9180 tsec 6.2110 #GCMRL# 364 dt 11.200000 rms 0.589 0.129% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9570 tsec 6.2430 #GCMRL# 365 dt 11.200000 rms 0.588 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9010 tsec 6.1640 #GCMRL# 366 dt 11.200000 rms 0.588 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9430 tsec 6.2280 #GCMRL# 367 dt 11.200000 rms 0.587 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9350 tsec 6.2040 #GCMRL# 368 dt 11.200000 rms 0.586 0.099% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9140 tsec 6.1900 #GCMRL# 369 dt 11.200000 rms 0.586 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0220 tsec 6.3070 #GCMRL# 370 dt 11.200000 rms 0.585 0.086% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9320 tsec 6.2960 #GCMRL# 371 dt 11.200000 rms 0.585 0.078% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9370 tsec 6.2270 #GCMRL# 372 dt 11.200000 rms 0.585 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8970 tsec 6.2710 #GCMRL# 373 dt 11.200000 rms 0.584 0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7680 tsec 6.0640 #GCMRL# 374 dt 11.200000 rms 0.584 0.060% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8690 tsec 6.1720 #GCMRL# 375 dt 11.200000 rms 0.584 0.060% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9010 tsec 6.1950 #GCMRL# 376 dt 11.200000 rms 0.583 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9190 tsec 6.2180 #GCMRL# 377 dt 11.200000 rms 0.583 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9000 tsec 6.1990 #GCMRL# 378 dt 11.200000 rms 0.583 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9250 tsec 6.2250 #GCMRL# 379 dt 11.200000 rms 0.582 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9110 tsec 6.2080 #GCMRL# 380 dt 11.200000 rms 0.582 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8490 tsec 6.1590 #GCMRL# 381 dt 11.200000 rms 0.582 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7890 tsec 6.0960 #GCMRL# 382 dt 11.200000 rms 0.581 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0950 tsec 6.3900 #GCMRL# 383 dt 11.200000 rms 0.581 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9310 tsec 6.2340 #GCMRL# 384 dt 11.200000 rms 0.581 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0480 tsec 6.3550 #GCMRL# 385 dt 11.200000 rms 0.581 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8630 tsec 6.1570 #GCMRL# 386 dt 11.200000 rms 0.581 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8820 tsec 6.1650 #GCMRL# 387 dt 11.200000 rms 0.580 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8900 tsec 6.1730 #GCMRL# 388 dt 11.200000 rms 0.580 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8090 tsec 6.0880 #GCMRL# 389 dt 11.200000 rms 0.580 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7620 tsec 6.0340 #GCMRL# 390 dt 11.200000 rms 0.579 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7230 tsec 6.0080 #GCMRL# 391 dt 11.200000 rms 0.579 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7690 tsec 6.0510 #GCMRL# 392 dt 11.200000 rms 0.579 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9460 tsec 6.2420 #GCMRL# 393 dt 11.200000 rms 0.579 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8350 tsec 6.1010 #GCMRL# 394 dt 11.200000 rms 0.578 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8420 tsec 6.1150 #GCMRL# 395 dt 11.200000 rms 0.578 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7600 tsec 6.0540 #GCMRL# 396 dt 11.200000 rms 0.578 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7630 tsec 6.0510 #GCMRL# 397 dt 11.200000 rms 0.578 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7780 tsec 6.0560 #GCMRL# 398 dt 11.200000 rms 0.578 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7330 tsec 6.0310 #GCMRL# 399 dt 11.200000 rms 0.578 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6810 tsec 5.9410 #GCMRL# 400 dt 11.200000 rms 0.577 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7740 tsec 6.0580 #GCMRL# 401 dt 11.200000 rms 0.577 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7380 tsec 6.0440 #GCMRL# 402 dt 11.200000 rms 0.577 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7830 tsec 6.6430 #GCMRL# 403 dt 128.000000 rms 0.577 0.035% neg 0 invalid 762 tFOTS 16.7440 tGradient 4.7800 tsec 22.7870 #FOTS# QuadFit found better minimum quadopt=(dt=2.8,rms=0.577082) vs oldopt=(dt=2,rms=0.577087) 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 0.604055 #GCMRL# 405 dt 0.000000 rms 0.603 0.116% neg 0 invalid 762 tFOTS 15.7640 tGradient 4.1440 tsec 21.1830 #GCMRL# 406 dt 0.150000 rms 0.603 0.000% neg 0 invalid 762 tFOTS 15.5010 tGradient 4.2160 tsec 22.3120 #GCAMreg# pass 0 level1 2 level2 1 tsec 55.288 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 0.604055 #GCMRL# 408 dt 0.000000 rms 0.603 0.116% neg 0 invalid 762 tFOTS 16.8100 tGradient 4.3070 tsec 22.4070 #GCMRL# 409 dt 0.150000 rms 0.603 0.000% neg 0 invalid 762 tFOTS 16.7730 tGradient 4.2330 tsec 23.5120 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 0.656309 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.654834) vs oldopt=(dt=0.32,rms=0.654976) #GCMRL# 411 dt 0.448000 rms 0.655 0.225% neg 0 invalid 762 tFOTS 15.8460 tGradient 4.1400 tsec 21.2860 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.654715) vs oldopt=(dt=0.32,rms=0.654719) #GCMRL# 412 dt 0.256000 rms 0.655 0.000% neg 0 invalid 762 tFOTS 15.7590 tGradient 3.9840 tsec 21.0690 #GCAMreg# pass 0 level1 1 level2 1 tsec 53.777 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 0.655343 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.654074) vs oldopt=(dt=0.32,rms=0.654188) #GCMRL# 414 dt 0.448000 rms 0.654 0.194% neg 0 invalid 762 tFOTS 15.5950 tGradient 4.1270 tsec 20.9750 #GCMRL# 415 dt 0.320000 rms 0.654 0.000% neg 0 invalid 762 tFOTS 15.6030 tGradient 4.0940 tsec 20.9910 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 0.581101 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.562389) vs oldopt=(dt=0.32,rms=0.567421) #GCMRL# 417 dt 0.448000 rms 0.562 3.220% neg 0 invalid 762 tFOTS 15.1420 tGradient 3.2420 tsec 19.6350 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.558694) vs oldopt=(dt=0.32,rms=0.559326) #GCMRL# 418 dt 0.384000 rms 0.559 0.657% neg 0 invalid 762 tFOTS 15.3680 tGradient 3.2730 tsec 19.8760 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.556434) vs oldopt=(dt=0.32,rms=0.556816) #GCMRL# 419 dt 0.384000 rms 0.556 0.404% neg 0 invalid 762 tFOTS 15.3800 tGradient 3.3820 tsec 20.0290 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.555307) vs oldopt=(dt=0.32,rms=0.555496) #GCMRL# 420 dt 0.384000 rms 0.555 0.203% neg 0 invalid 762 tFOTS 15.1710 tGradient 3.1680 tsec 19.5980 #GCMRL# 421 dt 0.320000 rms 0.554 0.150% neg 0 invalid 762 tFOTS 15.0970 tGradient 3.1670 tsec 19.4920 #FOTS# QuadFit found better minimum quadopt=(dt=0.333333,rms=0.553932) vs oldopt=(dt=0.32,rms=0.553952) #GCMRL# 422 dt 0.333333 rms 0.554 0.098% neg 0 invalid 762 tFOTS 15.3640 tGradient 3.1500 tsec 19.7370 #GCMRL# 423 dt 0.320000 rms 0.553 0.098% neg 0 invalid 762 tFOTS 15.1340 tGradient 3.1750 tsec 19.5770 #GCMRL# 424 dt 0.320000 rms 0.553 0.057% neg 0 invalid 762 tFOTS 15.2240 tGradient 3.1530 tsec 19.6420 #GCMRL# 425 dt 0.320000 rms 0.553 0.074% neg 0 invalid 762 tFOTS 15.3390 tGradient 3.1520 tsec 19.7450 #GCMRL# 426 dt 0.320000 rms 0.552 0.000% neg 0 invalid 762 tFOTS 15.3610 tGradient 3.1990 tsec 19.9310 #GCMRL# 427 dt 0.320000 rms 0.552 0.058% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1820 tsec 4.3990 #GCMRL# 428 dt 0.320000 rms 0.552 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2280 tsec 4.4900 #GCMRL# 429 dt 0.160000 rms 0.552 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1560 tsec 5.4080 #GCMRL# 430 dt 0.160000 rms 0.551 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2280 tsec 4.4930 #GCMRL# 431 dt 0.160000 rms 0.551 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1220 tsec 4.3970 #GCMRL# 432 dt 0.160000 rms 0.551 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1660 tsec 4.4080 #GCMRL# 433 dt 0.160000 rms 0.551 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1710 tsec 4.4250 #GCMRL# 434 dt 0.160000 rms 0.550 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1470 tsec 4.4240 #GCMRL# 435 dt 0.160000 rms 0.550 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1380 tsec 4.8580 #GCMRL# 436 dt 0.160000 rms 0.550 0.009% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1740 tsec 4.4270 #GCMRL# 437 dt 0.160000 rms 0.550 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1540 tsec 4.4760 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.550161) vs oldopt=(dt=0.08,rms=0.550167) #GCMRL# 438 dt 0.112000 rms 0.550 0.000% neg 0 invalid 762 tFOTS 14.2520 tGradient 3.1350 tsec 18.6310 #GCMRL# 439 dt 0.112000 rms 0.550 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2410 tsec 4.5130 #GCMRL# 440 dt 0.112000 rms 0.550 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1670 tsec 4.4360 #GCMRL# 441 dt 0.112000 rms 0.550 0.012% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1630 tsec 4.4130 #GCMRL# 442 dt 0.112000 rms 0.550 0.009% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1870 tsec 4.4680 #GCAMreg# pass 0 level1 0 level2 1 tsec 293.383 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 0.550766 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.547506) vs oldopt=(dt=0.08,rms=0.548205) #GCMRL# 444 dt 0.112000 rms 0.548 0.592% neg 0 invalid 762 tFOTS 14.3430 tGradient 3.1820 tsec 18.8020 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.545469) vs oldopt=(dt=0.08,rms=0.546052) #GCMRL# 445 dt 0.112000 rms 0.545 0.372% neg 0 invalid 762 tFOTS 14.0810 tGradient 3.1980 tsec 18.5290 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.543755) vs oldopt=(dt=0.08,rms=0.544241) #GCMRL# 446 dt 0.112000 rms 0.544 0.314% neg 0 invalid 762 tFOTS 14.1730 tGradient 3.2470 tsec 18.6840 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.542356) vs oldopt=(dt=0.08,rms=0.54276) #GCMRL# 447 dt 0.112000 rms 0.542 0.257% neg 0 invalid 762 tFOTS 14.1060 tGradient 3.1520 tsec 18.5210 #FOTS# QuadFit found better minimum quadopt=(dt=0.203125,rms=0.540227) vs oldopt=(dt=0.08,rms=0.541512) #GCMRL# 448 dt 0.203125 rms 0.540 0.392% neg 0 invalid 762 tFOTS 14.1350 tGradient 3.1820 tsec 18.5830 #GCMRL# 449 dt 0.320000 rms 0.538 0.429% neg 0 invalid 762 tFOTS 15.2170 tGradient 3.1980 tsec 19.6620 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.536597) vs oldopt=(dt=0.32,rms=0.536817) #GCMRL# 450 dt 0.384000 rms 0.537 0.244% neg 0 invalid 762 tFOTS 15.3110 tGradient 3.1940 tsec 19.7290 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.536004) vs oldopt=(dt=0.32,rms=0.5361) #GCMRL# 451 dt 0.384000 rms 0.536 0.110% neg 0 invalid 762 tFOTS 15.2010 tGradient 3.1460 tsec 19.5510 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.535706) vs oldopt=(dt=0.32,rms=0.535747) #GCMRL# 452 dt 0.384000 rms 0.536 0.056% neg 0 invalid 762 tFOTS 14.9170 tGradient 3.1560 tsec 19.3580 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.535491) vs oldopt=(dt=0.32,rms=0.535513) #GCMRL# 453 dt 0.384000 rms 0.535 0.000% neg 0 invalid 762 tFOTS 15.2910 tGradient 3.1920 tsec 19.7430 #GCMRL# 454 dt 0.384000 rms 0.535 0.010% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1790 tsec 4.4370 #GCMRL# 455 dt 0.384000 rms 0.535 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2040 tsec 4.4620 #GCMRL# 456 dt 0.384000 rms 0.535 -0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.2200 tsec 6.0970 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.535251) vs oldopt=(dt=0.08,rms=0.535251) #GCMRL# 457 dt 0.112000 rms 0.535 0.001% neg 0 invalid 762 tFOTS 14.8200 tGradient 3.2250 tsec 19.2920 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.535229) vs oldopt=(dt=0.08,rms=0.53523) #GCMRL# 458 dt 0.112000 rms 0.535 0.004% neg 0 invalid 762 tFOTS 14.0830 tGradient 3.1410 tsec 18.4840 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.53525) vs oldopt=(dt=0.08,rms=0.535252) GCAMregister done in 77.6974 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 0.533727 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.532499) vs oldopt=(dt=92.48,rms=0.532544) #GCMRL# 460 dt 73.984000 rms 0.532 0.230% neg 0 invalid 762 tFOTS 18.4020 tGradient 7.1840 tsec 26.8550 #GCMRL# 461 dt 0.850000 rms 0.532 0.000% neg 0 invalid 762 tFOTS 18.4090 tGradient 7.1230 tsec 26.8340 #GCAMreg# pass 0 level1 5 level2 1 tsec 68.464 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 0.533329 #GCMRL# 463 dt 0.000000 rms 0.532 0.158% neg 0 invalid 762 tFOTS 18.5630 tGradient 7.2220 tsec 27.0610 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 0.533356 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.531841) vs oldopt=(dt=25.92,rms=0.531902) #GCMRL# 465 dt 36.288000 rms 0.532 0.284% neg 0 invalid 762 tFOTS 19.6560 tGradient 5.4520 tsec 26.3670 #FOTS# QuadFit found better minimum quadopt=(dt=15.552,rms=0.531768) vs oldopt=(dt=25.92,rms=0.531789) #GCMRL# 466 dt 15.552000 rms 0.532 0.000% neg 0 invalid 762 tFOTS 18.4400 tGradient 5.5260 tsec 25.2860 #GCAMreg# pass 0 level1 4 level2 1 tsec 64.737 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 0.532607 #GCMRL# 468 dt 25.920000 rms 0.531 0.268% neg 0 invalid 762 tFOTS 19.6870 tGradient 5.5050 tsec 26.4280 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.530706) vs oldopt=(dt=25.92,rms=0.530802) #GCMRL# 469 dt 36.288000 rms 0.531 0.000% neg 0 invalid 762 tFOTS 18.3670 tGradient 5.5480 tsec 25.2170 #GCMRL# 470 dt 36.288000 rms 0.530 0.083% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4990 tsec 6.7590 #GCMRL# 471 dt 36.288000 rms 0.530 0.121% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6610 tsec 6.9500 #GCMRL# 472 dt 36.288000 rms 0.529 0.113% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5540 tsec 6.8690 #GCMRL# 473 dt 36.288000 rms 0.528 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5780 tsec 6.8900 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.528118) vs oldopt=(dt=103.68,rms=0.528152) 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 0.529091 #FOTS# QuadFit found better minimum quadopt=(dt=22.1405,rms=0.525521) vs oldopt=(dt=32,rms=0.52601) iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 475 dt 22.140541 rms 0.526 0.675% neg 0 invalid 762 tFOTS 19.7780 tGradient 4.7720 tsec 27.8170 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.525137) vs oldopt=(dt=8,rms=0.525188) iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 476 dt 11.200000 rms 0.525 0.000% neg 0 invalid 762 tFOTS 19.6440 tGradient 4.8040 tsec 27.7570 iter 0, gcam->neg = 2 after 7 iterations, nbhd size=1, neg = 0 #GCMRL# 477 dt 11.200000 rms 0.525 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8640 tsec 11.2640 iter 0, gcam->neg = 1 after 7 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 3 level2 1 tsec 84.201 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 0.525955 #FOTS# QuadFit found better minimum quadopt=(dt=24.2292,rms=0.521981) vs oldopt=(dt=32,rms=0.522376) #GCMRL# 479 dt 24.229195 rms 0.522 0.756% neg 0 invalid 762 tFOTS 19.6660 tGradient 4.7640 tsec 25.7120 #FOTS# QuadFit found better minimum quadopt=(dt=54.6108,rms=0.518619) vs oldopt=(dt=32,rms=0.519061) #GCMRL# 480 dt 54.610778 rms 0.519 0.644% neg 0 invalid 762 tFOTS 19.7530 tGradient 4.8100 tsec 25.8170 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.517277) vs oldopt=(dt=8,rms=0.517465) #GCMRL# 481 dt 11.200000 rms 0.517 0.259% neg 0 invalid 762 tFOTS 19.5350 tGradient 4.8980 tsec 25.6710 #GCMRL# 482 dt 32.000000 rms 0.517 0.000% neg 0 invalid 762 tFOTS 19.4670 tGradient 4.7260 tsec 25.4950 #GCMRL# 483 dt 32.000000 rms 0.515 0.232% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9100 tsec 6.1970 #GCMRL# 484 dt 32.000000 rms 0.514 0.330% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7380 tsec 6.0070 #GCMRL# 485 dt 32.000000 rms 0.513 0.196% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7960 tsec 6.0670 #GCMRL# 486 dt 32.000000 rms 0.510 0.448% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8000 tsec 6.0800 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 487 dt 32.000000 rms 0.508 0.395% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6980 tsec 7.4230 #GCMRL# 488 dt 32.000000 rms 0.507 0.206% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6840 tsec 5.9550 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 489 dt 32.000000 rms 0.506 0.297% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7050 tsec 8.0030 #GCMRL# 490 dt 32.000000 rms 0.504 0.292% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8070 tsec 6.0810 #GCMRL# 491 dt 32.000000 rms 0.504 0.123% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9540 tsec 6.2140 iter 0, gcam->neg = 3 after 10 iterations, nbhd size=1, neg = 0 #GCMRL# 492 dt 32.000000 rms 0.503 0.177% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7620 tsec 12.8780 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 493 dt 32.000000 rms 0.502 0.195% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8450 tsec 7.6890 iter 0, gcam->neg = 4 after 9 iterations, nbhd size=1, neg = 0 #GCMRL# 494 dt 32.000000 rms 0.502 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7600 tsec 12.3490 iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 495 dt 32.000000 rms 0.501 0.156% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8170 tsec 8.1050 iter 0, gcam->neg = 3 after 10 iterations, nbhd size=1, neg = 0 #GCMRL# 496 dt 32.000000 rms 0.501 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.8880 tsec 13.0100 iter 0, gcam->neg = 3 after 8 iterations, nbhd size=1, neg = 0 #GCMRL# 497 dt 32.000000 rms 0.500 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7660 tsec 11.8720 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.499956) vs oldopt=(dt=8,rms=0.500023) #GCMRL# 498 dt 11.200000 rms 0.500 0.069% neg 0 invalid 762 tFOTS 19.6480 tGradient 4.7940 tsec 25.7800 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.4998) vs oldopt=(dt=32,rms=0.499818) #GCMRL# 499 dt 44.800000 rms 0.500 0.000% neg 0 invalid 762 tFOTS 18.7120 tGradient 4.9060 tsec 24.9390 #GCMRL# 500 dt 44.800000 rms 0.500 0.005% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7040 tsec 5.9970 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 0.505132 #FOTS# QuadFit found better minimum quadopt=(dt=2.61224,rms=0.503899) vs oldopt=(dt=2.88,rms=0.503904) #GCMRL# 502 dt 2.612245 rms 0.504 0.244% neg 0 invalid 762 tFOTS 19.6060 tGradient 4.1660 tsec 25.0150 #FOTS# QuadFit found better minimum quadopt=(dt=0.000421875,rms=0.503914) vs oldopt=(dt=0.000703125,rms=0.503914) #GCAMreg# pass 0 level1 2 level2 1 tsec 56.409 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 0.504841 #GCMRL# 504 dt 0.000000 rms 0.504 0.184% neg 0 invalid 762 tFOTS 18.8300 tGradient 4.1570 tsec 24.2820 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 0.51338 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.51242) vs oldopt=(dt=0.32,rms=0.512425) #GCMRL# 506 dt 0.256000 rms 0.512 0.187% neg 0 invalid 762 tFOTS 19.8470 tGradient 4.1420 tsec 25.2800 #FOTS# QuadFit found better minimum quadopt=(dt=0.028,rms=0.512418) vs oldopt=(dt=0.02,rms=0.512419) #GCMRL# 507 dt 0.028000 rms 0.512 0.000% neg 0 invalid 762 tFOTS 19.7440 tGradient 3.8840 tsec 24.9370 #GCMRL# 508 dt 0.028000 rms 0.512 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9820 tsec 5.2470 #GCAMreg# pass 0 level1 1 level2 1 tsec 66.729 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 0.513326 #FOTS# QuadFit found better minimum quadopt=(dt=1.536,rms=0.510809) vs oldopt=(dt=1.28,rms=0.51082) #GCMRL# 510 dt 1.536000 rms 0.511 0.490% neg 0 invalid 762 tFOTS 19.7360 tGradient 4.0130 tsec 25.0310 #FOTS# QuadFit found better minimum quadopt=(dt=1.536,rms=0.510204) vs oldopt=(dt=1.28,rms=0.510217) #GCMRL# 511 dt 1.536000 rms 0.510 0.000% neg 0 invalid 762 tFOTS 19.6020 tGradient 4.0200 tsec 24.9260 iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 512 dt 1.536000 rms 0.510 0.010% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9330 tsec 6.6830 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 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 0.504779 #FOTS# QuadFit found better minimum quadopt=(dt=2.08489,rms=0.463278) vs oldopt=(dt=1.28,rms=0.469593) iter 0, gcam->neg = 789 after 17 iterations, nbhd size=1, neg = 0 #GCMRL# 514 dt 2.084887 rms 0.466 7.713% neg 0 invalid 762 tFOTS 19.8180 tGradient 3.2160 tsec 34.9460 #FOTS# QuadFit found better minimum quadopt=(dt=0.064,rms=0.465684) vs oldopt=(dt=0.08,rms=0.465702) #GCMRL# 515 dt 0.064000 rms 0.466 0.000% neg 0 invalid 762 tFOTS 19.5460 tGradient 3.1640 tsec 24.0140 #GCAMreg# pass 0 level1 0 level2 1 tsec 69.626 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 0.466726 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.464974) vs oldopt=(dt=0.08,rms=0.465071) #GCMRL# 517 dt 0.112000 rms 0.465 0.375% neg 0 invalid 762 tFOTS 19.7670 tGradient 3.1620 tsec 24.1890 #FOTS# QuadFit found better minimum quadopt=(dt=0.028,rms=0.464971) vs oldopt=(dt=0.02,rms=0.464974) #GCMRL# 518 dt 0.028000 rms 0.465 0.000% neg 0 invalid 762 tFOTS 19.3970 tGradient 3.1910 tsec 23.8790 label assignment complete, 0 changed (0.00%) GCAMregister done in 17.5216 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 0.452302 #FOTS# QuadFit found better minimum quadopt=(dt=8.092,rms=0.452296) vs oldopt=(dt=5.78,rms=0.452297) #GCMRL# 520 dt 8.092000 rms 0.452 0.001% neg 0 invalid 762 tFOTS 19.2680 tGradient 6.4770 tsec 26.9940 #GCMRL# 521 dt 0.090313 rms 0.452 0.000% neg 0 invalid 762 tFOTS 19.5430 tGradient 6.5330 tsec 27.3650 #GCAMreg# pass 0 level1 5 level2 1 tsec 68.104 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 0.452296 #FOTS# QuadFit found better minimum quadopt=(dt=55.488,rms=0.451944) vs oldopt=(dt=92.48,rms=0.452006) #GCMRL# 523 dt 55.488000 rms 0.452 0.078% neg 0 invalid 762 tFOTS 18.0190 tGradient 6.4420 tsec 25.6700 #FOTS# QuadFit found better minimum quadopt=(dt=32.368,rms=0.451932) vs oldopt=(dt=23.12,rms=0.451935) #GCMRL# 524 dt 32.368000 rms 0.452 0.000% neg 0 invalid 762 tFOTS 18.9920 tGradient 6.4690 tsec 26.7150 #GCMRL# 525 dt 32.368000 rms 0.452 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.5320 tsec 7.7720 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 0.452089 #FOTS# QuadFit found better minimum quadopt=(dt=0.000354375,rms=0.452089) vs oldopt=(dt=0.000253125,rms=0.452089) #GCMRL# 527 dt 0.000354 rms 0.452 0.000% neg 0 invalid 762 tFOTS 23.3370 tGradient 4.7750 tsec 29.3580 #GCAMreg# pass 0 level1 4 level2 1 tsec 59.569 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 0.452089 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.451941) vs oldopt=(dt=25.92,rms=0.451966) #GCMRL# 529 dt 36.288000 rms 0.452 0.033% neg 0 invalid 762 tFOTS 19.1110 tGradient 4.7070 tsec 25.0580 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.451825) vs oldopt=(dt=103.68,rms=0.451836) #GCMRL# 530 dt 82.944000 rms 0.452 0.000% neg 0 invalid 762 tFOTS 18.2520 tGradient 4.7150 tsec 24.2480 #GCMRL# 531 dt 82.944000 rms 0.452 0.017% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7510 tsec 5.9910 #GCMRL# 532 dt 82.944000 rms 0.452 0.010% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7830 tsec 5.9890 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 0.452319 #FOTS# QuadFit found better minimum quadopt=(dt=2.8,rms=0.452216) vs oldopt=(dt=2,rms=0.452236) #GCMRL# 534 dt 2.800000 rms 0.452 0.023% neg 0 invalid 762 tFOTS 19.1230 tGradient 3.9710 tsec 24.3520 #FOTS# QuadFit found better minimum quadopt=(dt=2.4,rms=0.452191) vs oldopt=(dt=2,rms=0.452191) #GCMRL# 535 dt 2.400000 rms 0.452 0.000% neg 0 invalid 762 tFOTS 19.3870 tGradient 3.9920 tsec 24.6750 #GCAMreg# pass 0 level1 3 level2 1 tsec 60.59 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 0.452191 #FOTS# QuadFit found better minimum quadopt=(dt=65.3333,rms=0.450345) vs oldopt=(dt=32,rms=0.450624) iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 537 dt 65.333333 rms 0.450 0.408% neg 0 invalid 762 tFOTS 19.8110 tGradient 3.9120 tsec 26.4940 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.449391) vs oldopt=(dt=8,rms=0.449582) #GCMRL# 538 dt 11.200000 rms 0.449 0.000% neg 0 invalid 762 tFOTS 19.8610 tGradient 4.0850 tsec 25.2650 #GCMRL# 539 dt 11.200000 rms 0.449 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1320 tsec 5.4120 #GCMRL# 540 dt 11.200000 rms 0.449 0.086% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1310 tsec 5.4830 #GCMRL# 541 dt 11.200000 rms 0.448 0.092% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1520 tsec 5.4320 #GCMRL# 542 dt 11.200000 rms 0.448 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.2310 tsec 5.5200 #GCMRL# 543 dt 11.200000 rms 0.447 0.106% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1580 tsec 5.4520 #GCMRL# 544 dt 11.200000 rms 0.447 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1890 tsec 5.4520 #GCMRL# 545 dt 11.200000 rms 0.446 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1200 tsec 5.4270 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.446162) vs oldopt=(dt=32,rms=0.446229) 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 0.448913 #FOTS# QuadFit found better minimum quadopt=(dt=1.008,rms=0.448862) vs oldopt=(dt=0.72,rms=0.448871) #GCMRL# 547 dt 1.008000 rms 0.449 0.011% neg 0 invalid 762 tFOTS 19.7510 tGradient 3.5830 tsec 24.6170 #FOTS# QuadFit found better minimum quadopt=(dt=0.252,rms=0.448859) vs oldopt=(dt=0.18,rms=0.448859) #GCMRL# 548 dt 0.252000 rms 0.449 0.000% neg 0 invalid 762 tFOTS 19.6600 tGradient 3.5730 tsec 24.5450 #GCAMreg# pass 0 level1 2 level2 1 tsec 60.407 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 0.448859 #FOTS# QuadFit found better minimum quadopt=(dt=15.2195,rms=0.447226) vs oldopt=(dt=11.52,rms=0.447315) iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 550 dt 15.219512 rms 0.447 0.360% neg 0 invalid 762 tFOTS 19.7970 tGradient 3.5990 tsec 26.8400 #FOTS# QuadFit found better minimum quadopt=(dt=19.1712,rms=0.444807) vs oldopt=(dt=11.52,rms=0.445193) iter 0, gcam->neg = 20 after 10 iterations, nbhd size=1, neg = 0 #GCMRL# 551 dt 19.171171 rms 0.445 0.524% neg 0 invalid 762 tFOTS 19.6330 tGradient 3.5520 tsec 31.4120 #FOTS# QuadFit found better minimum quadopt=(dt=3.29412,rms=0.444579) vs oldopt=(dt=2.88,rms=0.444582) iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 552 dt 3.294118 rms 0.445 0.000% neg 0 invalid 762 tFOTS 19.7360 tGradient 3.6180 tsec 26.2800 #GCMRL# 553 dt 3.294118 rms 0.444 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5090 tsec 4.7730 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 554 dt 3.294118 rms 0.444 0.019% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6150 tsec 6.4180 iter 0, gcam->neg = 2 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 555 dt 3.294118 rms 0.444 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6240 tsec 7.5870 iter 0, gcam->neg = 5 after 9 iterations, nbhd size=1, neg = 0 #GCMRL# 556 dt 3.294118 rms 0.444 0.105% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5310 tsec 11.1790 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 557 dt 3.294118 rms 0.443 0.173% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6260 tsec 6.9660 iter 0, gcam->neg = 3 after 3 iterations, nbhd size=0, neg = 0 #GCMRL# 558 dt 3.294118 rms 0.442 0.136% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4790 tsec 7.9040 iter 0, gcam->neg = 3 after 12 iterations, nbhd size=1, neg = 0 #GCMRL# 559 dt 3.294118 rms 0.442 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6160 tsec 16.7070 iter 0, gcam->neg = 1 after 4 iterations, nbhd size=0, neg = 0 #GCMRL# 560 dt 3.294118 rms 0.441 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5970 tsec 11.7040 #FOTS# QuadFit found better minimum quadopt=(dt=4.032,rms=0.441406) vs oldopt=(dt=2.88,rms=0.441415) iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 561 dt 4.032000 rms 0.441 0.000% neg 0 invalid 762 tFOTS 26.4050 tGradient 4.6090 tsec 35.7400 iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 562 dt 4.032000 rms 0.441 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1620 tsec 8.9240 iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 563 dt 4.032000 rms 0.441 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5450 tsec 8.5210 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 564 dt 4.032000 rms 0.441 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5940 tsec 8.5190 iter 0, gcam->neg = 1 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 565 dt 4.032000 rms 0.441 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4670 tsec 10.0240 #GCMRL# 566 dt 4.032000 rms 0.441 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1450 tsec 5.6240 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 567 dt 4.032000 rms 0.441 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3150 tsec 7.4960 iter 0, gcam->neg = 2 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 568 dt 4.032000 rms 0.441 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8420 tsec 7.8760 iter 0, gcam->neg = 2 after 5 iterations, nbhd size=0, 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 0.446106 #GCAMreg# pass 0 level1 1 level2 1 tsec 32.194 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 0.446106 #GCMRL# 571 dt 0.000050 rms 0.446 0.000% neg 0 invalid 762 tFOTS 31.2490 tGradient 4.2100 tsec 36.7810 #FOTS# QuadFit found better minimum quadopt=(dt=0,rms=0.446106) vs oldopt=(dt=0,rms=0.446106) #GCMRL# 572 dt 0.100000 rms 0.446 0.000% neg 0 invalid 762 tFOTS 18.7350 tGradient 3.5110 tsec 23.6180 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 0.437056 #FOTS# QuadFit found better minimum quadopt=(dt=1.31135,rms=0.424822) vs oldopt=(dt=1.28,rms=0.424839) iter 0, gcam->neg = 842 after 17 iterations, nbhd size=1, neg = 0 #GCMRL# 574 dt 1.311348 rms 0.426 2.439% neg 0 invalid 762 tFOTS 19.6300 tGradient 2.5040 tsec 33.9300 #GCMRL# 575 dt 0.000013 rms 0.426 0.000% neg 0 invalid 762 tFOTS 24.1770 tGradient 2.4950 tsec 27.9580 #GCAMreg# pass 0 level1 0 level2 1 tsec 71.785 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 0.426394 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.425707) vs oldopt=(dt=0.08,rms=0.425835) #GCMRL# 577 dt 0.112000 rms 0.426 0.161% neg 0 invalid 762 tFOTS 19.3450 tGradient 2.5910 tsec 23.1590 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.425359) vs oldopt=(dt=0.08,rms=0.425418) #GCMRL# 578 dt 0.112000 rms 0.425 0.000% neg 0 invalid 762 tFOTS 19.3780 tGradient 2.5170 tsec 23.1860 #GCMRL# 579 dt 0.112000 rms 0.425 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.4840 tsec 3.7420 #GCMRL# 580 dt 0.112000 rms 0.425 0.018% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.4670 tsec 3.7150 GCAMregister done in 16.8572 min writing output transformation to transforms/talairach.m3z... GCAMwrite Calls to gcamLogLikelihoodEnergy 4450 tmin = 20.4984 Calls to gcamLabelEnergy 3840 tmin = 1.50408 Calls to gcamJacobianEnergy 4450 tmin = 17.3238 Calls to gcamSmoothnessEnergy 4450 tmin = 14.2674 Calls to gcamLogLikelihoodTerm 582 tmin = 5.45132 Calls to gcamLabelTerm 520 tmin = 8.33322 Calls to gcamJacobianTerm 582 tmin = 12.2842 Calls to gcamSmoothnessTerm 582 tmin = 3.57508 Calls to gcamComputeGradient 582 tmin = 54.2744 Calls to gcamComputeMetricProperties 6151 tmin = 20.1816 mri_ca_register took 2 hours, 21 minutes and 19 seconds. #VMPC# mri_ca_register VmPeak 2091224 FSRUNTIME@ mri_ca_register 2.3554 hours 1 threads @#@FSTIME 2021:09:21:12:02:10 mri_ca_register N 9 e 8479.35 S 16.72 U 8442.56 P 99% M 1338788 F 0 R 22562118 W 0 c 13087 w 66 I 0 O 63800 L 17.01 16.52 15.70 @#@FSLOADPOST 2021:09:21:14:23:30 mri_ca_register N 9 13.00 12.99 12.48 #-------------------------------------- #@# SubCort Seg Tue Sep 21 14:23:30 BST 2021 mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/software/freesurfer/7.1.0/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz sysname Linux hostname cpu-e-183 machine x86_64 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/software/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/software/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 7.43 Atlas used for the 3D morph was /usr/local/software/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 = 0.10602 (27) Left_Lateral_Ventricle (4): linear fit = 1.33 x + 0.0 (6018 voxels, overlap=0.567) Left_Lateral_Ventricle (4): linear fit = 1.33 x + 0.0 (6018 voxels, peak = 26), gca=26.5 gca peak = 0.20380 (13) mri peak = 0.09963 (27) Right_Lateral_Ventricle (43): linear fit = 1.88 x + 0.0 (3689 voxels, overlap=0.318) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (3689 voxels, peak = 25), gca=19.5 gca peak = 0.26283 (96) mri peak = 0.11811 (103) Right_Pallidum (52): linear fit = 1.07 x + 0.0 (759 voxels, overlap=0.786) Right_Pallidum (52): linear fit = 1.07 x + 0.0 (759 voxels, peak = 102), gca=102.2 gca peak = 0.15814 (97) mri peak = 0.10375 (101) Left_Pallidum (13): linear fit = 1.09 x + 0.0 (750 voxels, overlap=0.500) Left_Pallidum (13): linear fit = 1.09 x + 0.0 (750 voxels, peak = 105), gca=105.2 gca peak = 0.27624 (56) mri peak = 0.18662 (50) Right_Hippocampus: unreasonable value (49.6/50.0), not in range [50, 90] - rejecting gca peak = 0.28723 (59) mri peak = 0.12818 (50) Left_Hippocampus (17): linear fit = 0.88 x + 0.0 (774 voxels, overlap=1.005) Left_Hippocampus (17): linear fit = 0.88 x + 0.0 (774 voxels, peak = 52), gca=51.6 gca peak = 0.07623 (103) mri peak = 0.09297 (104) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (51785 voxels, overlap=0.756) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (51785 voxels, peak = 103), gca=103.0 gca peak = 0.07837 (105) mri peak = 0.08430 (101) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (54978 voxels, overlap=0.759) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (54978 voxels, peak = 105), gca=105.0 gca peak = 0.10165 (58) mri peak = 0.04160 (56) Left_Cerebral_Cortex (3): linear fit = 0.96 x + 0.0 (13563 voxels, overlap=0.992) Left_Cerebral_Cortex (3): linear fit = 0.96 x + 0.0 (13563 voxels, peak = 56), gca=56.0 gca peak = 0.11113 (58) mri peak = 0.04304 (56) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (11787 voxels, overlap=0.987) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (11787 voxels, peak = 59), gca=59.4 gca peak = 0.27796 (67) mri peak = 0.07759 (64) Right_Caudate (50): linear fit = 0.94 x + 0.0 (1148 voxels, overlap=1.013) Right_Caudate (50): linear fit = 0.94 x + 0.0 (1148 voxels, peak = 63), gca=63.3 gca peak = 0.14473 (69) mri peak = 0.08431 (75) Left_Caudate (11): linear fit = 0.96 x + 0.0 (1143 voxels, overlap=1.003) Left_Caudate (11): linear fit = 0.96 x + 0.0 (1143 voxels, peak = 67), gca=66.6 gca peak = 0.14301 (56) mri peak = 0.04191 (24) Left_Cerebellum_Cortex (8): linear fit = 0.41 x + 0.0 (4698 voxels, overlap=0.001) Left_Cerebellum_Cortex (8): linear fit = 0.41 x + 0.0 (4698 voxels, peak = 23), gca=23.2 gca peak = 0.14610 (55) mri peak = 0.04363 (45) Right_Cerebellum_Cortex (47): linear fit = 0.81 x + 0.0 (3546 voxels, overlap=0.098) Right_Cerebellum_Cortex (47): linear fit = 0.81 x + 0.0 (3546 voxels, peak = 44), gca=44.3 gca peak = 0.16309 (85) mri peak = 0.07496 (82) Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (839 voxels, overlap=0.997) Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (839 voxels, peak = 81), gca=81.2 gca peak = 0.15172 (84) mri peak = 0.06862 (78) Right_Cerebellum_White_Matter (46): linear fit = 0.95 x + 0.0 (983 voxels, overlap=0.996) Right_Cerebellum_White_Matter (46): linear fit = 0.95 x + 0.0 (983 voxels, peak = 80), gca=80.2 gca peak = 0.30461 (58) mri peak = 0.10870 (54) Left_Amygdala (18): linear fit = 0.94 x + 0.0 (474 voxels, overlap=1.032) Left_Amygdala (18): linear fit = 0.94 x + 0.0 (474 voxels, peak = 55), gca=54.8 gca peak = 0.32293 (57) mri peak = 0.15464 (50) Right_Amygdala: unreasonable value (49.9/50.0), not in range [50, 90] - rejecting gca peak = 0.11083 (90) mri peak = 0.06358 (89) Left_Thalamus (10): linear fit = 1.01 x + 0.0 (3449 voxels, overlap=0.964) Left_Thalamus (10): linear fit = 1.01 x + 0.0 (3449 voxels, peak = 91), gca=91.3 gca peak = 0.11393 (83) mri peak = 0.07626 (88) Right_Thalamus (49): linear fit = 1.09 x + 0.0 (3571 voxels, overlap=0.689) Right_Thalamus (49): linear fit = 1.09 x + 0.0 (3571 voxels, peak = 90), gca=90.1 gca peak = 0.08575 (81) mri peak = 0.06894 (74) Left_Putamen (12): linear fit = 0.93 x + 0.0 (1230 voxels, overlap=0.869) Left_Putamen (12): linear fit = 0.93 x + 0.0 (1230 voxels, peak = 75), gca=74.9 gca peak = 0.08618 (78) mri peak = 0.09115 (74) Right_Putamen (51): linear fit = 0.94 x + 0.0 (1587 voxels, overlap=0.895) Right_Putamen (51): linear fit = 0.94 x + 0.0 (1587 voxels, peak = 73), gca=72.9 gca peak = 0.08005 (78) mri peak = 0.07339 (91) Brain_Stem (16): linear fit = 1.12 x + 0.0 (5317 voxels, overlap=0.492) Brain_Stem (16): linear fit = 1.12 x + 0.0 (5317 voxels, peak = 88), gca=87.8 gca peak = 0.12854 (88) mri peak = 0.07244 (97) Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1231 voxels, overlap=0.297) Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1231 voxels, peak = 99), gca=99.0 gca peak = 0.15703 (87) mri peak = 0.07824 (96) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (1100 voxels, overlap=0.249) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (1100 voxels, peak = 97), gca=97.0 gca peak = 0.17522 (25) mri peak = 0.10698 (28) Third_Ventricle (14): linear fit = 1.10 x + 0.0 (184 voxels, overlap=1.018) Third_Ventricle (14): linear fit = 1.10 x + 0.0 (184 voxels, peak = 27), gca=27.4 gca peak = 0.17113 (14) mri peak = 0.09544 (22) Fourth_Ventricle (15): linear fit = 1.47 x + 0.0 (482 voxels, overlap=0.915) Fourth_Ventricle (15): linear fit = 1.47 x + 0.0 (482 voxels, peak = 21), gca=20.5 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.16627 (28) gca peak Left_Cerebellum_Cortex = 0.14301 (56) 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_Hippocampus = 0.27624 (56) gca peak Right_Amygdala = 0.32293 (57) 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 setting label Right_Hippocampus based on Left_Hippocampus = 0.88 x + 0: 52 setting label Left_Cerebellum_Cortex based on Right_Cerebellum_Cortex = 0.81 x + 0: 44 setting label Right_Amygdala based on Left_Amygdala = 0.94 x + 0: 55 estimating mean gm scale to be 0.94 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.35 x + 0.0 Left_Pallidum too bright - rescaling by 0.959 (from 1.085) to 100.9 (was 105.2) Right_Pallidum too bright - rescaling by 0.987 (from 1.065) to 100.9 (was 102.2) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.11251 (28) mri peak = 0.10602 (27) Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (6018 voxels, overlap=0.882) Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (6018 voxels, peak = 28), gca=27.6 gca peak = 0.17043 (19) mri peak = 0.09963 (27) Right_Lateral_Ventricle (43): linear fit = 1.29 x + 0.0 (3689 voxels, overlap=0.599) Right_Lateral_Ventricle (43): linear fit = 1.29 x + 0.0 (3689 voxels, peak = 25), gca=24.6 gca peak = 0.28664 (100) mri peak = 0.11811 (103) Right_Pallidum (52): linear fit = 1.01 x + 0.0 (759 voxels, overlap=1.006) Right_Pallidum (52): linear fit = 1.01 x + 0.0 (759 voxels, peak = 102), gca=101.5 gca peak = 0.15575 (99) mri peak = 0.10375 (101) Left_Pallidum (13): linear fit = 1.04 x + 0.0 (750 voxels, overlap=0.932) Left_Pallidum (13): linear fit = 1.04 x + 0.0 (750 voxels, peak = 103), gca=103.5 gca peak = 0.29784 (49) mri peak = 0.18662 (50) Right_Hippocampus: unreasonable value (49.7/50.0), not in range [50, 90] - rejecting gca peak = 0.30679 (52) mri peak = 0.12818 (50) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (774 voxels, overlap=1.006) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (774 voxels, peak = 52), gca=52.0 gca peak = 0.07628 (103) mri peak = 0.09297 (104) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (51785 voxels, overlap=0.757) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (51785 voxels, peak = 103), gca=103.0 gca peak = 0.07837 (105) mri peak = 0.08430 (101) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (54978 voxels, overlap=0.759) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (54978 voxels, peak = 105), gca=105.0 gca peak = 0.10502 (56) mri peak = 0.04160 (56) Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (13563 voxels, overlap=1.000) Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (13563 voxels, peak = 57), gca=57.4 gca peak = 0.11155 (60) mri peak = 0.04304 (56) Right_Cerebral_Cortex (42): linear fit = 0.96 x + 0.0 (11787 voxels, overlap=0.968) Right_Cerebral_Cortex (42): linear fit = 0.96 x + 0.0 (11787 voxels, peak = 58), gca=57.9 gca peak = 0.25096 (64) mri peak = 0.07759 (64) Right_Caudate (50): linear fit = 1.05 x + 0.0 (1148 voxels, overlap=1.011) Right_Caudate (50): linear fit = 1.05 x + 0.0 (1148 voxels, peak = 68), gca=67.5 gca peak = 0.14858 (75) mri peak = 0.08431 (75) Left_Caudate (11): linear fit = 1.02 x + 0.0 (1143 voxels, overlap=1.003) Left_Caudate (11): linear fit = 1.02 x + 0.0 (1143 voxels, peak = 77), gca=76.9 gca peak = 0.17758 (45) mri peak = 0.04191 (24) Left_Cerebellum_Cortex (8): linear fit = 0.51 x + 0.0 (4698 voxels, overlap=0.467) Left_Cerebellum_Cortex (8): linear fit = 0.51 x + 0.0 (4698 voxels, peak = 23), gca=23.2 gca peak = 0.16750 (44) mri peak = 0.04363 (45) Right_Cerebellum_Cortex (47): linear fit = 0.98 x + 0.0 (3546 voxels, overlap=0.998) Right_Cerebellum_Cortex (47): linear fit = 0.98 x + 0.0 (3546 voxels, peak = 43), gca=42.9 gca peak = 0.16679 (81) mri peak = 0.07496 (82) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (839 voxels, overlap=0.978) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (839 voxels, peak = 81), gca=81.0 gca peak = 0.16990 (80) mri peak = 0.06862 (78) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (983 voxels, overlap=0.966) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (983 voxels, peak = 80), gca=79.6 gca peak = 0.30276 (55) mri peak = 0.10870 (54) Left_Amygdala (18): linear fit = 0.98 x + 0.0 (474 voxels, overlap=1.028) Left_Amygdala (18): linear fit = 0.98 x + 0.0 (474 voxels, peak = 54), gca=53.6 gca peak = 0.31631 (54) mri peak = 0.15464 (50) Right_Amygdala (54): linear fit = 0.94 x + 0.0 (448 voxels, overlap=1.007) Right_Amygdala (54): linear fit = 0.94 x + 0.0 (448 voxels, peak = 51), gca=51.0 gca peak = 0.10544 (91) mri peak = 0.06358 (89) Left_Thalamus (10): linear fit = 1.00 x + 0.0 (3449 voxels, overlap=0.964) Left_Thalamus (10): linear fit = 1.00 x + 0.0 (3449 voxels, peak = 91), gca=90.5 gca peak = 0.10482 (90) mri peak = 0.07626 (88) Right_Thalamus (49): linear fit = 0.99 x + 0.0 (3571 voxels, overlap=0.912) Right_Thalamus (49): linear fit = 0.99 x + 0.0 (3571 voxels, peak = 89), gca=88.7 gca peak = 0.08513 (75) mri peak = 0.06894 (74) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1230 voxels, overlap=0.984) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1230 voxels, peak = 76), gca=76.1 gca peak = 0.08432 (75) mri peak = 0.09115 (74) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1587 voxels, overlap=1.002) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1587 voxels, peak = 76), gca=76.1 gca peak = 0.07364 (88) mri peak = 0.07339 (91) Brain_Stem (16): linear fit = 0.99 x + 0.0 (5317 voxels, overlap=0.842) Brain_Stem (16): linear fit = 0.99 x + 0.0 (5317 voxels, peak = 87), gca=86.7 gca peak = 0.11463 (99) mri peak = 0.07244 (97) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1231 voxels, overlap=0.853) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1231 voxels, peak = 99), gca=99.5 gca peak = 0.14619 (95) mri peak = 0.07824 (96) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1100 voxels, overlap=0.891) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1100 voxels, peak = 95), gca=95.5 gca peak = 0.20057 (29) mri peak = 0.10698 (28) Third_Ventricle (14): linear fit = 0.99 x + 0.0 (184 voxels, overlap=1.009) Third_Ventricle (14): linear fit = 0.99 x + 0.0 (184 voxels, peak = 29), gca=28.6 gca peak = 0.12908 (21) mri peak = 0.09544 (22) Fourth_Ventricle (15): linear fit = 0.89 x + 0.0 (482 voxels, overlap=0.715) Fourth_Ventricle (15): linear fit = 0.89 x + 0.0 (482 voxels, peak = 19), gca=18.8 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.20983 (24) gca peak Left_Cerebellum_Cortex = 0.17758 (45) gca peak CSF = 0.15178 (49) gca peak Left_Accumbens_area = 0.80262 (60) gca peak Left_undetermined = 0.99358 (31) gca peak Left_vessel = 0.89301 (53) gca peak Left_choroid_plexus = 0.11176 (35) gca peak Right_Inf_Lat_Vent = 0.24220 (20) gca peak Right_Hippocampus = 0.29784 (49) gca peak Right_Accumbens_area = 0.40036 (61) gca peak Right_vessel = 0.78616 (52) gca peak Right_choroid_plexus = 0.13293 (38) gca peak Fifth_Ventricle = 0.77755 (43) gca peak WM_hypointensities = 0.10194 (77) gca peak non_WM_hypointensities = 0.11354 (41) gca peak Optic_Chiasm = 0.55066 (76) not using caudate to estimate GM means setting label Right_Hippocampus based on Left_Hippocampus = 1.00 x + 0: 52 setting label Left_Cerebellum_Cortex based on Right_Cerebellum_Cortex = 0.98 x + 0: 43 estimating mean gm scale to be 0.98 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.04 x + 0.0 Left_Pallidum too bright - rescaling by 0.975 (from 1.045) to 100.9 (was 103.5) Right_Pallidum too bright - rescaling by 0.994 (from 1.015) to 100.9 (was 101.5) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 115474 voxels changed in iteration 0 of unlikely voxel relabeling 371 voxels changed in iteration 1 of unlikely voxel relabeling 33 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 39286 gm and wm labels changed (%28 to gray, %72 to white out of all changed labels) 567 hippocampal voxels changed. 0 amygdala voxels changed. Reclassifying using Gibbs Priors pass 1: 101084 changed. image ll: -2.200, PF=0.500 pass 2: 33006 changed. image ll: -2.200, PF=0.500 pass 3: 10812 changed. pass 4: 4129 changed. 76612 voxels changed in iteration 0 of unlikely voxel relabeling 310 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 8608 voxels changed in iteration 0 of unlikely voxel relabeling 109 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 7893 voxels changed in iteration 0 of unlikely voxel relabeling 97 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 6341 voxels changed in iteration 0 of unlikely voxel relabeling 39 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 0 with volume 17292 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 578 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 119 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 3 with volume 12256 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 110 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 895 above threshold 100 - not erasing !!!!!!!!!! writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 2826.289257 mri_ca_label stimesec 4.930326 mri_ca_label ru_maxrss 2116208 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 4376299 mri_ca_label ru_majflt 0 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 3112 mri_ca_label ru_oublock 760 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 80 mri_ca_label ru_nivcsw 4558 auto-labeling took 47 minutes and 18 seconds. @#@FSTIME 2021:09:21:14:23:30 mri_ca_label N 10 e 2838.15 S 5.02 U 2826.28 P 99% M 2116208 F 0 R 4376319 W 0 c 4560 w 81 I 3112 O 760 L 13.00 12.99 12.48 @#@FSLOADPOST 2021:09:21:15:10:48 mri_ca_label N 10 10.97 11.21 11.47 #-------------------------------------- #@# CC Seg Tue Sep 21 15:10:48 BST 2021 mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/cc_up.lta 32004 will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/cc_up.lta reading aseg from /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/aseg.auto_noCCseg.mgz reading norm from /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/norm.mgz 118409 voxels in left wm, 79912 in right wm, xrange [117, 138] searching rotation angles z=[-3 11], y=[-2 12] searching scale 1 Z rot -3.4 searching scale 1 Z rot -3.2 searching scale 1 Z rot -2.9 searching scale 1 Z rot -2.7 searching scale 1 Z rot -2.4 searching scale 1 Z rot -2.2 searching scale 1 Z rot -1.9 searching scale 1 Z rot -1.7 searching scale 1 Z rot -1.4 searching scale 1 Z rot -1.2 searching scale 1 Z rot -0.9 searching scale 1 Z rot -0.7 searching scale 1 Z rot -0.4 searching scale 1 Z rot -0.2 searching scale 1 Z rot 0.1 searching scale 1 Z rot 0.3 searching scale 1 Z rot 0.6 searching scale 1 Z rot 0.8 searching scale 1 Z rot 1.1 searching scale 1 Z rot 1.3 searching scale 1 Z rot 1.6 searching scale 1 Z rot 1.8 searching scale 1 Z rot 2.1 searching scale 1 Z rot 2.3 searching scale 1 Z rot 2.6 searching scale 1 Z rot 2.8 searching scale 1 Z rot 3.1 searching scale 1 Z rot 3.3 searching scale 1 Z rot 3.6 searching scale 1 Z rot 3.8 searching scale 1 Z rot 4.1 searching scale 1 Z rot 4.3 searching scale 1 Z rot 4.6 searching scale 1 Z rot 4.8 searching scale 1 Z rot 5.1 searching scale 1 Z rot 5.3 searching scale 1 Z rot 5.6 searching scale 1 Z rot 5.8 searching scale 1 Z rot 6.1 searching scale 1 Z rot 6.3 searching scale 1 Z rot 6.6 searching scale 1 Z rot 6.8 searching scale 1 Z rot 7.1 searching scale 1 Z rot 7.3 searching scale 1 Z rot 7.6 searching scale 1 Z rot 7.8 searching scale 1 Z rot 8.1 searching scale 1 Z rot 8.3 searching scale 1 Z rot 8.6 searching scale 1 Z rot 8.8 searching scale 1 Z rot 9.1 searching scale 1 Z rot 9.3 searching scale 1 Z rot 9.6 searching scale 1 Z rot 9.8 global minimum found at slice 126.0, rotations (5.12, 3.08) final transformation (x=126.0, yr=5.120, zr=3.084): 0.99457 -0.05380 0.08911 -1.25577; 0.05358 0.99855 0.00480 16.88544; -0.08924 0.00000 0.99601 32.67163; 0.00000 0.00000 0.00000 1.00000; updating x range to be [124, 129] in xformed coordinates best xformed slice 126 cc center is found at 126 104 107 eigenvectors: 0.00123 -0.00133 1.00000; -0.12057 -0.99270 -0.00117; 0.99270 -0.12056 -0.00138; error in mid anterior detected - correcting... writing aseg with callosum to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/aseg.auto.mgz... corpus callosum segmentation took 2.1 minutes @#@FSTIME 2021:09:21:15:10:48 mri_cc N 7 e 127.91 S 0.20 U 127.39 P 99% M 340044 F 0 R 23423 W 0 c 340 w 59 I 0 O 744 L 10.97 11.21 11.47 @#@FSLOADPOST 2021:09:21:15:12:56 mri_cc N 7 10.98 11.13 11.40 #-------------------------------------- #@# Merge ASeg Tue Sep 21 15:12:56 BST 2021 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Tue Sep 21 15:12:56 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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... 2361 control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... Smoothing with sigma 8 Applying bias correction building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 62 (62), valley at 38 (38) csf peak at 32, setting threshold to 52 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 60 (60), valley at 37 (37) csf peak at 30, setting threshold to 50 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 2 minutes and 29 seconds. @#@FSTIME 2021:09:21:15:12:56 mri_normalize N 9 e 150.07 S 0.96 U 148.65 P 99% M 1233084 F 0 R 322489 W 0 c 377 w 73 I 2960 O 2904 L 10.98 11.13 11.40 @#@FSLOADPOST 2021:09:21:15:15:26 mri_normalize N 9 11.02 11.09 11.35 #-------------------------------------------- #@# Mask BFS Tue Sep 21 15:15:26 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz threshold mask volume at 5 DoAbs = 0 Found 1687345 voxels in mask (pct= 10.06) MRImask(): AllowDiffGeom = 1 Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2021:09:21:15:15:26 mri_mask N 5 e 0.98 S 0.02 U 0.93 P 98% M 70572 F 0 R 3446 W 0 c 7 w 52 I 0 O 2848 L 11.02 11.09 11.35 @#@FSLOADPOST 2021:09:21:15:15:27 mri_mask N 5 11.02 11.09 11.35 #-------------------------------------------- #@# WM Segmentation Tue Sep 21 15:15:27 BST 2021 AntsDenoiseImageFs -i brain.mgz -o antsdn.brain.mgz @#@FSTIME 2021:09:21:15:15:27 AntsDenoiseImageFs N 4 e 51.12 S 0.08 U 50.91 P 99% M 347528 F 0 R 7701 W 0 c 106 w 36 I 0 O 2896 L 11.10 11.11 11.35 @#@FSLOADPOST 2021:09:21:15:16:18 AntsDenoiseImageFs N 4 11.04 11.09 11.33 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 (104.0): 105.0 +- 4.7 [79.0 --> 125.0] CCS GM (67.0) : 64.3 +- 12.8 [30.0 --> 95.0] white_mean 104.975 white_sigma 4.6729 gray_mean 64.2516 gray_sigma 12.7944 setting bottom of white matter range wm_low to 77.0 setting top of gray matter range gray_hi to 89.8 wm_low 77.0459 wm_hi 125 gray_low 30 gray_hi 89.8403 Redoing initial intensity segmentation... Recomputing local statistics to label ambiguous voxels... wm_low 77.0459 wm_hi 125 gray_low 30 gray_hi 89.8403 using local geometry to label remaining ambiguous voxels... polvwsize = 5, polvlen = 3, gray_hi = 89.8403, wm_low = 77.0459 MRIcpolvMedianCurveSegment(): wsize=5, len=3, gmhi=89.8403, wmlow=77.0459 136491 voxels processed (0.81%) 63080 voxels white (0.38%) 73411 voxels non-white (0.44%) Reclassifying voxels using Gaussian border classifier niter=1 MRIreclassify(): wm_low=72.0459, gray_hi=89.8403, wsize=13 203213 voxels tested (1.21%) 64650 voxels changed (0.39%) 40852 multi-scale searches (0.24%) Recovering bright white MRIrecoverBrightWhite() wm_low 77.0459 wm_hi 125 slack 4.6729 pct_thresh 0.33 intensity_thresh 129.673 nvox_thresh 8.58 417 voxels tested (0.00%) 270 voxels changed (0.00%) removing voxels with positive offset direction... MRIremoveWrongDirection() wsize=3, lowthr=72.0459, hithr=89.8403 smoothing input volume with sigma = 0.250 103012 voxels tested (0.61%) 20959 voxels changed (0.12%) thicken = 1 removing 1-dimensional structures... MRIremove1dStructures(): max_iter=10000, thresh=2, WM_MIN_VAL=5 7669 sparsely connected voxels removed in 1 iterations thickening thin strands.... thickness 4 nsegments 20 wm_hi 125 4490 diagonally connected voxels added... MRIthickenThinWMStrands(): thickness=4, nsegments=20 20 segments, 5937 filled MRIfindBrightNonWM(): 1079 bright non-wm voxels segmented. MRIfilterMorphology() WM_MIN_VAL=5, DIAGONAL_FILL=230 white matter segmentation took 1.3 minutes writing output to wm.seg.mgz... @#@FSTIME 2021:09:21:15:16:18 mri_segment N 5 e 79.02 S 0.19 U 78.63 P 99% M 153076 F 0 R 51801 W 0 c 176 w 50 I 0 O 1024 L 11.04 11.09 11.33 @#@FSLOADPOST 2021:09:21:15:17:37 mri_segment N 5 11.03 11.07 11.31 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 0.45 minutes reading wm segmentation from wm.seg.mgz... 0 voxels added to wm to prevent paths from MTL structures to cortex 3615 additional wm voxels added 0 additional wm voxels added SEG EDIT: 75656 voxels turned on, 12035 voxels turned off. propagating editing to output volume from wm.seg.mgz 115,126,128 old 96 new 96 115,126,128 old 96 new 96 writing edited volume to wm.asegedit.mgz.... @#@FSTIME 2021:09:21:15:17:37 mri_edit_wm_with_aseg N 5 e 26.84 S 0.13 U 26.61 P 99% M 473352 F 0 R 26280 W 0 c 56 w 87 I 0 O 1000 L 11.03 11.07 11.31 @#@FSLOADPOST 2021:09:21:15:18:04 mri_edit_wm_with_aseg N 5 11.02 11.07 11.30 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-): 43 found - 43 modified | TOTAL: 64 pass 2 (xy-): 0 found - 43 modified | TOTAL: 64 pass 1 (yz+): 34 found - 34 modified | TOTAL: 98 pass 2 (yz+): 0 found - 34 modified | TOTAL: 98 pass 1 (yz-): 41 found - 41 modified | TOTAL: 139 pass 2 (yz-): 0 found - 41 modified | TOTAL: 139 pass 1 (xz+): 30 found - 30 modified | TOTAL: 169 pass 2 (xz+): 0 found - 30 modified | TOTAL: 169 pass 1 (xz-): 38 found - 38 modified | TOTAL: 207 pass 2 (xz-): 0 found - 38 modified | TOTAL: 207 Iteration Number : 1 pass 1 (+++): 30 found - 30 modified | TOTAL: 30 pass 2 (+++): 0 found - 30 modified | TOTAL: 30 pass 1 (+++): 32 found - 32 modified | TOTAL: 62 pass 2 (+++): 0 found - 32 modified | TOTAL: 62 pass 1 (+++): 34 found - 34 modified | TOTAL: 96 pass 2 (+++): 0 found - 34 modified | TOTAL: 96 pass 1 (+++): 32 found - 32 modified | TOTAL: 128 pass 2 (+++): 0 found - 32 modified | TOTAL: 128 Iteration Number : 1 pass 1 (++): 192 found - 192 modified | TOTAL: 192 pass 2 (++): 0 found - 192 modified | TOTAL: 192 pass 1 (+-): 224 found - 224 modified | TOTAL: 416 pass 2 (+-): 0 found - 224 modified | TOTAL: 416 pass 1 (--): 190 found - 190 modified | TOTAL: 606 pass 2 (--): 0 found - 190 modified | TOTAL: 606 pass 1 (-+): 184 found - 184 modified | TOTAL: 790 pass 2 (-+): 0 found - 184 modified | TOTAL: 790 Iteration Number : 2 pass 1 (xy+): 12 found - 12 modified | TOTAL: 12 pass 2 (xy+): 0 found - 12 modified | TOTAL: 12 pass 1 (xy-): 5 found - 5 modified | TOTAL: 17 pass 2 (xy-): 0 found - 5 modified | TOTAL: 17 pass 1 (yz+): 4 found - 4 modified | TOTAL: 21 pass 2 (yz+): 0 found - 4 modified | TOTAL: 21 pass 1 (yz-): 7 found - 7 modified | TOTAL: 28 pass 2 (yz-): 0 found - 7 modified | TOTAL: 28 pass 1 (xz+): 8 found - 8 modified | TOTAL: 36 pass 2 (xz+): 0 found - 8 modified | TOTAL: 36 pass 1 (xz-): 9 found - 9 modified | TOTAL: 45 pass 2 (xz-): 0 found - 9 modified | TOTAL: 45 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 2 found - 2 modified | TOTAL: 4 pass 2 (+++): 0 found - 2 modified | TOTAL: 4 pass 1 (+++): 0 found - 0 modified | TOTAL: 4 Iteration Number : 2 pass 1 (++): 6 found - 6 modified | TOTAL: 6 pass 2 (++): 0 found - 6 modified | TOTAL: 6 pass 1 (+-): 4 found - 4 modified | TOTAL: 10 pass 2 (+-): 0 found - 4 modified | TOTAL: 10 pass 1 (--): 7 found - 7 modified | TOTAL: 17 pass 2 (--): 0 found - 7 modified | TOTAL: 17 pass 1 (-+): 4 found - 4 modified | TOTAL: 21 pass 2 (-+): 0 found - 4 modified | TOTAL: 21 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+): 1 found - 1 modified | TOTAL: 1 pass 2 (xz+): 0 found - 1 modified | TOTAL: 1 pass 1 (xz-): 0 found - 0 modified | TOTAL: 1 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 1196 (out of 643519: 0.185853) binarizing input wm segmentation... Ambiguous edge configurations... mri_pretess done @#@FSTIME 2021:09:21:15:18:04 mri_pretess N 4 e 2.97 S 0.02 U 2.93 P 99% M 53480 F 0 R 2665 W 0 c 91 w 53 I 0 O 1000 L 11.02 11.07 11.30 @#@FSLOADPOST 2021:09:21:15:18:07 mri_pretess N 4 11.02 11.07 11.30 #-------------------------------------------- #@# Fill Tue Sep 21 15:18:07 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78578; -0.06896 -0.19023 0.92658 30.29878; 0.00000 0.00000 0.00000 1.00000; voxel to talairach voxel transform 1.00829 -0.04266 0.08389 -5.64949; 0.02586 1.09666 0.23391 -45.78578; -0.06896 -0.19023 0.92658 30.29878; 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] = 1524 (min = 350, max = 1400), aspect = 0.49 (min = 0.10, max = 0.75) need search nearby using seed (124, 108, 96), TAL = (4.0, -32.0, 20.0) talairach voxel to voxel transform 0.98475 0.02188 -0.09468 9.43378; -0.03722 0.87277 -0.21696 46.32387; 0.06564 0.18081 1.02765 -22.48705; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (124, 108, 96) --> (4.0, -32.0, 20.0) done. writing output to filled.mgz... filling took 1.2 minutes talairach cc position changed to (4.00, -32.00, 20.00) Erasing brainstem...done. MRImask(): AllowDiffGeom = 1 seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(22.00, -32.00, 20.00) SRC: (107.09, 115.81, 102.65) search lh wm seed point around talairach space (-14.00, -32.00, 20.00), SRC: (142.54, 114.47, 105.02) 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 2021:09:21:15:18:07 mri_fill N 8 e 71.65 S 0.91 U 70.52 P 99% M 991876 F 0 R 442149 W 0 c 204 w 65 I 8 O 280 L 11.02 11.07 11.30 @#@FSLOADPOST 2021:09:21:15:19:19 mri_fill N 8 11.01 11.05 11.28 #-------------------------------------------- #@# Tessellate lh Tue Sep 21 15:19:19 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz Iteration Number : 1 pass 1 (xy+): 2 found - 2 modified | TOTAL: 2 pass 2 (xy+): 0 found - 2 modified | TOTAL: 2 pass 1 (xy-): 0 found - 0 modified | TOTAL: 2 pass 1 (yz+): 9 found - 9 modified | TOTAL: 11 pass 2 (yz+): 0 found - 9 modified | TOTAL: 11 pass 1 (yz-): 10 found - 10 modified | TOTAL: 21 pass 2 (yz-): 0 found - 10 modified | TOTAL: 21 pass 1 (xz+): 1 found - 1 modified | TOTAL: 22 pass 2 (xz+): 0 found - 1 modified | TOTAL: 22 pass 1 (xz-): 3 found - 3 modified | TOTAL: 25 pass 2 (xz-): 0 found - 3 modified | TOTAL: 25 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 2 found - 2 modified | TOTAL: 2 pass 2 (yz+): 0 found - 2 modified | TOTAL: 2 pass 1 (yz-): 0 found - 0 modified | TOTAL: 2 pass 1 (xz+): 0 found - 0 modified | TOTAL: 2 pass 1 (xz-): 0 found - 0 modified | TOTAL: 2 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 28 (out of 302409: 0.009259) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2021:09:21:15:19:19 mri_pretess N 4 e 1.68 S 0.01 U 1.62 P 97% M 36920 F 0 R 1710 W 0 c 56 w 56 I 0 O 272 L 11.01 11.05 11.28 @#@FSLOADPOST 2021:09:21:15:19:21 mri_pretess N 4 11.01 11.05 11.28 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix 7.1.0 7.1.0 slice 40: 111 vertices, 138 faces slice 50: 3529 vertices, 3728 faces slice 60: 11312 vertices, 11629 faces slice 70: 20561 vertices, 20943 faces slice 80: 30580 vertices, 30950 faces slice 90: 41142 vertices, 41522 faces slice 100: 51715 vertices, 52070 faces slice 110: 63294 vertices, 63703 faces slice 120: 74899 vertices, 75322 faces slice 130: 85828 vertices, 86202 faces slice 140: 95691 vertices, 96084 faces slice 150: 105852 vertices, 106196 faces slice 160: 113888 vertices, 114183 faces slice 170: 121614 vertices, 121949 faces slice 180: 128631 vertices, 128898 faces slice 190: 134382 vertices, 134599 faces slice 200: 139001 vertices, 139184 faces slice 210: 141148 vertices, 141192 faces slice 220: 141148 vertices, 141192 faces slice 230: 141148 vertices, 141192 faces slice 240: 141148 vertices, 141192 faces slice 250: 141148 vertices, 141192 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 2021:09:21:15:19:21 mri_tessellate N 3 e 1.25 S 0.01 U 1.22 P 98% M 45684 F 0 R 1843 W 0 c 5 w 42 I 0 O 6624 L 11.01 11.05 11.28 @#@FSLOADPOST 2021:09:21:15:19:22 mri_tessellate N 3 11.01 11.05 11.28 rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix counting number of connected components... 141148 voxel in cpt #1: X=-44 [v=141148,e=423576,f=282384] located at (-25.762463, -10.604960, 12.619555) For the whole surface: X=-44 [v=141148,e=423576,f=282384] One single component has been found nothing to do done @#@FSTIME 2021:09:21:15:19:22 mris_extract_main_component N 2 e 0.90 S 0.11 U 0.76 P 97% M 278304 F 0 R 30027 W 0 c 8 w 31 I 0 O 9928 L 11.09 11.07 11.28 @#@FSLOADPOST 2021:09:21:15:19:23 mris_extract_main_component N 2 11.09 11.07 11.28 #-------------------------------------------- #@# Tessellate rh Tue Sep 21 15:19:23 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz Iteration Number : 1 pass 1 (xy+): 3 found - 3 modified | TOTAL: 3 pass 2 (xy+): 0 found - 3 modified | TOTAL: 3 pass 1 (xy-): 1 found - 1 modified | TOTAL: 4 pass 2 (xy-): 0 found - 1 modified | TOTAL: 4 pass 1 (yz+): 10 found - 10 modified | TOTAL: 14 pass 2 (yz+): 0 found - 10 modified | TOTAL: 14 pass 1 (yz-): 8 found - 8 modified | TOTAL: 22 pass 2 (yz-): 0 found - 8 modified | TOTAL: 22 pass 1 (xz+): 1 found - 1 modified | TOTAL: 23 pass 2 (xz+): 0 found - 1 modified | TOTAL: 23 pass 1 (xz-): 2 found - 2 modified | TOTAL: 25 pass 2 (xz-): 0 found - 2 modified | TOTAL: 25 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 1 found - 1 modified | TOTAL: 1 pass 2 (+-): 0 found - 1 modified | TOTAL: 1 pass 1 (--): 1 found - 1 modified | TOTAL: 2 pass 2 (--): 0 found - 1 modified | TOTAL: 2 pass 1 (-+): 0 found - 0 modified | TOTAL: 2 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 1 found - 1 modified | TOTAL: 1 pass 2 (yz+): 0 found - 1 modified | TOTAL: 1 pass 1 (yz-): 0 found - 0 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 0 found - 0 modified | TOTAL: 1 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 28 (out of 297362: 0.009416) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2021:09:21:15:19:23 mri_pretess N 4 e 1.76 S 0.01 U 1.71 P 98% M 36920 F 0 R 2221 W 0 c 57 w 53 I 0 O 272 L 11.09 11.07 11.28 @#@FSLOADPOST 2021:09:21:15:19:25 mri_pretess N 4 11.09 11.07 11.28 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix 7.1.0 7.1.0 slice 40: 715 vertices, 820 faces slice 50: 6260 vertices, 6504 faces slice 60: 15226 vertices, 15572 faces slice 70: 26058 vertices, 26458 faces slice 80: 37305 vertices, 37665 faces slice 90: 48217 vertices, 48584 faces slice 100: 59430 vertices, 59824 faces slice 110: 70888 vertices, 71255 faces slice 120: 81363 vertices, 81715 faces slice 130: 91571 vertices, 91951 faces slice 140: 100627 vertices, 100943 faces slice 150: 108598 vertices, 108855 faces slice 160: 114725 vertices, 114947 faces slice 170: 121609 vertices, 121853 faces slice 180: 127445 vertices, 127664 faces slice 190: 132476 vertices, 132659 faces slice 200: 136570 vertices, 136716 faces slice 210: 138092 vertices, 138110 faces slice 220: 138092 vertices, 138110 faces slice 230: 138092 vertices, 138110 faces slice 240: 138092 vertices, 138110 faces slice 250: 138092 vertices, 138110 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 2021:09:21:15:19:25 mri_tessellate N 3 e 1.23 S 0.01 U 1.20 P 99% M 45172 F 0 R 1715 W 0 c 5 w 41 I 0 O 6480 L 11.09 11.07 11.28 @#@FSLOADPOST 2021:09:21:15:19:26 mri_tessellate N 3 11.09 11.07 11.28 rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix counting number of connected components... 138092 voxel in cpt #1: X=-18 [v=138092,e=414330,f=276220] located at (29.820765, -16.625374, 12.622209) For the whole surface: X=-18 [v=138092,e=414330,f=276220] One single component has been found nothing to do done @#@FSTIME 2021:09:21:15:19:26 mris_extract_main_component N 2 e 0.90 S 0.09 U 0.80 P 98% M 272320 F 0 R 28432 W 0 c 9 w 29 I 0 O 9712 L 11.09 11.07 11.28 @#@FSLOADPOST 2021:09:21:15:19:27 mris_extract_main_component N 2 11.08 11.07 11.28 #-------------------------------------------- #@# Smooth1 lh Tue Sep 21 15:19:27 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:15:19:27 mris_smooth N 5 e 3.03 S 0.11 U 2.89 P 99% M 222148 F 0 R 52500 W 0 c 10 w 35 I 0 O 9936 L 11.08 11.07 11.28 @#@FSLOADPOST 2021:09:21:15:19:30 mris_smooth N 5 11.08 11.07 11.28 #-------------------------------------------- #@# Smooth1 rh Tue Sep 21 15:19:30 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:15:19:30 mris_smooth N 5 e 2.94 S 0.12 U 2.80 P 99% M 217260 F 0 R 53122 W 0 c 11 w 35 I 0 O 9720 L 11.08 11.07 11.28 @#@FSLOADPOST 2021:09:21:15:19:33 mris_smooth N 5 11.07 11.07 11.28 #-------------------------------------------- #@# Inflation1 lh Tue Sep 21 15:19:33 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 49.0 mm, total surface area = 75995 mm^2 step 000: RMS=0.149 (target=0.015) step 005: RMS=0.113 (target=0.015) step 010: RMS=0.084 (target=0.015) step 015: RMS=0.071 (target=0.015) step 020: RMS=0.062 (target=0.015) step 025: RMS=0.054 (target=0.015) step 030: RMS=0.048 (target=0.015) step 035: RMS=0.044 (target=0.015) step 040: RMS=0.041 (target=0.015) step 045: RMS=0.039 (target=0.015) step 050: RMS=0.038 (target=0.015) step 055: RMS=0.038 (target=0.015) step 060: RMS=0.037 (target=0.015) writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.3 minutes inflation complete. Not saving sulc mris_inflate utimesec 19.346828 mris_inflate stimesec 0.206485 mris_inflate ru_maxrss 292928 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 143680 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9936 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 40 mris_inflate ru_nivcsw 64 @#@FSTIME 2021:09:21:15:19:33 mris_inflate N 3 e 19.63 S 0.22 U 19.34 P 99% M 292960 F 0 R 143701 W 0 c 65 w 41 I 0 O 9936 L 11.07 11.07 11.28 @#@FSLOADPOST 2021:09:21:15:19:53 mris_inflate N 3 11.12 11.08 11.28 #-------------------------------------------- #@# Inflation1 rh Tue Sep 21 15:19:53 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 50.0 mm, total surface area = 74811 mm^2 step 000: RMS=0.148 (target=0.015) step 005: RMS=0.112 (target=0.015) step 010: RMS=0.083 (target=0.015) step 015: RMS=0.069 (target=0.015) step 020: RMS=0.060 (target=0.015) step 025: RMS=0.053 (target=0.015) step 030: RMS=0.047 (target=0.015) step 035: RMS=0.044 (target=0.015) step 040: RMS=0.042 (target=0.015) step 045: RMS=0.040 (target=0.015) step 050: RMS=0.039 (target=0.015) step 055: RMS=0.039 (target=0.015) step 060: RMS=0.038 (target=0.015) writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.3 minutes inflation complete. Not saving sulc mris_inflate utimesec 19.138349 mris_inflate stimesec 0.192520 mris_inflate ru_maxrss 286712 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 144106 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9720 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 37 mris_inflate ru_nivcsw 67 @#@FSTIME 2021:09:21:15:19:53 mris_inflate N 3 e 19.40 S 0.20 U 19.13 P 99% M 286744 F 0 R 144127 W 0 c 68 w 38 I 0 O 9720 L 11.12 11.08 11.28 @#@FSLOADPOST 2021:09:21:15:20:13 mris_inflate N 3 11.09 11.07 11.27 #-------------------------------------------- #@# QSphere lh Tue Sep 21 15:20:13 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 0.301... inflating... Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=176.651, avgs=0 005/300: dt: 0.9000, rms radial error=176.392, avgs=0 010/300: dt: 0.9000, rms radial error=175.836, avgs=0 015/300: dt: 0.9000, rms radial error=175.105, avgs=0 020/300: dt: 0.9000, rms radial error=174.273, avgs=0 025/300: dt: 0.9000, rms radial error=173.381, avgs=0 030/300: dt: 0.9000, rms radial error=172.456, avgs=0 035/300: dt: 0.9000, rms radial error=171.514, avgs=0 040/300: dt: 0.9000, rms radial error=170.564, avgs=0 045/300: dt: 0.9000, rms radial error=169.612, avgs=0 050/300: dt: 0.9000, rms radial error=168.666, avgs=0 055/300: dt: 0.9000, rms radial error=167.722, avgs=0 060/300: dt: 0.9000, rms radial error=166.782, avgs=0 065/300: dt: 0.9000, rms radial error=165.845, avgs=0 070/300: dt: 0.9000, rms radial error=164.914, avgs=0 075/300: dt: 0.9000, rms radial error=163.987, avgs=0 080/300: dt: 0.9000, rms radial error=163.065, avgs=0 085/300: dt: 0.9000, rms radial error=162.148, avgs=0 090/300: dt: 0.9000, rms radial error=161.235, avgs=0 095/300: dt: 0.9000, rms radial error=160.327, avgs=0 100/300: dt: 0.9000, rms radial error=159.425, avgs=0 105/300: dt: 0.9000, rms radial error=158.527, avgs=0 110/300: dt: 0.9000, rms radial error=157.634, avgs=0 115/300: dt: 0.9000, rms radial error=156.747, avgs=0 120/300: dt: 0.9000, rms radial error=155.865, avgs=0 125/300: dt: 0.9000, rms radial error=154.987, avgs=0 130/300: dt: 0.9000, rms radial error=154.114, avgs=0 135/300: dt: 0.9000, rms radial error=153.246, avgs=0 140/300: dt: 0.9000, rms radial error=152.384, avgs=0 145/300: dt: 0.9000, rms radial error=151.527, avgs=0 150/300: dt: 0.9000, rms radial error=150.675, avgs=0 155/300: dt: 0.9000, rms radial error=149.827, avgs=0 160/300: dt: 0.9000, rms radial error=148.985, avgs=0 165/300: dt: 0.9000, rms radial error=148.147, avgs=0 170/300: dt: 0.9000, rms radial error=147.314, avgs=0 175/300: dt: 0.9000, rms radial error=146.485, avgs=0 180/300: dt: 0.9000, rms radial error=145.662, avgs=0 185/300: dt: 0.9000, rms radial error=144.843, avgs=0 190/300: dt: 0.9000, rms radial error=144.028, avgs=0 195/300: dt: 0.9000, rms radial error=143.218, avgs=0 200/300: dt: 0.9000, rms radial error=142.413, avgs=0 205/300: dt: 0.9000, rms radial error=141.612, avgs=0 210/300: dt: 0.9000, rms radial error=140.816, avgs=0 215/300: dt: 0.9000, rms radial error=140.025, avgs=0 220/300: dt: 0.9000, rms radial error=139.239, avgs=0 225/300: dt: 0.9000, rms radial error=138.457, avgs=0 230/300: dt: 0.9000, rms radial error=137.679, avgs=0 235/300: dt: 0.9000, rms radial error=136.905, avgs=0 240/300: dt: 0.9000, rms radial error=136.136, avgs=0 245/300: dt: 0.9000, rms radial error=135.371, avgs=0 250/300: dt: 0.9000, rms radial error=134.610, avgs=0 255/300: dt: 0.9000, rms radial error=133.854, avgs=0 260/300: dt: 0.9000, rms radial error=133.102, avgs=0 265/300: dt: 0.9000, rms radial error=132.353, avgs=0 270/300: dt: 0.9000, rms radial error=131.609, avgs=0 275/300: dt: 0.9000, rms radial error=130.869, avgs=0 280/300: dt: 0.9000, rms radial error=130.134, avgs=0 285/300: dt: 0.9000, rms radial error=129.402, avgs=0 290/300: dt: 0.9000, rms radial error=128.675, avgs=0 295/300: dt: 0.9000, rms radial error=127.951, avgs=0 300/300: dt: 0.9000, rms radial error=127.232, avgs=0 spherical inflation complete. projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 0.97 +- 0.56 (0.00-->5.41) (max @ vno 47554 --> 48563) face area 0.02 +- 0.03 (-0.13-->0.45) epoch 1 (K=10.0), pass 1, starting sse = 16620.49 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/13 = 0.00034 epoch 2 (K=40.0), pass 1, starting sse = 2756.59 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/13 = 0.00025 epoch 3 (K=160.0), pass 1, starting sse = 268.88 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.15/15 = 0.00967 epoch 4 (K=640.0), pass 1, starting sse = 11.91 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.11/19 = 0.00582 final distance error %100000.00 writing spherical brain to ../surf/lh.qsphere.nofix mris_sphere utimesec 135.228639 mris_sphere stimesec 0.692344 mris_sphere ru_maxrss 1075868 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 494650 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 9936 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 40 mris_sphere ru_nivcsw 412 spherical transformation took 0.0378 hours FSRUNTIME@ mris_sphere 0.0378 hours 1 threads @#@FSTIME 2021:09:21:15:20:13 mris_sphere N 9 e 136.31 S 0.75 U 135.22 P 99% M 1075900 F 0 R 494669 W 0 c 413 w 41 I 0 O 9936 L 11.09 11.07 11.27 @#@FSLOADPOST 2021:09:21:15:22:29 mris_sphere N 9 10.98 11.04 11.23 #-------------------------------------------- #@# QSphere rh Tue Sep 21 15:22:29 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 0.296... inflating... Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=176.717, avgs=0 005/300: dt: 0.9000, rms radial error=176.463, avgs=0 010/300: dt: 0.9000, rms radial error=175.918, avgs=0 015/300: dt: 0.9000, rms radial error=175.200, avgs=0 020/300: dt: 0.9000, rms radial error=174.374, avgs=0 025/300: dt: 0.9000, rms radial error=173.486, avgs=0 030/300: dt: 0.9000, rms radial error=172.566, avgs=0 035/300: dt: 0.9000, rms radial error=171.629, avgs=0 040/300: dt: 0.9000, rms radial error=170.684, avgs=0 045/300: dt: 0.9000, rms radial error=169.737, avgs=0 050/300: dt: 0.9000, rms radial error=168.790, avgs=0 055/300: dt: 0.9000, rms radial error=167.846, avgs=0 060/300: dt: 0.9000, rms radial error=166.905, avgs=0 065/300: dt: 0.9000, rms radial error=165.969, avgs=0 070/300: dt: 0.9000, rms radial error=165.037, avgs=0 075/300: dt: 0.9000, rms radial error=164.109, avgs=0 080/300: dt: 0.9000, rms radial error=163.187, avgs=0 085/300: dt: 0.9000, rms radial error=162.269, avgs=0 090/300: dt: 0.9000, rms radial error=161.355, avgs=0 095/300: dt: 0.9000, rms radial error=160.447, avgs=0 100/300: dt: 0.9000, rms radial error=159.544, avgs=0 105/300: dt: 0.9000, rms radial error=158.645, avgs=0 110/300: dt: 0.9000, rms radial error=157.751, avgs=0 115/300: dt: 0.9000, rms radial error=156.863, avgs=0 120/300: dt: 0.9000, rms radial error=155.978, avgs=0 125/300: dt: 0.9000, rms radial error=155.099, avgs=0 130/300: dt: 0.9000, rms radial error=154.224, avgs=0 135/300: dt: 0.9000, rms radial error=153.355, avgs=0 140/300: dt: 0.9000, rms radial error=152.490, avgs=0 145/300: dt: 0.9000, rms radial error=151.630, avgs=0 150/300: dt: 0.9000, rms radial error=150.774, avgs=0 155/300: dt: 0.9000, rms radial error=149.924, avgs=0 160/300: dt: 0.9000, rms radial error=149.079, avgs=0 165/300: dt: 0.9000, rms radial error=148.238, avgs=0 170/300: dt: 0.9000, rms radial error=147.402, avgs=0 175/300: dt: 0.9000, rms radial error=146.571, avgs=0 180/300: dt: 0.9000, rms radial error=145.745, avgs=0 185/300: dt: 0.9000, rms radial error=144.923, avgs=0 190/300: dt: 0.9000, rms radial error=144.106, avgs=0 195/300: dt: 0.9000, rms radial error=143.293, avgs=0 200/300: dt: 0.9000, rms radial error=142.485, avgs=0 205/300: dt: 0.9000, rms radial error=141.682, avgs=0 210/300: dt: 0.9000, rms radial error=140.883, avgs=0 215/300: dt: 0.9000, rms radial error=140.088, avgs=0 220/300: dt: 0.9000, rms radial error=139.298, avgs=0 225/300: dt: 0.9000, rms radial error=138.512, avgs=0 230/300: dt: 0.9000, rms radial error=137.730, avgs=0 235/300: dt: 0.9000, rms radial error=136.953, avgs=0 240/300: dt: 0.9000, rms radial error=136.180, avgs=0 245/300: dt: 0.9000, rms radial error=135.412, avgs=0 250/300: dt: 0.9000, rms radial error=134.648, avgs=0 255/300: dt: 0.9000, rms radial error=133.888, avgs=0 260/300: dt: 0.9000, rms radial error=133.132, avgs=0 265/300: dt: 0.9000, rms radial error=132.381, avgs=0 270/300: dt: 0.9000, rms radial error=131.633, avgs=0 275/300: dt: 0.9000, rms radial error=130.890, avgs=0 280/300: dt: 0.9000, rms radial error=130.151, avgs=0 285/300: dt: 0.9000, rms radial error=129.417, avgs=0 290/300: dt: 0.9000, rms radial error=128.686, avgs=0 295/300: dt: 0.9000, rms radial error=127.959, avgs=0 300/300: dt: 0.9000, rms radial error=127.237, avgs=0 spherical inflation complete. projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 0.97 +- 0.57 (0.00-->6.55) (max @ vno 96802 --> 97626) face area 0.02 +- 0.03 (-0.18-->0.60) epoch 1 (K=10.0), pass 1, starting sse = 16336.81 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00045 epoch 2 (K=40.0), pass 1, starting sse = 2721.79 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/13 = 0.00017 epoch 3 (K=160.0), pass 1, starting sse = 290.13 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.14/18 = 0.00800 epoch 4 (K=640.0), pass 1, starting sse = 16.84 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.17/25 = 0.00683 final distance error %100000.00 writing spherical brain to ../surf/rh.qsphere.nofix mris_sphere utimesec 157.829114 mris_sphere stimesec 0.788123 mris_sphere ru_maxrss 1140104 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 533421 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 9720 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 35 mris_sphere ru_nivcsw 370 spherical transformation took 0.0442 hours FSRUNTIME@ mris_sphere 0.0442 hours 1 threads @#@FSTIME 2021:09:21:15:22:29 mris_sphere N 9 e 159.08 S 0.87 U 157.82 P 99% M 1140136 F 0 R 533440 W 0 c 370 w 36 I 0 O 9720 L 10.98 11.04 11.23 @#@FSLOADPOST 2021:09:21:15:25:08 mris_sphere N 9 11.04 11.03 11.20 #@# Fix Topology lh Tue Sep 21 15:25:08 BST 2021 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 32004 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=-44 (nv=141148, nf=282384, ne=423576, g=23) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 8 iterations marking ambiguous vertices... 3874 ambiguous faces found in tessellation segmenting defects... 33 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 11 into 8 -merging segment 20 into 15 31 defects to be corrected 0 vertices coincident reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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: -9.6359 (-4.8179) -vertex loglikelihood: -6.8971 (-3.4485) -normal dot loglikelihood: -3.5975 (-3.5975) -quad curv loglikelihood: -6.1378 (-3.0689) Total Loglikelihood : -26.2683 CORRECTING DEFECT 0 (vertices=49, convex hull=34, v0=8320) After retessellation of defect 0 (v0=8320), euler #=-30 (138840,415669,276799) : difference with theory (-28) = 2 CORRECTING DEFECT 1 (vertices=51, convex hull=44, v0=38508) After retessellation of defect 1 (v0=38508), euler #=-29 (138847,415706,276830) : difference with theory (-27) = 2 CORRECTING DEFECT 2 (vertices=30, convex hull=69, v0=51530) After retessellation of defect 2 (v0=51530), euler #=-28 (138860,415773,276885) : difference with theory (-26) = 2 CORRECTING DEFECT 3 (vertices=7, convex hull=30, v0=59419) After retessellation of defect 3 (v0=59419), euler #=-27 (138863,415791,276901) : difference with theory (-25) = 2 CORRECTING DEFECT 4 (vertices=29, convex hull=63, v0=59745) After retessellation of defect 4 (v0=59745), euler #=-26 (138872,415844,276946) : difference with theory (-24) = 2 CORRECTING DEFECT 5 (vertices=39, convex hull=92, v0=64405) After retessellation of defect 5 (v0=64405), euler #=-25 (138881,415910,277004) : difference with theory (-23) = 2 CORRECTING DEFECT 6 (vertices=38, convex hull=70, v0=66421) After retessellation of defect 6 (v0=66421), euler #=-24 (138893,415976,277059) : difference with theory (-22) = 2 CORRECTING DEFECT 7 (vertices=232, convex hull=162, v0=72293) After retessellation of defect 7 (v0=72293), euler #=-23 (138976,416300,277301) : difference with theory (-21) = 2 CORRECTING DEFECT 8 (vertices=190, convex hull=137, v0=74871) After retessellation of defect 8 (v0=74871), euler #=-21 (139008,416465,277436) : difference with theory (-20) = 1 CORRECTING DEFECT 9 (vertices=16, convex hull=21, v0=76066) After retessellation of defect 9 (v0=76066), euler #=-20 (139009,416472,277443) : difference with theory (-19) = 1 CORRECTING DEFECT 10 (vertices=27, convex hull=58, v0=79195) After retessellation of defect 10 (v0=79195), euler #=-19 (139029,416554,277506) : difference with theory (-18) = 1 CORRECTING DEFECT 11 (vertices=6, convex hull=30, v0=91422) After retessellation of defect 11 (v0=91422), euler #=-18 (139032,416572,277522) : difference with theory (-17) = 1 CORRECTING DEFECT 12 (vertices=67, convex hull=94, v0=95332) After retessellation of defect 12 (v0=95332), euler #=-17 (139069,416728,277642) : difference with theory (-16) = 1 CORRECTING DEFECT 13 (vertices=21, convex hull=28, v0=98620) After retessellation of defect 13 (v0=98620), euler #=-16 (139075,416757,277666) : difference with theory (-15) = 1 CORRECTING DEFECT 14 (vertices=88, convex hull=104, v0=98677) After retessellation of defect 14 (v0=98677), euler #=-14 (139115,416923,277794) : difference with theory (-14) = 0 CORRECTING DEFECT 15 (vertices=55, convex hull=104, v0=99874) After retessellation of defect 15 (v0=99874), euler #=-13 (139150,417069,277906) : difference with theory (-13) = 0 CORRECTING DEFECT 16 (vertices=125, convex hull=67, v0=100792) After retessellation of defect 16 (v0=100792), euler #=-12 (139168,417154,277974) : difference with theory (-12) = 0 CORRECTING DEFECT 17 (vertices=30, convex hull=46, v0=101079) After retessellation of defect 17 (v0=101079), euler #=-11 (139181,417210,278018) : difference with theory (-11) = 0 CORRECTING DEFECT 18 (vertices=8, convex hull=15, v0=101897) After retessellation of defect 18 (v0=101897), euler #=-10 (139182,417218,278026) : difference with theory (-10) = 0 CORRECTING DEFECT 19 (vertices=6, convex hull=25, v0=102723) After retessellation of defect 19 (v0=102723), euler #=-9 (139185,417234,278040) : difference with theory (-9) = 0 CORRECTING DEFECT 20 (vertices=23, convex hull=48, v0=105498) After retessellation of defect 20 (v0=105498), euler #=-8 (139197,417288,278083) : difference with theory (-8) = 0 CORRECTING DEFECT 21 (vertices=54, convex hull=32, v0=109353) After retessellation of defect 21 (v0=109353), euler #=-7 (139201,417310,278102) : difference with theory (-7) = 0 CORRECTING DEFECT 22 (vertices=59, convex hull=60, v0=109820) After retessellation of defect 22 (v0=109820), euler #=-6 (139223,417406,278177) : difference with theory (-6) = 0 CORRECTING DEFECT 23 (vertices=563, convex hull=251, v0=113082) normal vector of length zero at vertex 140643 with 4 faces After retessellation of defect 23 (v0=113082), euler #=-5 (139309,417793,278479) : difference with theory (-5) = 0 CORRECTING DEFECT 24 (vertices=310, convex hull=63, v0=113784) After retessellation of defect 24 (v0=113784), euler #=-4 (139338,417912,278570) : difference with theory (-4) = 0 CORRECTING DEFECT 25 (vertices=6, convex hull=35, v0=115813) After retessellation of defect 25 (v0=115813), euler #=-3 (139339,417924,278582) : difference with theory (-3) = 0 CORRECTING DEFECT 26 (vertices=24, convex hull=61, v0=117142) After retessellation of defect 26 (v0=117142), euler #=-2 (139349,417976,278625) : difference with theory (-2) = 0 CORRECTING DEFECT 27 (vertices=20, convex hull=33, v0=117797) After retessellation of defect 27 (v0=117797), euler #=-1 (139352,417992,278639) : difference with theory (-1) = 0 CORRECTING DEFECT 28 (vertices=34, convex hull=47, v0=117933) After retessellation of defect 28 (v0=117933), euler #=0 (139361,418034,278673) : difference with theory (0) = 0 CORRECTING DEFECT 29 (vertices=91, convex hull=76, v0=122066) After retessellation of defect 29 (v0=122066), euler #=1 (139390,418151,278762) : difference with theory (1) = 0 CORRECTING DEFECT 30 (vertices=15, convex hull=33, v0=125051) After retessellation of defect 30 (v0=125051), euler #=2 (139392,418170,278780) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.21 (0.09-->5.35) (max @ vno 78770 --> 81875) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.21 (0.09-->5.35) (max @ vno 78770 --> 81875) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 95 mutations (36.7%), 164 crossovers (63.3%), 126 vertices were eliminated building final representation... 1756 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=139392, nf=278780, ne=418170, g=0) writing corrected surface to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 150 intersecting 001: 14 intersecting terminating search with 0 intersecting topology fixing took 2.0 minutes FSRUNTIME@ mris_fix_topology lh 0.0329 hours 1 threads #VMPC# mris_fix_topology VmPeak 897412 @#@FSTIME 2021:09:21:15:25:08 mris_fix_topology N 14 e 118.56 S 0.96 U 117.29 P 99% M 741340 F 0 R 622542 W 0 c 390 w 106 I 0 O 13120 L 11.04 11.03 11.20 @#@FSLOADPOST 2021:09:21:15:27:07 mris_fix_topology N 14 10.93 10.97 11.16 #@# Fix Topology rh Tue Sep 21 15:27:07 BST 2021 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 32004 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=-18 (nv=138092, nf=276220, ne=414330, g=10) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 10 iterations marking ambiguous vertices... 4771 ambiguous faces found in tessellation segmenting defects... 28 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 25 into 24 27 defects to be corrected 0 vertices coincident reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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: -9.6481 (-4.8241) -vertex loglikelihood: -6.8790 (-3.4395) -normal dot loglikelihood: -3.6324 (-3.6324) -quad curv loglikelihood: -6.2349 (-3.1175) Total Loglikelihood : -26.3944 CORRECTING DEFECT 0 (vertices=49, convex hull=57, v0=3582) After retessellation of defect 0 (v0=3582), euler #=-24 (135368,405445,270053) : difference with theory (-24) = 0 CORRECTING DEFECT 1 (vertices=326, convex hull=135, v0=9310) After retessellation of defect 1 (v0=9310), euler #=-23 (135428,405688,270237) : difference with theory (-23) = 0 CORRECTING DEFECT 2 (vertices=182, convex hull=113, v0=22325) After retessellation of defect 2 (v0=22325), euler #=-22 (135468,405861,270371) : difference with theory (-22) = 0 CORRECTING DEFECT 3 (vertices=51, convex hull=24, v0=29965) After retessellation of defect 3 (v0=29965), euler #=-21 (135470,405873,270382) : difference with theory (-21) = 0 CORRECTING DEFECT 4 (vertices=136, convex hull=203, v0=56832) After retessellation of defect 4 (v0=56832), euler #=-20 (135541,406187,270626) : difference with theory (-20) = 0 CORRECTING DEFECT 5 (vertices=43, convex hull=39, v0=64845) After retessellation of defect 5 (v0=64845), euler #=-19 (135553,406241,270669) : difference with theory (-19) = 0 CORRECTING DEFECT 6 (vertices=1297, convex hull=384, v0=65322) A large defect has been detected... This often happens because cerebellum or dura has not been removed from wm.mgz. This may cause recon-all to run very slowly or crash. if so, see https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TopologicalDefect_freeview After retessellation of defect 6 (v0=65322), euler #=-19 (135674,406798,271105) : difference with theory (-18) = 1 CORRECTING DEFECT 7 (vertices=13, convex hull=18, v0=75473) After retessellation of defect 7 (v0=75473), euler #=-18 (135676,406810,271116) : difference with theory (-17) = 1 CORRECTING DEFECT 8 (vertices=7, convex hull=24, v0=75780) After retessellation of defect 8 (v0=75780), euler #=-17 (135678,406823,271128) : difference with theory (-16) = 1 CORRECTING DEFECT 9 (vertices=7, convex hull=23, v0=82144) After retessellation of defect 9 (v0=82144), euler #=-16 (135682,406842,271144) : difference with theory (-15) = 1 CORRECTING DEFECT 10 (vertices=29, convex hull=25, v0=82848) After retessellation of defect 10 (v0=82848), euler #=-15 (135688,406868,271165) : difference with theory (-14) = 1 CORRECTING DEFECT 11 (vertices=6, convex hull=20, v0=87047) After retessellation of defect 11 (v0=87047), euler #=-14 (135690,406880,271176) : difference with theory (-13) = 1 CORRECTING DEFECT 12 (vertices=14, convex hull=18, v0=95897) After retessellation of defect 12 (v0=95897), euler #=-13 (135691,406888,271184) : difference with theory (-12) = 1 CORRECTING DEFECT 13 (vertices=8, convex hull=11, v0=99447) After retessellation of defect 13 (v0=99447), euler #=-12 (135693,406896,271191) : difference with theory (-11) = 1 CORRECTING DEFECT 14 (vertices=9, convex hull=25, v0=100427) After retessellation of defect 14 (v0=100427), euler #=-11 (135695,406909,271203) : difference with theory (-10) = 1 CORRECTING DEFECT 15 (vertices=16, convex hull=18, v0=103855) After retessellation of defect 15 (v0=103855), euler #=-10 (135699,406924,271215) : difference with theory (-9) = 1 CORRECTING DEFECT 16 (vertices=44, convex hull=51, v0=105483) After retessellation of defect 16 (v0=105483), euler #=-9 (135709,406973,271255) : difference with theory (-8) = 1 CORRECTING DEFECT 17 (vertices=28, convex hull=64, v0=107798) After retessellation of defect 17 (v0=107798), euler #=-8 (135724,407043,271311) : difference with theory (-7) = 1 CORRECTING DEFECT 18 (vertices=20, convex hull=25, v0=109061) After retessellation of defect 18 (v0=109061), euler #=-7 (135728,407061,271326) : difference with theory (-6) = 1 CORRECTING DEFECT 19 (vertices=13, convex hull=21, v0=111683) After retessellation of defect 19 (v0=111683), euler #=-6 (135731,407078,271341) : difference with theory (-5) = 1 CORRECTING DEFECT 20 (vertices=20, convex hull=23, v0=115254) After retessellation of defect 20 (v0=115254), euler #=-5 (135737,407102,271360) : difference with theory (-4) = 1 CORRECTING DEFECT 21 (vertices=25, convex hull=26, v0=116525) After retessellation of defect 21 (v0=116525), euler #=-4 (135743,407126,271379) : difference with theory (-3) = 1 CORRECTING DEFECT 22 (vertices=5, convex hull=15, v0=117997) After retessellation of defect 22 (v0=117997), euler #=-3 (135743,407129,271383) : difference with theory (-2) = 1 CORRECTING DEFECT 23 (vertices=77, convex hull=49, v0=120241) After retessellation of defect 23 (v0=120241), euler #=-2 (135752,407174,271420) : difference with theory (-1) = 1 CORRECTING DEFECT 24 (vertices=57, convex hull=66, v0=123379) After retessellation of defect 24 (v0=123379), euler #=0 (135759,407222,271463) : difference with theory (0) = 0 CORRECTING DEFECT 25 (vertices=221, convex hull=79, v0=131072) After retessellation of defect 25 (v0=131072), euler #=1 (135772,407297,271526) : difference with theory (1) = 0 CORRECTING DEFECT 26 (vertices=32, convex hull=35, v0=136537) After retessellation of defect 26 (v0=136537), euler #=2 (135776,407322,271548) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.21 (0.11-->8.30) (max @ vno 79902 --> 83606) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.21 (0.11-->8.30) (max @ vno 79902 --> 83606) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 72 mutations (36.7%), 124 crossovers (63.3%), 222 vertices were eliminated building final representation... 2316 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=135776, nf=271548, ne=407322, g=0) writing corrected surface to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 121 intersecting 001: 2 intersecting terminating search with 0 intersecting topology fixing took 2.0 minutes FSRUNTIME@ mris_fix_topology rh 0.0337 hours 1 threads #VMPC# mris_fix_topology VmPeak 894088 @#@FSTIME 2021:09:21:15:27:07 mris_fix_topology N 14 e 121.49 S 0.63 U 120.54 P 99% M 737992 F 0 R 446183 W 0 c 335 w 100 I 0 O 12792 L 10.93 10.97 11.16 @#@FSLOADPOST 2021:09:21:15:29:09 mris_fix_topology N 14 11.04 11.00 11.14 mris_euler_number ../surf/lh.orig.premesh euler # = v-e+f = 2g-2: 139392 - 418170 + 278780 = 2 --> 0 holes F =2V-4: 278780 = 278784-4 (0) 2E=3F: 836340 = 836340 (0) total defect index = 0 mris_euler_number ../surf/rh.orig.premesh euler # = v-e+f = 2g-2: 135776 - 407322 + 271548 = 2 --> 0 holes F =2V-4: 271548 = 271552-4 (0) 2E=3F: 814644 = 814644 (0) total defect index = 0 Tue Sep 21 15:29:10 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts /usr/local/software/freesurfer/7.1.0/bin/defect2seg --s 32004 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b defect2seg 7.1.0 Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux pid 224912 mri_label2vol --defects /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.orig.nofix /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.defect_labels /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz 1000 0 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/surface.defects.mgz mris_defects_pointset -s /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.orig.nofix -d /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.defect_labels -o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.defects.pointset Reading in surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.orig.nofix Reading in defect segmentation /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.defect_labels #VMPC# mris_defects_pointset 200080 mris_defects_pointset done mri_label2vol --defects /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.orig.nofix /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.defect_labels /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/surface.defects.mgz 2000 1 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/surface.defects.mgz mri_label2vol supposed to be reproducible but seed not set Converting defects to volume: offset=2000, merge=1 Writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/surface.defects.mgz mris_defects_pointset -s /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.orig.nofix -d /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.defect_labels -o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.defects.pointset Reading in surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.orig.nofix Reading in defect segmentation /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.defect_labels #VMPC# mris_defects_pointset 196576 mris_defects_pointset done Started at Tue Sep 21 15:29:10 BST 2021 Ended at Tue Sep 21 15:29:15 BST 2021 Defect2seg-Run-Time-Sec 5 Defect2seg-Run-Time-Min 0.10 Defect2seg-Run-Time-Hours 0.00 tkmeditfv 32004 orig.mgz -defect -c /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/?h.defects.pointset defect2seg Done @#@FSTIME 2021:09:21:15:29:10 defect2seg N 2 e 5.14 S 0.47 U 4.49 P 96% M 247168 F 0 R 114075 W 0 c 33 w 687 I 8952 O 400 L 11.04 11.00 11.14 @#@FSLOADPOST 2021:09:21:15:29:15 defect2seg N 2 11.04 11.00 11.14 mris_remesh --remesh --iters 3 --input /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.orig.premesh --output /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.orig iters = 3 standard remeshing without target adjusted l: 0.708967 remeshing to edge length 0.708967 with 3 iterations avg qual before : 0.891406 after: 0.970871 Removing intersections Remeshed surface quality stats nv0 = 139392 nv = 145541 1.04411 Area 291078 0.30121 0.03362 0.073756 0.4628 Corner 873234 60.00000 8.85184 15.168833 147.5895 Edge 436617 0.84209 0.08258 0.442392 1.2656 Hinge 436617 9.57050 10.08666 0.000027 174.6266 mris_remesh done @#@FSTIME 2021:09:21:15:29:15 mris_remesh N 7 e 31.59 S 0.61 U 30.90 P 99% M 783536 F 0 R 445905 W 0 c 70 w 34 I 0 O 10240 L 11.04 11.00 11.14 @#@FSLOADPOST 2021:09:21:15:29:47 mris_remesh N 7 11.03 11.00 11.14 mris_remesh --remesh --iters 3 --input /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.orig.premesh --output /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.orig iters = 3 standard remeshing without target adjusted l: 0.710433 remeshing to edge length 0.710433 with 3 iterations avg qual before : 0.8921 after: 0.971239 Removing intersections Remeshed surface quality stats nv0 = 135776 nv = 141945 1.04544 Area 283886 0.30242 0.03362 0.075184 0.4607 Corner 851658 60.00000 8.80064 17.384834 144.8164 Edge 425829 0.84365 0.08218 0.451957 1.2791 Hinge 425829 9.44732 9.78321 0.000000 139.2117 mris_remesh done @#@FSTIME 2021:09:21:15:29:47 mris_remesh N 7 e 29.94 S 0.64 U 29.22 P 99% M 762068 F 0 R 449130 W 0 c 72 w 33 I 0 O 9984 L 11.03 11.00 11.14 @#@FSLOADPOST 2021:09:21:15:30:17 mris_remesh N 7 11.02 11.00 11.13 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig intersection removal took 0.00 hours writing corrected surface to ../surf/lh.orig @#@FSTIME 2021:09:21:15:30:17 mris_remove_intersection N 2 e 2.77 S 0.20 U 2.54 P 99% M 353588 F 0 R 105800 W 0 c 8 w 40 I 0 O 10240 L 11.02 11.00 11.13 @#@FSLOADPOST 2021:09:21:15:30:20 mris_remove_intersection N 2 11.01 11.00 11.13 rm ../surf/lh.inflated rm: cannot remove '../surf/lh.inflated': No such file or directory /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig intersection removal took 0.00 hours writing corrected surface to ../surf/rh.orig @#@FSTIME 2021:09:21:15:30:20 mris_remove_intersection N 2 e 2.72 S 0.19 U 2.51 P 99% M 345436 F 0 R 102730 W 0 c 10 w 33 I 0 O 9984 L 11.01 11.00 11.13 @#@FSLOADPOST 2021:09:21:15:30:22 mris_remove_intersection N 2 11.01 11.00 11.13 rm ../surf/rh.inflated rm: cannot remove '../surf/rh.inflated': No such file or directory #-------------------------------------------- #@# AutoDetGWStats lh Tue Sep 21 15:30:22 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh border white: 294076 voxels (1.75%) border gray 373222 voxels (2.22%) 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=46993, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (99.0): 98.3 +- 10.1 [70.0 --> 110.0] CCS GM (65.0) : 64.5 +- 13.3 [30.0 --> 110.0] white_mean = 98.2991 +/- 10.1275, gray_mean = 64.5432 +/- 13.2549 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=234 nbins=235 intensity peaks found at WM=104+-7.0, GM=61+-8.7 white_mode = 104, gray_mode = 61 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 47.7 (was 70.000000) setting MAX_BORDER_WHITE to 114.1 (was 105.000000) setting MIN_BORDER_WHITE to 61.0 (was 85.000000) setting MAX_CSF to 34.5 (was 40.000000) setting MAX_GRAY to 93.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 47.7 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 21.2 (was 40.000000) When placing the white surface white_border_hi = 114.127; white_border_low = 61; white_outside_low = 47.745; white_inside_hi = 120; white_outside_hi = 114.127; When placing the pial surface pial_border_hi = 47.745; pial_border_low = 21.2352; pial_outside_low = 10; pial_inside_hi = 93.8725; pial_outside_hi = 41.1176; #VMPC# mris_autodet_gwstats VmPeak 386908 mris_autodet_gwstats done @#@FSTIME 2021:09:21:15:30:22 mris_autodet_gwstats N 8 e 4.40 S 0.13 U 4.25 P 99% M 247560 F 0 R 49863 W 0 c 14 w 64 I 0 O 8 L 11.01 11.00 11.13 @#@FSLOADPOST 2021:09:21:15:30:27 mris_autodet_gwstats N 8 11.01 11.00 11.13 #-------------------------------------------- #@# AutoDetGWStats rh Tue Sep 21 15:30:27 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh border white: 294076 voxels (1.75%) border gray 373222 voxels (2.22%) 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=46993, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (99.0): 98.3 +- 10.1 [70.0 --> 110.0] CCS GM (65.0) : 64.5 +- 13.3 [30.0 --> 110.0] white_mean = 98.2991 +/- 10.1275, gray_mean = 64.5432 +/- 13.2549 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=234 nbins=235 intensity peaks found at WM=104+-6.1, GM=60+-10.4 white_mode = 104, gray_mode = 60 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 46.7 (was 70.000000) setting MAX_BORDER_WHITE to 114.1 (was 105.000000) setting MIN_BORDER_WHITE to 60.0 (was 85.000000) setting MAX_CSF to 33.5 (was 40.000000) setting MAX_GRAY to 93.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 46.7 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 20.2 (was 40.000000) When placing the white surface white_border_hi = 114.127; white_border_low = 60; white_outside_low = 46.745; white_inside_hi = 120; white_outside_hi = 114.127; When placing the pial surface pial_border_hi = 46.745; pial_border_low = 20.2352; pial_outside_low = 10; pial_inside_hi = 93.8725; pial_outside_hi = 40.1176; #VMPC# mris_autodet_gwstats VmPeak 381888 mris_autodet_gwstats done @#@FSTIME 2021:09:21:15:30:27 mris_autodet_gwstats N 8 e 4.30 S 0.13 U 4.14 P 99% M 242384 F 0 R 50244 W 0 c 15 w 49 I 0 O 8 L 11.01 11.00 11.13 @#@FSLOADPOST 2021:09:21:15:30:31 mris_autodet_gwstats N 8 11.01 11.00 11.13 #-------------------------------------------- #@# WhitePreAparc lh Tue Sep 21 15:30:31 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only 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 291078 0.26689 0.06271 0.002073 0.6653 Corner 873234 60.00000 9.50891 10.848008 138.0184 Edge 436617 0.78889 0.11404 0.060432 1.3424 Hinge 436617 6.32712 6.40354 0.000009 124.8863 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=46993, wmmin=5, clip=110 MRIfindBrightNonWM(): 2095 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=7638, nmarked2=60, nripped=7638 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 72771: xyz = (-46.1116,-0.00630936,-5.09552) oxyz = (-46.1116,-0.00630936,-5.09552) wxzy = (-46.1116,-0.00630936,-5.09552) 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=7638 #FML# MRISripMidline(): nmarked=7638, nmarked2=60, nripped=7638 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 = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=2 had to be increased for 170 vertices, nripped=7638 mean border=74.7, 40 (40) missing vertices, mean dist 0.3 [0.5 (%33.5)->0.7 (%66.5))] %71 local maxima, %24 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2616 min Finding expansion regions mean absolute distance = 0.68 +- 0.84 3604 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=cpu-e, 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=5139444.5, rms=13.440 001: dt: 0.5000, sse=2825824.5, rms=9.844 (26.754%) 002: dt: 0.5000, sse=1785229.8, rms=7.691 (21.867%) 003: dt: 0.5000, sse=1228984.9, rms=6.245 (18.805%) 004: dt: 0.5000, sse=945725.4, rms=5.352 (14.306%) 005: dt: 0.5000, sse=786214.8, rms=4.768 (10.897%) 006: dt: 0.5000, sse=728705.4, rms=4.513 (5.358%) 007: dt: 0.5000, sse=692391.2, rms=4.354 (3.527%) rms = 4.3172/4.3538, sse=678361.9/692391.2, time step reduction 1 of 3 to 0.250 0 0 1 008: dt: 0.5000, sse=678361.9, rms=4.317 (0.841%) 009: dt: 0.2500, sse=376139.2, rms=2.736 (36.618%) 010: dt: 0.2500, sse=309558.7, rms=2.274 (16.878%) 011: dt: 0.2500, sse=295338.4, rms=2.157 (5.147%) 012: dt: 0.2500, sse=284656.9, rms=2.058 (4.628%) rms = 2.0250/2.0576, sse=279880.5/284656.9, time step reduction 2 of 3 to 0.125 0 0 1 013: dt: 0.2500, sse=279880.5, rms=2.025 (1.580%) 014: dt: 0.1250, sse=251061.2, rms=1.738 (14.168%) rms = 1.6930/1.7381, sse=246327.8/251061.3, time step reduction 3 of 3 to 0.062 0 0 1 015: dt: 0.1250, sse=246327.8, rms=1.693 (2.594%) maximum number of reductions reached, breaking from loop positioning took 1.6 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=7638 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 2 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 #FML# MRISripMidline(): nmarked=7887, nmarked2=61, nripped=7887 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 = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=1 had to be increased for 174 vertices, nripped=7887 mean border=78.1, 122 (20) missing vertices, mean dist -0.2 [0.4 (%71.8)->0.2 (%28.2))] %75 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1713 min Finding expansion regions mean absolute distance = 0.32 +- 0.58 3013 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=cpu-e, 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=894326.8, rms=4.961 016: dt: 0.5000, sse=645725.8, rms=3.943 (20.510%) rms = 4.1886/3.9434, sse=701278.9/645725.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 017: dt: 0.2500, sse=419192.4, rms=2.710 (31.274%) 018: dt: 0.2500, sse=339372.4, rms=2.091 (22.836%) 019: dt: 0.2500, sse=307932.5, rms=1.793 (14.271%) 020: dt: 0.2500, sse=301533.8, rms=1.706 (4.824%) rms = 1.6583/1.7063, sse=296655.3/301533.8, time step reduction 2 of 3 to 0.125 0 0 1 021: dt: 0.2500, sse=296655.3, rms=1.658 (2.816%) 022: dt: 0.1250, sse=275654.4, rms=1.446 (12.827%) rms = 1.4132/1.4456, sse=273344.1/275654.4, time step reduction 3 of 3 to 0.062 0 0 1 023: dt: 0.1250, sse=273344.1, rms=1.413 (2.242%) maximum number of reductions reached, breaking from loop positioning took 0.9 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=7887 removing 2 vertices from ripped group in thread:0 removing 4 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 removing 4 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7916, nmarked2=62, nripped=7916 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 = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 160 vertices, nripped=7916 mean border=81.7, 169 (18) missing vertices, mean dist -0.2 [0.3 (%75.5)->0.2 (%24.5))] %84 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0915 min Finding expansion regions mean absolute distance = 0.26 +- 0.37 3314 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=cpu-e, 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=755508.8, rms=4.429 024: dt: 0.5000, sse=666035.2, rms=4.020 (9.244%) rms = 4.0885/4.0200, sse=675058.9/666035.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 025: dt: 0.2500, sse=396209.2, rms=2.565 (36.183%) 026: dt: 0.2500, sse=319353.7, rms=1.939 (24.417%) 027: dt: 0.2500, sse=293447.1, rms=1.685 (13.094%) rms = 1.6448/1.6851, sse=288194.9/293447.1, time step reduction 2 of 3 to 0.125 0 0 1 028: dt: 0.2500, sse=288194.8, rms=1.645 (2.397%) 029: dt: 0.1250, sse=262165.9, rms=1.325 (19.445%) 030: dt: 0.1250, sse=257247.9, rms=1.264 (4.633%) rms = 1.2651/1.2635, sse=257476.8/257247.9, time step reduction 3 of 3 to 0.062 0 1 1 RMS increased, rejecting step 031: dt: 0.1250, sse=257476.8, rms=1.265 (-0.121%) maximum number of reductions reached, breaking from loop positioning took 0.9 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=7916 removing 2 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 removing 4 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 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7981, nmarked2=62, nripped=7981 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 = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 212 vertices, nripped=7981 mean border=83.0, 187 (18) missing vertices, mean dist -0.1 [0.2 (%60.3)->0.2 (%39.7))] %88 local maxima, % 7 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0567 min Finding expansion regions mean absolute distance = 0.20 +- 0.30 3112 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=cpu-e, 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=322538.7, rms=2.025 rms = 2.9452/2.0246, sse=459313.7/322538.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 032: dt: 0.2500, sse=252686.1, rms=1.234 (39.027%) 033: dt: 0.2500, sse=243893.6, rms=0.985 (20.231%) rms = 1.0185/0.9847, sse=239942.6/243893.6, time step reduction 2 of 3 to 0.125 0 0 1 RMS increased, rejecting step rms = 0.9553/0.9847, sse=240501.9/243893.6, time step reduction 3 of 3 to 0.062 0 0 1 034: dt: 0.1250, sse=240501.9, rms=0.955 (2.985%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/lh.white.preaparc #ET# mris_place_surface 4.42 minutes #VMPC# mris_make_surfaces VmPeak 2476196 mris_place_surface done @#@FSTIME 2021:09:21:15:30:31 mris_place_surface N 16 e 273.40 S 1.33 U 271.40 P 99% M 2101924 F 0 R 1008009 W 0 c 531 w 68 I 0 O 10240 L 11.01 11.00 11.13 @#@FSLOADPOST 2021:09:21:15:35:05 mris_place_surface N 16 10.97 10.96 11.08 #-------------------------------------------- #@# WhitePreAparc rh Tue Sep 21 15:35:05 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only 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 283886 0.26861 0.06200 0.001552 0.5708 Corner 851658 60.00000 9.33863 6.052392 151.0889 Edge 425829 0.79134 0.11238 0.029885 1.3665 Hinge 425829 6.28953 6.26168 0.000015 124.7839 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=46993, wmmin=5, clip=110 MRIfindBrightNonWM(): 2095 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 4 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 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7734, nmarked2=7, nripped=7734 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 70973: xyz = (16.7459,-6.30232,-21.6149) oxyz = (16.7459,-6.30232,-21.6149) wxzy = (16.7459,-6.30232,-21.6149) 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=7734 removing 4 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 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7734, nmarked2=7, nripped=7734 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 = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=2 had to be increased for 126 vertices, nripped=7734 mean border=74.8, 34 (34) missing vertices, mean dist 0.3 [0.5 (%32.6)->0.8 (%67.4))] %74 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2689 min Finding expansion regions mean absolute distance = 0.69 +- 0.82 4177 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=cpu-e, 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=5286042.5, rms=13.828 001: dt: 0.5000, sse=2920651.0, rms=10.159 (26.530%) 002: dt: 0.5000, sse=1792712.1, rms=7.820 (23.029%) 003: dt: 0.5000, sse=1186765.9, rms=6.206 (20.633%) 004: dt: 0.5000, sse=892414.6, rms=5.224 (15.823%) 005: dt: 0.5000, sse=744825.5, rms=4.658 (10.842%) 006: dt: 0.5000, sse=684506.8, rms=4.424 (5.028%) 007: dt: 0.5000, sse=655704.4, rms=4.288 (3.073%) rms = 4.2529/4.2878, sse=655045.3/655704.4, time step reduction 1 of 3 to 0.250 0 0 1 008: dt: 0.5000, sse=655045.3, rms=4.253 (0.815%) 009: dt: 0.2500, sse=359268.1, rms=2.696 (36.607%) 010: dt: 0.2500, sse=300350.2, rms=2.239 (16.947%) 011: dt: 0.2500, sse=296089.2, rms=2.140 (4.417%) 012: dt: 0.2500, sse=278257.1, rms=2.038 (4.779%) rms = 2.0000/2.0379, sse=275557.8/278257.1, time step reduction 2 of 3 to 0.125 0 0 1 013: dt: 0.2500, sse=275557.8, rms=2.000 (1.862%) 014: dt: 0.1250, sse=257322.2, rms=1.722 (13.880%) 015: dt: 0.1250, sse=239265.3, rms=1.669 (3.115%) rms = 1.6560/1.6688, sse=236973.2/239265.3, time step reduction 3 of 3 to 0.062 0 0 1 016: dt: 0.1250, sse=236973.2, rms=1.656 (0.763%) maximum number of reductions reached, breaking from loop positioning took 1.6 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=7734 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 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7869, nmarked2=14, nripped=7869 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 = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=1 had to be increased for 131 vertices, nripped=7869 mean border=78.6, 45 (6) missing vertices, mean dist -0.2 [0.4 (%73.5)->0.2 (%26.5))] %77 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1761 min Finding expansion regions mean absolute distance = 0.34 +- 0.59 3184 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=cpu-e, 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=1014593.8, rms=5.471 017: dt: 0.5000, sse=646852.9, rms=4.011 (26.685%) rms = 4.1940/4.0113, sse=715515.2/646853.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 018: dt: 0.2500, sse=429654.9, rms=2.822 (29.660%) 019: dt: 0.2500, sse=355433.3, rms=2.150 (23.803%) 020: dt: 0.2500, sse=304403.6, rms=1.844 (14.246%) 021: dt: 0.2500, sse=293550.4, rms=1.741 (5.543%) 022: dt: 0.2500, sse=288409.8, rms=1.685 (3.219%) rms = 1.6491/1.6854, sse=287025.4/288409.8, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=287025.4, rms=1.649 (2.154%) 024: dt: 0.1250, sse=268382.7, rms=1.438 (12.828%) rms = 1.4069/1.4375, sse=266821.3/268382.7, time step reduction 3 of 3 to 0.062 0 0 1 025: dt: 0.1250, sse=266821.3, rms=1.407 (2.129%) maximum number of reductions reached, breaking from loop positioning took 0.9 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=7869 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7895, nmarked2=14, nripped=7895 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 = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 142 vertices, nripped=7895 mean border=82.3, 68 (5) missing vertices, mean dist -0.2 [0.3 (%76.9)->0.2 (%23.1))] %86 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0940 min Finding expansion regions mean absolute distance = 0.27 +- 0.38 3977 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=cpu-e, 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=808873.1, rms=4.726 026: dt: 0.5000, sse=671438.2, rms=4.105 (13.149%) rms = 4.1363/4.1046, sse=672882.6/671438.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 027: dt: 0.2500, sse=400753.5, rms=2.653 (35.376%) 028: dt: 0.2500, sse=316239.9, rms=1.988 (25.049%) 029: dt: 0.2500, sse=287240.5, rms=1.697 (14.654%) rms = 1.6492/1.6968, sse=285144.2/287240.5, time step reduction 2 of 3 to 0.125 0 0 1 030: dt: 0.2500, sse=285144.2, rms=1.649 (2.805%) 031: dt: 0.1250, sse=259761.5, rms=1.316 (20.234%) 032: dt: 0.1250, sse=251990.8, rms=1.242 (5.594%) rms = 1.2364/1.2419, sse=251874.9/251990.7, time step reduction 3 of 3 to 0.062 0 0 1 033: dt: 0.1250, sse=251874.9, rms=1.236 (0.444%) maximum number of reductions reached, breaking from loop positioning took 0.8 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=7895 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7895, nmarked2=14, nripped=7895 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 = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 204 vertices, nripped=7895 mean border=83.6, 105 (2) missing vertices, mean dist -0.1 [0.2 (%60.9)->0.2 (%39.1))] %89 local maxima, % 5 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0587 min Finding expansion regions mean absolute distance = 0.20 +- 0.30 3173 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=cpu-e, 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=319237.2, rms=2.043 rms = 2.9153/2.0434, sse=441713.9/319237.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=247881.2, rms=1.252 (38.727%) 035: dt: 0.2500, sse=236262.7, rms=0.966 (22.874%) rms = 1.0023/0.9657, sse=236237.4/236262.7, time step reduction 2 of 3 to 0.125 0 0 1 RMS increased, rejecting step rms = 0.9322/0.9657, sse=232636.1/236262.7, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=232636.1, rms=0.932 (3.463%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white.preaparc #ET# mris_place_surface 4.52 minutes #VMPC# mris_make_surfaces VmPeak 2473812 mris_place_surface done @#@FSTIME 2021:09:21:15:35:05 mris_place_surface N 16 e 280.35 S 1.32 U 278.35 P 99% M 2099524 F 0 R 896807 W 0 c 559 w 68 I 0 O 9984 L 10.97 10.96 11.08 @#@FSLOADPOST 2021:09:21:15:39:45 mris_place_surface N 16 10.97 10.95 11.05 #-------------------------------------------- #@# CortexLabel lh Tue Sep 21 15:39:45 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 0 ../label/lh.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 4 non-cortical segments detected only using segment with 9263 vertices erasing segment 0 (vno[0] = 20991) erasing segment 2 (vno[0] = 87576) erasing segment 3 (vno[0] = 91296) @#@FSTIME 2021:09:21:15:39:45 mri_label2label N 5 e 16.08 S 0.14 U 15.90 P 99% M 330604 F 0 R 50354 W 0 c 29 w 34 I 0 O 11824 L 10.97 10.95 11.05 @#@FSLOADPOST 2021:09:21:15:40:01 mri_label2label N 5 10.97 10.95 11.05 #-------------------------------------------- #@# CortexLabel+HipAmyg lh Tue Sep 21 15:40:01 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 4 non-cortical segments detected only using segment with 7387 vertices erasing segment 0 (vno[0] = 20991) erasing segment 2 (vno[0] = 87576) erasing segment 3 (vno[0] = 91296) @#@FSTIME 2021:09:21:15:40:01 mri_label2label N 5 e 16.62 S 0.17 U 16.40 P 99% M 330600 F 0 R 49480 W 0 c 31 w 39 I 0 O 11976 L 10.97 10.95 11.05 @#@FSLOADPOST 2021:09:21:15:40:18 mri_label2label N 5 10.98 10.96 11.05 #-------------------------------------------- #@# CortexLabel rh Tue Sep 21 15:40:18 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 0 ../label/rh.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 8 non-cortical segments detected only using segment with 9248 vertices erasing segment 1 (vno[0] = 48957) erasing segment 2 (vno[0] = 55755) erasing segment 3 (vno[0] = 65654) erasing segment 4 (vno[0] = 84532) erasing segment 5 (vno[0] = 86665) erasing segment 6 (vno[0] = 92409) erasing segment 7 (vno[0] = 93700) @#@FSTIME 2021:09:21:15:40:18 mri_label2label N 5 e 15.01 S 0.11 U 14.84 P 99% M 345644 F 0 R 49702 W 0 c 29 w 34 I 0 O 11312 L 10.98 10.96 11.05 @#@FSLOADPOST 2021:09:21:15:40:33 mri_label2label N 5 10.99 10.96 11.05 #-------------------------------------------- #@# CortexLabel+HipAmyg rh Tue Sep 21 15:40:33 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 10 non-cortical segments detected only using segment with 7282 vertices erasing segment 1 (vno[0] = 48957) erasing segment 2 (vno[0] = 55755) erasing segment 3 (vno[0] = 65654) erasing segment 4 (vno[0] = 65998) erasing segment 5 (vno[0] = 84532) erasing segment 6 (vno[0] = 86075) erasing segment 7 (vno[0] = 86665) erasing segment 8 (vno[0] = 92409) erasing segment 9 (vno[0] = 93700) @#@FSTIME 2021:09:21:15:40:33 mri_label2label N 5 e 15.24 S 0.18 U 15.01 P 99% M 355720 F 0 R 66532 W 0 c 29 w 35 I 0 O 11472 L 10.99 10.96 11.05 @#@FSLOADPOST 2021:09:21:15:40:48 mri_label2label N 5 10.99 10.96 11.05 #-------------------------------------------- #@# Smooth2 lh Tue Sep 21 15:40:48 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:15:40:48 mris_smooth N 7 e 3.59 S 0.10 U 3.46 P 99% M 221872 F 0 R 52919 W 0 c 13 w 35 I 0 O 10240 L 10.99 10.96 11.05 @#@FSLOADPOST 2021:09:21:15:40:52 mris_smooth N 7 10.99 10.96 11.05 #-------------------------------------------- #@# Smooth2 rh Tue Sep 21 15:40:52 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:15:40:52 mris_smooth N 7 e 3.68 S 0.16 U 3.50 P 99% M 216700 F 0 R 50630 W 0 c 16 w 36 I 0 O 9984 L 10.99 10.96 11.05 @#@FSLOADPOST 2021:09:21:15:40:56 mris_smooth N 7 10.99 10.96 11.05 #-------------------------------------------- #@# Inflation2 lh Tue Sep 21 15:40:56 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated Reading ../surf/lh.smoothwm avg radius = 48.9 mm, total surface area = 88738 mm^2 step 000: RMS=0.169 (target=0.015) step 005: RMS=0.113 (target=0.015) step 010: RMS=0.084 (target=0.015) step 015: RMS=0.070 (target=0.015) step 020: RMS=0.058 (target=0.015) step 025: RMS=0.048 (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=0.025 (target=0.015) step 050: RMS=0.022 (target=0.015) step 055: RMS=0.021 (target=0.015) step 060: RMS=0.020 (target=0.015) writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc inflation complete. inflation took 0.4 minutes mris_inflate utimesec 24.930516 mris_inflate stimesec 0.196531 mris_inflate ru_maxrss 294948 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 168375 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 11384 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 56 mris_inflate ru_nivcsw 91 @#@FSTIME 2021:09:21:15:40:56 mris_inflate N 2 e 25.21 S 0.21 U 24.93 P 99% M 294980 F 0 R 168396 W 0 c 92 w 57 I 0 O 11384 L 10.99 10.96 11.05 @#@FSLOADPOST 2021:09:21:15:41:21 mris_inflate N 2 10.94 10.95 11.04 #-------------------------------------------- #@# Inflation2 rh Tue Sep 21 15:41:21 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated Reading ../surf/rh.smoothwm avg radius = 49.8 mm, total surface area = 86667 mm^2 step 000: RMS=0.168 (target=0.015) step 005: RMS=0.112 (target=0.015) step 010: RMS=0.083 (target=0.015) step 015: RMS=0.068 (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=0.032 (target=0.015) step 040: RMS=0.027 (target=0.015) step 045: RMS=0.024 (target=0.015) step 050: RMS=0.021 (target=0.015) step 055: RMS=0.019 (target=0.015) step 060: RMS=0.018 (target=0.015) writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc inflation complete. inflation took 0.4 minutes mris_inflate utimesec 23.913084 mris_inflate stimesec 0.209483 mris_inflate ru_maxrss 287796 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 158271 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 11104 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 59 mris_inflate ru_nivcsw 86 @#@FSTIME 2021:09:21:15:41:21 mris_inflate N 2 e 24.21 S 0.22 U 23.91 P 99% M 287828 F 0 R 158292 W 0 c 87 w 60 I 0 O 11104 L 10.94 10.95 11.04 @#@FSLOADPOST 2021:09:21:15:41:45 mris_inflate N 2 10.96 10.95 11.04 #-------------------------------------------- #@# Curv .H and .K lh Tue Sep 21 15:41:45 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_curvature -w -seed 1234 lh.white.preaparc setting seed for random number generator to 1234 total integrated curvature = 9.421*4pi (118.394) --> -8 handles ICI = 167.1, FI = 1554.0, variation=25087.250 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. @#@FSTIME 2021:09:21:15:41:45 mris_curvature N 4 e 1.90 S 0.06 U 1.81 P 98% M 163260 F 0 R 22559 W 0 c 10 w 56 I 0 O 2288 L 10.96 10.95 11.04 @#@FSLOADPOST 2021:09:21:15:41:47 mris_curvature N 4 10.96 10.95 11.04 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 191 vertices thresholded to be in k1 ~ [-0.46 0.47], k2 ~ [-0.16 0.09] total integrated curvature = 0.557*4pi (7.002) --> 0 handles ICI = 1.5, FI = 9.2, variation=159.194 149 vertices thresholded to be in [-0.03 0.04] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 131 vertices thresholded to be in [-0.23 0.17] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.022 done. @#@FSTIME 2021:09:21:15:41:47 mris_curvature N 12 e 53.01 S 0.32 U 52.54 P 99% M 391428 F 0 R 165116 W 0 c 165 w 56 I 0 O 2288 L 10.96 10.95 11.04 @#@FSLOADPOST 2021:09:21:15:42:40 mris_curvature N 12 10.98 10.96 11.04 #-------------------------------------------- #@# Curv .H and .K rh Tue Sep 21 15:42:41 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_curvature -w -seed 1234 rh.white.preaparc setting seed for random number generator to 1234 total integrated curvature = 10.716*4pi (134.660) --> -10 handles ICI = 160.3, FI = 1439.0, variation=23389.558 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. @#@FSTIME 2021:09:21:15:42:41 mris_curvature N 4 e 1.73 S 0.07 U 1.63 P 98% M 159376 F 0 R 21881 W 0 c 8 w 56 I 0 O 2224 L 10.98 10.96 11.04 @#@FSLOADPOST 2021:09:21:15:42:42 mris_curvature N 4 10.98 10.96 11.04 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 215 vertices thresholded to be in k1 ~ [-0.30 0.25], k2 ~ [-0.11 0.07] total integrated curvature = 0.627*4pi (7.882) --> 0 handles ICI = 1.6, FI = 9.3, variation=161.367 130 vertices thresholded to be in [-0.01 0.02] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 153 vertices thresholded to be in [-0.16 0.13] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.022 done. @#@FSTIME 2021:09:21:15:42:42 mris_curvature N 12 e 51.85 S 0.33 U 51.37 P 99% M 381784 F 0 R 162681 W 0 c 130 w 56 I 0 O 2224 L 10.98 10.96 11.04 @#@FSLOADPOST 2021:09:21:15:43:34 mris_curvature N 12 10.95 10.95 11.03 #-------------------------------------------- #@# Sphere lh Tue Sep 21 15:43:34 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_sphere -rusage /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 0.277... projecting onto sphere... surface projected - minimizing metric distortion... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=cpu-e, 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 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %20.45 pass 1: epoch 2 of 3 starting distance error %20.44 unfolding complete - removing small folds... starting distance error %20.37 removing remaining folds... final distance error %20.37 MRISunfold() return, current seed 1234 -01: dt=0.0000, 221 negative triangles 084: dt=0.9900, 221 negative triangles 085: dt=0.9900, 111 negative triangles 086: dt=0.9900, 94 negative triangles 087: dt=0.9900, 84 negative triangles 088: dt=0.9900, 85 negative triangles 089: dt=0.9900, 81 negative triangles 090: dt=0.9900, 79 negative triangles 091: dt=0.9900, 85 negative triangles 092: dt=0.9900, 82 negative triangles 093: dt=0.9900, 77 negative triangles 094: dt=0.9900, 77 negative triangles 095: dt=0.9900, 76 negative triangles 096: dt=0.9900, 77 negative triangles 097: dt=0.9900, 71 negative triangles 098: dt=0.9900, 81 negative triangles 099: dt=0.9900, 79 negative triangles 100: dt=0.9900, 82 negative triangles 101: dt=0.9900, 70 negative triangles 102: dt=0.9900, 69 negative triangles 103: dt=0.9900, 68 negative triangles 104: dt=0.9900, 62 negative triangles 105: dt=0.9900, 63 negative triangles 106: dt=0.9900, 61 negative triangles 107: dt=0.9900, 62 negative triangles 108: dt=0.9900, 60 negative triangles 109: dt=0.9900, 62 negative triangles 110: dt=0.9900, 58 negative triangles 111: dt=0.9900, 58 negative triangles 112: dt=0.9900, 53 negative triangles 113: dt=0.9900, 60 negative triangles 114: dt=0.9900, 59 negative triangles 115: dt=0.9900, 62 negative triangles 116: dt=0.9900, 64 negative triangles 117: dt=0.9900, 60 negative triangles 118: dt=0.9900, 50 negative triangles 119: dt=0.9900, 58 negative triangles 120: dt=0.9900, 50 negative triangles 121: dt=0.9900, 55 negative triangles 122: dt=0.9900, 56 negative triangles 123: dt=0.9900, 54 negative triangles 124: dt=0.9900, 54 negative triangles 125: dt=0.9900, 49 negative triangles 126: dt=0.9900, 52 negative triangles 127: dt=0.9900, 47 negative triangles 128: dt=0.9900, 55 negative triangles 129: dt=0.9900, 50 negative triangles 130: dt=0.9900, 49 negative triangles 131: dt=0.9900, 59 negative triangles 132: dt=0.9900, 53 negative triangles 133: dt=0.9900, 52 negative triangles 134: dt=0.9900, 47 negative triangles 135: dt=0.9900, 50 negative triangles 136: dt=0.9900, 45 negative triangles 137: dt=0.9900, 55 negative triangles 138: dt=0.9900, 48 negative triangles 139: dt=0.9900, 47 negative triangles 140: dt=0.9900, 53 negative triangles 141: dt=0.9900, 49 negative triangles 142: dt=0.9900, 49 negative triangles 143: dt=0.9900, 47 negative triangles 144: dt=0.9900, 47 negative triangles 145: dt=0.9900, 44 negative triangles 146: dt=0.9900, 52 negative triangles 147: dt=0.9900, 48 negative triangles 148: dt=0.9900, 50 negative triangles 149: dt=0.9900, 48 negative triangles 150: dt=0.9900, 51 negative triangles 151: dt=0.9900, 51 negative triangles 152: dt=0.9900, 44 negative triangles 153: dt=0.9900, 49 negative triangles 154: dt=0.9900, 44 negative triangles 155: dt=0.9405, 53 negative triangles 156: dt=0.9405, 49 negative triangles 157: dt=0.9405, 48 negative triangles 158: dt=0.9405, 49 negative triangles 159: dt=0.9405, 45 negative triangles 160: dt=0.9405, 48 negative triangles 161: dt=0.9405, 47 negative triangles 162: dt=0.9405, 43 negative triangles 163: dt=0.9405, 48 negative triangles 164: dt=0.9405, 41 negative triangles 165: dt=0.9405, 40 negative triangles 166: dt=0.9405, 47 negative triangles 167: dt=0.9405, 46 negative triangles 168: dt=0.9405, 44 negative triangles 169: dt=0.9405, 38 negative triangles 170: dt=0.9405, 39 negative triangles 171: dt=0.9405, 39 negative triangles 172: dt=0.9405, 42 negative triangles 173: dt=0.9405, 38 negative triangles 174: dt=0.9405, 42 negative triangles 175: dt=0.9405, 44 negative triangles 176: dt=0.9405, 41 negative triangles 177: dt=0.9405, 39 negative triangles 178: dt=0.9405, 40 negative triangles 179: dt=0.9405, 33 negative triangles 180: dt=0.9405, 43 negative triangles 181: dt=0.9405, 35 negative triangles 182: dt=0.9405, 42 negative triangles 183: dt=0.9405, 41 negative triangles 184: dt=0.9405, 38 negative triangles 185: dt=0.9405, 32 negative triangles 186: dt=0.9405, 36 negative triangles 187: dt=0.9405, 29 negative triangles 188: dt=0.9405, 36 negative triangles 189: dt=0.9405, 35 negative triangles 190: dt=0.9405, 34 negative triangles 191: dt=0.9405, 31 negative triangles 192: dt=0.9405, 38 negative triangles 193: dt=0.9405, 34 negative triangles 194: dt=0.9405, 30 negative triangles 195: dt=0.9405, 31 negative triangles 196: dt=0.9405, 29 negative triangles 197: dt=0.8935, 32 negative triangles 198: dt=0.8935, 27 negative triangles 199: dt=0.8935, 23 negative triangles 200: dt=0.8935, 28 negative triangles 201: dt=0.8935, 29 negative triangles 202: dt=0.8935, 32 negative triangles 203: dt=0.8935, 30 negative triangles 204: dt=0.8935, 23 negative triangles 205: dt=0.8935, 28 negative triangles 206: dt=0.8935, 23 negative triangles 207: dt=0.8935, 27 negative triangles 208: dt=0.8935, 26 negative triangles 209: dt=0.8488, 28 negative triangles 210: dt=0.8488, 29 negative triangles 211: dt=0.8488, 30 negative triangles 212: dt=0.8488, 24 negative triangles 213: dt=0.8488, 27 negative triangles 214: dt=0.8488, 23 negative triangles 215: dt=0.8488, 28 negative triangles 216: dt=0.8488, 29 negative triangles 217: dt=0.8488, 28 negative triangles 218: dt=0.8488, 27 negative triangles 219: dt=0.8064, 23 negative triangles 220: dt=0.8064, 24 negative triangles 221: dt=0.8064, 24 negative triangles 222: dt=0.8064, 19 negative triangles 223: dt=0.8064, 25 negative triangles 224: dt=0.8064, 19 negative triangles 225: dt=0.8064, 22 negative triangles 226: dt=0.8064, 20 negative triangles 227: dt=0.8064, 26 negative triangles 228: dt=0.8064, 21 negative triangles 229: dt=0.8064, 25 negative triangles 230: dt=0.8064, 22 negative triangles 231: dt=0.8064, 25 negative triangles 232: dt=0.7660, 20 negative triangles 233: dt=0.7660, 19 negative triangles 234: dt=0.7660, 20 negative triangles 235: dt=0.7660, 20 negative triangles 236: dt=0.7660, 17 negative triangles 237: dt=0.7660, 23 negative triangles 238: dt=0.7660, 19 negative triangles 239: dt=0.7660, 18 negative triangles 240: dt=0.7660, 20 negative triangles 241: dt=0.7660, 21 negative triangles 242: dt=0.7660, 21 negative triangles 243: dt=0.7660, 24 negative triangles 244: dt=0.7660, 18 negative triangles 245: dt=0.7660, 19 negative triangles 246: dt=0.7277, 19 negative triangles 247: dt=0.7277, 20 negative triangles 248: dt=0.7277, 17 negative triangles 249: dt=0.7277, 23 negative triangles 250: dt=0.7277, 19 negative triangles 251: dt=0.7277, 17 negative triangles 252: dt=0.7277, 19 negative triangles 253: dt=0.7277, 18 negative triangles 254: dt=0.7277, 22 negative triangles 255: dt=0.7277, 19 negative triangles 256: dt=0.6914, 19 negative triangles 257: dt=0.6914, 18 negative triangles 258: dt=0.6914, 16 negative triangles 259: dt=0.6914, 21 negative triangles 260: dt=0.6914, 16 negative triangles 261: dt=0.6914, 18 negative triangles 262: dt=0.6914, 19 negative triangles 263: dt=0.6914, 19 negative triangles 264: dt=0.6914, 20 negative triangles 265: dt=0.6914, 16 negative triangles 266: dt=0.6914, 20 negative triangles 267: dt=0.6914, 18 negative triangles 268: dt=0.6568, 22 negative triangles 269: dt=0.6568, 18 negative triangles 270: dt=0.6568, 19 negative triangles 271: dt=0.6568, 18 negative triangles 272: dt=0.6568, 16 negative triangles 273: dt=0.6568, 22 negative triangles 274: dt=0.6568, 16 negative triangles 275: dt=0.6568, 18 negative triangles 276: dt=0.6568, 17 negative triangles 277: dt=0.6568, 20 negative triangles 278: dt=0.6239, 16 negative triangles 279: dt=0.6239, 19 negative triangles 280: dt=0.6239, 18 negative triangles 281: dt=0.6239, 17 negative triangles 282: dt=0.6239, 18 negative triangles 283: dt=0.6239, 21 negative triangles 284: dt=0.6239, 18 negative triangles 285: dt=0.6239, 18 negative triangles 286: dt=0.6239, 18 negative triangles 287: dt=0.6239, 17 negative triangles 288: dt=0.6239, 13 negative triangles 289: dt=0.6239, 15 negative triangles 290: dt=0.6239, 16 negative triangles 291: dt=0.6239, 16 negative triangles 292: dt=0.6239, 14 negative triangles 293: dt=0.6239, 14 negative triangles 294: dt=0.6239, 11 negative triangles 295: dt=0.6239, 15 negative triangles 296: dt=0.6239, 14 negative triangles 297: dt=0.6239, 14 negative triangles 298: dt=0.6239, 12 negative triangles 299: dt=0.6239, 15 negative triangles 300: dt=0.6239, 13 negative triangles 301: dt=0.6239, 14 negative triangles 302: dt=0.6239, 14 negative triangles 303: dt=0.6239, 14 negative triangles 304: dt=0.5927, 13 negative triangles 305: dt=0.5927, 12 negative triangles 306: dt=0.5927, 12 negative triangles 307: dt=0.5927, 12 negative triangles 308: dt=0.5927, 10 negative triangles 309: dt=0.5927, 12 negative triangles 310: dt=0.5927, 11 negative triangles 311: dt=0.5927, 10 negative triangles 312: dt=0.5927, 10 negative triangles 313: dt=0.5927, 9 negative triangles 314: dt=0.5927, 12 negative triangles 315: dt=0.5927, 10 negative triangles 316: dt=0.5927, 8 negative triangles 317: dt=0.5927, 8 negative triangles 318: dt=0.5927, 7 negative triangles 319: dt=0.5927, 11 negative triangles 320: dt=0.5927, 8 negative triangles 321: dt=0.5927, 4 negative triangles 322: dt=0.5927, 6 negative triangles 323: dt=0.5927, 6 negative triangles 324: dt=0.5927, 5 negative triangles 325: dt=0.5927, 3 negative triangles 326: dt=0.5927, 6 negative triangles 327: dt=0.5927, 5 negative triangles 328: dt=0.5927, 2 negative triangles 329: dt=0.5927, 2 negative triangles 330: dt=0.5927, 1 negative triangles 331: dt=0.5927, 3 negative triangles 332: dt=0.5927, 4 negative triangles 333: dt=0.5927, 1 negative triangles 334: dt=0.5927, 1 negative triangles 335: dt=0.5927, 2 negative triangles writing spherical brain to ../surf/lh.sphere mris_sphere utimesec 608.263784 mris_sphere stimesec 1.678966 mris_sphere ru_maxrss 1793164 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 1160351 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 10240 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 47 mris_sphere ru_nivcsw 1626 spherical transformation took 0.1698 hours FSRUNTIME@ mris_sphere 0.1698 hours 1 threads @#@FSTIME 2021:09:21:15:43:34 mris_sphere N 6 e 611.52 S 1.78 U 608.26 P 99% M 1793200 F 0 R 1160374 W 0 c 1626 w 55 I 0 O 10248 L 10.95 10.95 11.03 @#@FSLOADPOST 2021:09:21:15:53:46 mris_sphere N 6 11.02 11.02 11.04 #-------------------------------------------- #@# Sphere rh Tue Sep 21 15:53:46 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_sphere -rusage /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 0.273... projecting onto sphere... surface projected - minimizing metric distortion... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=cpu-e, 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 singular matrix in quadratic form 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 %20.63 pass 1: epoch 2 of 3 starting distance error %20.61 unfolding complete - removing small folds... starting distance error %20.56 removing remaining folds... final distance error %20.56 MRISunfold() return, current seed 1234 -01: dt=0.0000, 205 negative triangles 104: dt=0.9900, 205 negative triangles 105: dt=0.9900, 121 negative triangles 106: dt=0.9900, 98 negative triangles 107: dt=0.9900, 93 negative triangles 108: dt=0.9900, 95 negative triangles 109: dt=0.9900, 95 negative triangles 110: dt=0.9900, 89 negative triangles 111: dt=0.9900, 89 negative triangles 112: dt=0.9900, 77 negative triangles 113: dt=0.9900, 75 negative triangles 114: dt=0.9900, 81 negative triangles 115: dt=0.9900, 77 negative triangles 116: dt=0.9900, 78 negative triangles 117: dt=0.9900, 66 negative triangles 118: dt=0.9900, 66 negative triangles 119: dt=0.9900, 58 negative triangles 120: dt=0.9900, 50 negative triangles 121: dt=0.9900, 54 negative triangles 122: dt=0.9900, 49 negative triangles 123: dt=0.9900, 44 negative triangles 124: dt=0.9900, 39 negative triangles 125: dt=0.9900, 44 negative triangles 126: dt=0.9900, 34 negative triangles 127: dt=0.9900, 35 negative triangles 128: dt=0.9900, 29 negative triangles 129: dt=0.9900, 27 negative triangles 130: dt=0.9900, 25 negative triangles 131: dt=0.9900, 28 negative triangles 132: dt=0.9900, 25 negative triangles 133: dt=0.9900, 24 negative triangles 134: dt=0.9900, 24 negative triangles 135: dt=0.9900, 27 negative triangles 136: dt=0.9900, 30 negative triangles 137: dt=0.9900, 25 negative triangles 138: dt=0.9900, 22 negative triangles 139: dt=0.9900, 24 negative triangles 140: dt=0.9900, 18 negative triangles 141: dt=0.9900, 23 negative triangles 142: dt=0.9900, 22 negative triangles 143: dt=0.9900, 20 negative triangles 144: dt=0.9900, 22 negative triangles 145: dt=0.9900, 20 negative triangles 146: dt=0.9900, 22 negative triangles 147: dt=0.9900, 17 negative triangles 148: dt=0.9900, 20 negative triangles 149: dt=0.9900, 15 negative triangles 150: dt=0.9900, 19 negative triangles 151: dt=0.9900, 16 negative triangles 152: dt=0.9900, 16 negative triangles 153: dt=0.9900, 12 negative triangles 154: dt=0.9900, 16 negative triangles 155: dt=0.9900, 14 negative triangles 156: dt=0.9900, 11 negative triangles 157: dt=0.9900, 9 negative triangles 158: dt=0.9900, 11 negative triangles 159: dt=0.9900, 12 negative triangles 160: dt=0.9900, 10 negative triangles 161: dt=0.9900, 6 negative triangles 162: dt=0.9900, 4 negative triangles 163: dt=0.9900, 6 negative triangles 164: dt=0.9900, 3 negative triangles 165: dt=0.9900, 5 negative triangles 166: dt=0.9900, 4 negative triangles 167: dt=0.9900, 2 negative triangles 168: dt=0.9900, 4 negative triangles 169: dt=0.9900, 2 negative triangles 170: dt=0.9900, 1 negative triangles 171: dt=0.9900, 1 negative triangles 172: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere mris_sphere utimesec 561.286801 mris_sphere stimesec 1.502431 mris_sphere ru_maxrss 1530520 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 991692 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 9992 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 42 mris_sphere ru_nivcsw 1342 spherical transformation took 0.1567 hours FSRUNTIME@ mris_sphere 0.1567 hours 1 threads @#@FSTIME 2021:09:21:15:53:46 mris_sphere N 6 e 564.24 S 1.60 U 561.28 P 99% M 1530556 F 0 R 991714 W 0 c 1343 w 50 I 0 O 10000 L 11.02 11.02 11.04 @#@FSLOADPOST 2021:09:21:16:03:10 mris_sphere N 6 11.01 11.03 11.05 #-------------------------------------------- #@# Surf Reg lh Tue Sep 21 16:03:10 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_register -curv -rusage /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /usr/local/software/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts cmdline mris_register -curv -rusage /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /usr/local/software/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/software/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=cpu-e, 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=cpu-e, 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=cpu-e, 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 = 5.487 curvature mean = 0.019, std = 0.821 curvature mean = 0.015, std = 0.850 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (0.00, -3.50, 1.00) sse = 262433.7, elapsed since starting=0.4268 min MRISrigidBodyAlignGlobal() done 0.43 min curvature mean = 0.001, std = 0.834 curvature mean = 0.008, std = 0.941 curvature mean = -0.002, std = 0.842 curvature mean = 0.004, std = 0.976 curvature mean = -0.003, std = 0.843 curvature mean = 0.001, std = 0.990 2 Reading smoothwm curvature mean = -0.017, std = 0.266 curvature mean = 0.039, std = 0.247 curvature mean = 0.067, std = 0.347 curvature mean = 0.037, std = 0.304 curvature mean = 0.035, std = 0.546 curvature mean = 0.036, std = 0.332 curvature mean = 0.019, std = 0.688 curvature mean = 0.036, std = 0.344 curvature mean = 0.006, std = 0.796 MRISregister() return, current seed 0 -01: dt=0.0000, 33 negative triangles 109: dt=0.9900, 33 negative triangles 110: dt=0.9900, 30 negative triangles 111: dt=0.9900, 28 negative triangles 112: dt=0.9900, 26 negative triangles 113: dt=0.9900, 29 negative triangles 114: dt=0.9900, 33 negative triangles 115: dt=0.9900, 29 negative triangles 116: dt=0.9900, 26 negative triangles 117: dt=0.9900, 34 negative triangles 118: dt=0.9900, 34 negative triangles 119: dt=0.9900, 32 negative triangles 120: dt=0.9900, 29 negative triangles 121: dt=0.9900, 35 negative triangles 122: dt=0.9405, 28 negative triangles 123: dt=0.9405, 27 negative triangles 124: dt=0.9405, 29 negative triangles 125: dt=0.9405, 27 negative triangles 126: dt=0.9405, 33 negative triangles 127: dt=0.9405, 31 negative triangles 128: dt=0.9405, 33 negative triangles 129: dt=0.9405, 31 negative triangles 130: dt=0.9405, 29 negative triangles 131: dt=0.9405, 31 negative triangles 132: dt=0.8935, 30 negative triangles 133: dt=0.8935, 28 negative triangles 134: dt=0.8935, 31 negative triangles 135: dt=0.8935, 29 negative triangles 136: dt=0.8935, 30 negative triangles 137: dt=0.8935, 29 negative triangles 138: dt=0.8935, 27 negative triangles 139: dt=0.8935, 29 negative triangles 140: dt=0.8935, 28 negative triangles 141: dt=0.8935, 31 negative triangles 142: dt=0.8488, 27 negative triangles 143: dt=0.8488, 29 negative triangles 144: dt=0.8488, 25 negative triangles 145: dt=0.8488, 29 negative triangles 146: dt=0.8488, 25 negative triangles 147: dt=0.8488, 22 negative triangles 148: dt=0.8488, 21 negative triangles 149: dt=0.8488, 23 negative triangles 150: dt=0.8488, 19 negative triangles 151: dt=0.8488, 17 negative triangles 152: dt=0.8488, 20 negative triangles 153: dt=0.8488, 24 negative triangles 154: dt=0.8488, 20 negative triangles 155: dt=0.8488, 17 negative triangles 156: dt=0.8488, 18 negative triangles 157: dt=0.8488, 21 negative triangles 158: dt=0.8488, 18 negative triangles 159: dt=0.8488, 21 negative triangles 160: dt=0.8488, 18 negative triangles 161: dt=0.8064, 22 negative triangles 162: dt=0.8064, 21 negative triangles 163: dt=0.8064, 20 negative triangles 164: dt=0.8064, 18 negative triangles 165: dt=0.8064, 21 negative triangles 166: dt=0.8064, 19 negative triangles 167: dt=0.8064, 19 negative triangles 168: dt=0.8064, 19 negative triangles 169: dt=0.8064, 23 negative triangles 170: dt=0.8064, 21 negative triangles 171: dt=0.7660, 20 negative triangles 172: dt=0.7660, 19 negative triangles 173: dt=0.7660, 19 negative triangles 174: dt=0.7660, 20 negative triangles 175: dt=0.7660, 21 negative triangles 176: dt=0.7660, 21 negative triangles 177: dt=0.7660, 17 negative triangles 178: dt=0.7660, 16 negative triangles 179: dt=0.7660, 14 negative triangles 180: dt=0.7660, 19 negative triangles 181: dt=0.7660, 17 negative triangles 182: dt=0.7660, 16 negative triangles 183: dt=0.7660, 17 negative triangles 184: dt=0.7660, 18 negative triangles 185: dt=0.7660, 17 negative triangles 186: dt=0.7660, 20 negative triangles 187: dt=0.7660, 18 negative triangles 188: dt=0.7660, 17 negative triangles 189: dt=0.7277, 15 negative triangles 190: dt=0.7277, 17 negative triangles 191: dt=0.7277, 14 negative triangles 192: dt=0.7277, 21 negative triangles 193: dt=0.7277, 16 negative triangles 194: dt=0.7277, 16 negative triangles 195: dt=0.7277, 18 negative triangles 196: dt=0.7277, 16 negative triangles 197: dt=0.7277, 18 negative triangles 198: dt=0.7277, 18 negative triangles 199: dt=0.6914, 21 negative triangles 200: dt=0.6914, 18 negative triangles 201: dt=0.6914, 15 negative triangles 202: dt=0.6914, 17 negative triangles 203: dt=0.6914, 14 negative triangles 204: dt=0.6914, 19 negative triangles 205: dt=0.6914, 15 negative triangles 206: dt=0.6914, 20 negative triangles 207: dt=0.6914, 14 negative triangles 208: dt=0.6914, 17 negative triangles 209: dt=0.6568, 16 negative triangles 210: dt=0.6568, 16 negative triangles 211: dt=0.6568, 17 negative triangles 212: dt=0.6568, 16 negative triangles 213: dt=0.6568, 13 negative triangles 214: dt=0.6568, 16 negative triangles 215: dt=0.6568, 12 negative triangles 216: dt=0.6568, 21 negative triangles 217: dt=0.6568, 12 negative triangles 218: dt=0.6568, 14 negative triangles 219: dt=0.6568, 10 negative triangles 220: dt=0.6568, 8 negative triangles 221: dt=0.6568, 14 negative triangles 222: dt=0.6568, 14 negative triangles 223: dt=0.6568, 15 negative triangles 224: dt=0.6568, 14 negative triangles 225: dt=0.6568, 13 negative triangles 226: dt=0.6568, 12 negative triangles 227: dt=0.6568, 10 negative triangles 228: dt=0.6568, 13 negative triangles 229: dt=0.6568, 9 negative triangles 230: dt=0.6239, 9 negative triangles 231: dt=0.6239, 9 negative triangles 232: dt=0.6239, 8 negative triangles 233: dt=0.6239, 10 negative triangles 234: dt=0.6239, 9 negative triangles 235: dt=0.6239, 11 negative triangles 236: dt=0.6239, 8 negative triangles 237: dt=0.6239, 8 negative triangles 238: dt=0.6239, 6 negative triangles 239: dt=0.6239, 7 negative triangles 240: dt=0.6239, 7 negative triangles 241: dt=0.6239, 7 negative triangles 242: dt=0.6239, 6 negative triangles 243: dt=0.6239, 8 negative triangles 244: dt=0.6239, 8 negative triangles 245: dt=0.6239, 8 negative triangles 246: dt=0.6239, 6 negative triangles 247: dt=0.6239, 7 negative triangles 248: dt=0.6239, 4 negative triangles 249: dt=0.6239, 1 negative triangles 250: dt=0.6239, 3 negative triangles 251: dt=0.6239, 4 negative triangles 252: dt=0.6239, 1 negative triangles 253: dt=0.6239, 2 negative triangles 254: dt=0.6239, 1 negative triangles writing registered surface to ../surf/lh.sphere.reg... registration took 0.17 hours #VMPC# mris_register VmPeak 2206508 FSRUNTIME@ mris_register 0.1673 hours 1 threads @#@FSTIME 2021:09:21:16:03:10 mris_register N 6 e 602.31 S 1.75 U 599.10 P 99% M 1819928 F 0 R 968532 W 0 c 1370 w 55 I 0 O 10240 L 11.01 11.03 11.05 @#@FSLOADPOST 2021:09:21:16:13:13 mris_register N 6 10.96 11.01 11.04 ln -sf lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Tue Sep 21 16:13:13 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_register -curv -rusage /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /usr/local/software/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts cmdline mris_register -curv -rusage /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /usr/local/software/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/software/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=cpu-e, 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=cpu-e, 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=cpu-e, 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 = 5.554 curvature mean = 0.039, std = 0.814 curvature mean = 0.014, std = 0.857 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (0.50, -5.00, 8.50) sse = 234261.1, elapsed since starting=0.4353 min MRISrigidBodyAlignGlobal() done 0.44 min curvature mean = 0.019, std = 0.828 curvature mean = 0.006, std = 0.947 curvature mean = 0.015, std = 0.834 curvature mean = 0.002, std = 0.979 curvature mean = 0.015, std = 0.835 curvature mean = 0.000, std = 0.992 2 Reading smoothwm curvature mean = -0.016, std = 0.257 curvature mean = 0.039, std = 0.243 curvature mean = 0.059, std = 0.370 curvature mean = 0.036, std = 0.299 curvature mean = 0.030, std = 0.574 curvature mean = 0.035, std = 0.326 curvature mean = 0.016, std = 0.716 curvature mean = 0.035, std = 0.338 curvature mean = 0.004, std = 0.823 MRISregister() return, current seed 0 -01: dt=0.0000, 8 negative triangles 107: dt=0.9900, 8 negative triangles expanding nbhd size to 1 108: dt=0.9900, 9 negative triangles 109: dt=0.9900, 3 negative triangles 110: dt=0.9900, 1 negative triangles 111: dt=0.9900, 1 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.15 hours #VMPC# mris_register VmPeak 1829296 FSRUNTIME@ mris_register 0.1537 hours 1 threads @#@FSTIME 2021:09:21:16:13:13 mris_register N 6 e 553.53 S 1.40 U 550.80 P 99% M 1442720 F 0 R 789078 W 0 c 1328 w 58 I 0 O 9992 L 10.96 11.01 11.04 @#@FSLOADPOST 2021:09:21:16:22:26 mris_register N 6 10.99 10.96 11.01 ln -sf rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Tue Sep 21 16:22:26 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:16:22:26 mris_jacobian N 3 e 1.31 S 0.11 U 1.18 P 98% M 221508 F 0 R 33997 W 0 c 4 w 53 I 0 O 1144 L 10.99 10.96 11.01 @#@FSLOADPOST 2021:09:21:16:22:28 mris_jacobian N 3 10.99 10.96 11.01 #-------------------------------------------- #@# Jacobian white rh Tue Sep 21 16:22:28 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:16:22:28 mris_jacobian N 3 e 1.48 S 0.10 U 1.36 P 98% M 216076 F 0 R 33000 W 0 c 7 w 51 I 0 O 1112 L 10.99 10.96 11.01 @#@FSLOADPOST 2021:09:21:16:22:29 mris_jacobian N 3 10.99 10.96 11.01 #-------------------------------------------- #@# AvgCurv lh Tue Sep 21 16:22:29 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mrisp_paint -a 5 /usr/local/software/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/software/freesurfer/7.1.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2021:09:21:16:22:29 mrisp_paint N 5 e 1.02 S 0.08 U 0.93 P 98% M 168376 F 0 R 22591 W 0 c 5 w 51 I 0 O 1144 L 10.99 10.96 11.01 @#@FSLOADPOST 2021:09:21:16:22:30 mrisp_paint N 5 10.99 10.96 11.01 #-------------------------------------------- #@# AvgCurv rh Tue Sep 21 16:22:30 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mrisp_paint -a 5 /usr/local/software/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/software/freesurfer/7.1.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2021:09:21:16:22:30 mrisp_paint N 5 e 0.98 S 0.07 U 0.89 P 98% M 164384 F 0 R 21936 W 0 c 4 w 50 I 0 O 1112 L 10.99 10.96 11.01 @#@FSLOADPOST 2021:09:21:16:22:31 mrisp_paint N 5 10.99 10.96 11.01 #----------------------------------------- #@# Cortical Parc lh Tue Sep 21 16:22:31 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 32004 lh ../surf/lh.sphere.reg /usr/local/software/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/software/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... 1397 labels changed using aseg relabeling using gibbs priors... 000: 3418 changed, 145541 examined... 001: 821 changed, 14211 examined... 002: 183 changed, 4667 examined... 003: 68 changed, 1136 examined... 004: 29 changed, 409 examined... 005: 11 changed, 173 examined... 006: 4 changed, 70 examined... 007: 0 changed, 26 examined... 266 labels changed using aseg 000: 119 total segments, 77 labels (283 vertices) changed 001: 43 total segments, 1 labels (2 vertices) changed 002: 42 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 2 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 2220 vertices marked for relabeling... 2220 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2021:09:21:16:22:31 mris_ca_label N 11 e 12.43 S 0.77 U 11.62 P 99% M 1288080 F 0 R 373209 W 0 c 27 w 61 I 0 O 2280 L 10.99 10.96 11.01 @#@FSLOADPOST 2021:09:21:16:22:44 mris_ca_label N 11 10.99 10.97 11.01 #----------------------------------------- #@# Cortical Parc rh Tue Sep 21 16:22:44 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 32004 rh ../surf/rh.sphere.reg /usr/local/software/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/software/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... 1433 labels changed using aseg relabeling using gibbs priors... 000: 2883 changed, 141945 examined... 001: 660 changed, 12361 examined... 002: 158 changed, 3783 examined... 003: 62 changed, 1005 examined... 004: 28 changed, 404 examined... 005: 9 changed, 182 examined... 006: 6 changed, 60 examined... 007: 4 changed, 41 examined... 008: 4 changed, 23 examined... 009: 6 changed, 28 examined... 010: 1 changed, 24 examined... 011: 0 changed, 7 examined... 215 labels changed using aseg 000: 90 total segments, 50 labels (159 vertices) changed 001: 42 total segments, 2 labels (2 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... 1769 vertices marked for relabeling... 1769 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2021:09:21:16:22:44 mris_ca_label N 11 e 12.34 S 0.81 U 11.46 P 99% M 1122724 F 0 R 358942 W 0 c 30 w 61 I 0 O 2224 L 10.99 10.97 11.01 @#@FSLOADPOST 2021:09:21:16:22:56 mris_ca_label N 11 10.84 10.93 11.00 #-------------------------------------------- #@# WhiteSurfs lh Tue Sep 21 16:22:56 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only 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 291078 0.33725 0.12191 0.001536 2.5372 Corner 873234 60.00000 14.71181 0.414842 178.9502 Edge 436617 0.89479 0.20318 0.010144 3.4127 Hinge 436617 11.85270 12.62775 0.000035 179.9845 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=46993, wmmin=5, clip=110 MRIfindBrightNonWM(): 2095 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 696 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 72771: xyz = (-45.946,0.00243623,-5.02677) oxyz = (-45.946,0.00243623,-5.02677) wxzy = (-45.946,0.00243623,-5.02677) 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 = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=2 had to be increased for 177 vertices, nripped=10279 mean border=74.3, 78 (78) missing vertices, mean dist 0.4 [1.3 (%8.7)->0.5 (%91.3))] %66 local maxima, %27 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2433 min Finding expansion regions mean absolute distance = 0.58 +- 0.78 2263 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=cpu-e, 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=2956153.2, rms=10.087 001: dt: 0.5000, sse=1058560.6, rms=5.625 (44.236%) 002: dt: 0.5000, sse=700824.6, rms=4.288 (23.763%) 003: dt: 0.5000, sse=666523.7, rms=4.135 (3.581%) 004: dt: 0.5000, sse=624643.4, rms=3.936 (4.817%) rms = 4.0921/3.9355, sse=657948.3/624643.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=389321.8, rms=2.603 (33.869%) 006: dt: 0.2500, sse=318733.3, rms=2.034 (21.843%) 007: dt: 0.2500, sse=294992.8, rms=1.806 (11.210%) 008: dt: 0.2500, sse=290728.9, rms=1.752 (3.020%) rms = 1.7127/1.7516, sse=286920.5/290728.9, time step reduction 2 of 3 to 0.125 0 0 1 009: dt: 0.2500, sse=286920.5, rms=1.713 (2.219%) 010: dt: 0.1250, sse=273184.1, rms=1.555 (9.223%) rms = 1.5276/1.5547, sse=271159.7/273184.1, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=271159.7, rms=1.528 (1.745%) maximum number of reductions reached, breaking from loop positioning took 1.3 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=1 had to be increased for 167 vertices, nripped=10279 mean border=77.9, 133 (31) missing vertices, mean dist -0.2 [0.4 (%71.7)->0.2 (%28.3))] %73 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1693 min Finding expansion regions mean absolute distance = 0.33 +- 0.61 2997 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=cpu-e, 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=866875.2, rms=4.891 012: dt: 0.5000, sse=623018.5, rms=3.840 (21.487%) rms = 4.0933/3.8400, sse=669587.9/623018.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 013: dt: 0.2500, sse=405760.7, rms=2.623 (31.689%) 014: dt: 0.2500, sse=326050.2, rms=1.982 (24.442%) 015: dt: 0.2500, sse=295600.7, rms=1.684 (15.018%) 016: dt: 0.2500, sse=286984.4, rms=1.585 (5.869%) rms = 1.5485/1.5855, sse=283877.6/286984.4, time step reduction 2 of 3 to 0.125 0 0 1 017: dt: 0.2500, sse=283877.6, rms=1.548 (2.333%) 018: dt: 0.1250, sse=267813.3, rms=1.339 (13.517%) rms = 1.3129/1.3392, sse=266012.4/267813.3, time step reduction 3 of 3 to 0.062 0 0 1 019: dt: 0.1250, sse=266012.4, rms=1.313 (1.963%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 153 vertices, nripped=10279 mean border=81.5, 150 (15) missing vertices, mean dist -0.2 [0.3 (%76.0)->0.2 (%24.0))] %83 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0910 min Finding expansion regions mean absolute distance = 0.26 +- 0.37 3349 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=cpu-e, 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=759333.4, rms=4.489 020: dt: 0.5000, sse=658808.8, rms=4.009 (10.696%) rms = 4.0343/4.0092, sse=658730.5/658808.8, time step reduction 1 of 3 to 0.250 0 0 1 RMS increased, rejecting step 021: dt: 0.2500, sse=395770.1, rms=2.553 (36.330%) 022: dt: 0.2500, sse=316443.5, rms=1.910 (25.189%) 023: dt: 0.2500, sse=290747.4, rms=1.642 (14.039%) rms = 1.5973/1.6416, sse=286874.5/290747.4, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=286874.5, rms=1.597 (2.700%) 025: dt: 0.1250, sse=262140.2, rms=1.289 (19.313%) 026: dt: 0.1250, sse=257336.4, rms=1.223 (5.085%) rms = 1.2265/1.2232, sse=257625.6/257336.4, time step reduction 3 of 3 to 0.062 0 1 1 RMS increased, rejecting step 027: dt: 0.1250, sse=257625.6, rms=1.227 (-0.270%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 114.1274870; border_low = 61.0000000; outside_low = 47.7450490; outside_hi = 114.1274870; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 210 vertices, nripped=10279 mean border=82.9, 180 (10) missing vertices, mean dist -0.1 [0.2 (%60.7)->0.2 (%39.3))] %87 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0559 min Finding expansion regions mean absolute distance = 0.20 +- 0.29 2839 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=cpu-e, 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=323796.9, rms=2.024 rms = 2.9711/2.0236, sse=468048.2/323796.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=255108.1, rms=1.224 (39.500%) 029: dt: 0.2500, sse=244192.5, rms=0.992 (19.010%) rms = 1.0320/0.9916, sse=244417.5/244192.5, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.9548/0.9916, sse=241722.6/244192.5, time step reduction 3 of 3 to 0.062 0 0 1 030: dt: 0.1250, sse=241722.6, rms=0.955 (3.705%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/lh.white #ET# mris_place_surface 4.15 minutes #VMPC# mris_make_surfaces VmPeak 2413620 mris_place_surface done @#@FSTIME 2021:09:21:16:22:56 mris_place_surface N 23 e 258.04 S 1.40 U 256.00 P 99% M 2039248 F 0 R 944147 W 0 c 479 w 154 I 0 O 10240 L 10.84 10.93 11.00 @#@FSLOADPOST 2021:09:21:16:27:14 mris_place_surface N 23 11.05 11.01 11.01 #-------------------------------------------- #@# WhiteSurfs rh Tue Sep 21 16:27:14 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only 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 283886 0.33694 0.12062 0.000610 2.3310 Corner 851658 60.00000 14.42720 0.383075 178.4386 Edge 425829 0.89379 0.19953 0.032904 3.7037 Hinge 425829 11.59064 12.10437 0.000032 179.9682 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=46993, wmmin=5, clip=110 MRIfindBrightNonWM(): 2095 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 686 Ripping WMSA Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 70973: xyz = (16.7459,-6.30232,-21.6149) oxyz = (16.7459,-6.30232,-21.6149) wxzy = (16.7459,-6.30232,-21.6149) 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 = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=2 had to be increased for 179 vertices, nripped=10235 mean border=74.4, 59 (59) missing vertices, mean dist 0.4 [1.3 (%8.7)->0.5 (%91.3))] %69 local maxima, %24 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2462 min Finding expansion regions mean absolute distance = 0.61 +- 0.78 2056 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=cpu-e, 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=3231041.8, rms=10.727 001: dt: 0.5000, sse=1152191.2, rms=6.023 (43.853%) 002: dt: 0.5000, sse=721256.9, rms=4.467 (25.831%) 003: dt: 0.5000, sse=650161.4, rms=4.150 (7.108%) 004: dt: 0.5000, sse=608465.6, rms=3.944 (4.953%) rms = 4.0344/3.9441, sse=627078.7/608465.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=385392.9, rms=2.651 (32.793%) 006: dt: 0.2500, sse=312135.9, rms=2.065 (22.086%) 007: dt: 0.2500, sse=289465.4, rms=1.827 (11.537%) 008: dt: 0.2500, sse=283872.9, rms=1.769 (3.173%) rms = 1.7249/1.7690, sse=279820.7/283872.9, time step reduction 2 of 3 to 0.125 0 0 1 009: dt: 0.2500, sse=279820.8, rms=1.725 (2.495%) 010: dt: 0.1250, sse=265243.5, rms=1.560 (9.581%) rms = 1.5304/1.5596, sse=263068.8/265243.5, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=263068.8, rms=1.530 (1.875%) maximum number of reductions reached, breaking from loop positioning took 1.2 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=1 had to be increased for 149 vertices, nripped=10235 mean border=78.4, 79 (11) missing vertices, mean dist -0.2 [0.4 (%72.9)->0.2 (%27.1))] %75 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.1743 min Finding expansion regions mean absolute distance = 0.35 +- 0.61 2877 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=cpu-e, 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=972233.7, rms=5.365 012: dt: 0.5000, sse=619161.9, rms=3.914 (27.048%) rms = 4.0966/3.9140, sse=654428.9/619161.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 013: dt: 0.2500, sse=412049.8, rms=2.744 (29.905%) 014: dt: 0.2500, sse=326342.2, rms=2.065 (24.717%) 015: dt: 0.2500, sse=292971.7, rms=1.726 (16.444%) 016: dt: 0.2500, sse=284196.2, rms=1.626 (5.787%) 017: dt: 0.2500, sse=278652.0, rms=1.567 (3.611%) rms = 1.5362/1.5672, sse=276298.6/278652.0, time step reduction 2 of 3 to 0.125 0 0 1 018: dt: 0.2500, sse=276298.6, rms=1.536 (1.976%) 019: dt: 0.1250, sse=262121.0, rms=1.349 (12.174%) rms = 1.3062/1.3492, sse=259110.1/262121.0, time step reduction 3 of 3 to 0.062 0 0 1 020: dt: 0.1250, sse=259110.1, rms=1.306 (3.186%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 152 vertices, nripped=10235 mean border=82.2, 121 (5) missing vertices, mean dist -0.2 [0.3 (%77.5)->0.2 (%22.5))] %85 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0924 min Finding expansion regions mean absolute distance = 0.28 +- 0.39 4023 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=cpu-e, 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=810294.9, rms=4.782 021: dt: 0.5000, sse=650787.4, rms=4.069 (14.905%) rms = 4.0696/4.0689, sse=647562.1/650787.4, time step reduction 1 of 3 to 0.250 0 0 1 RMS increased, rejecting step 022: dt: 0.2500, sse=392569.0, rms=2.619 (35.630%) 023: dt: 0.2500, sse=311538.8, rms=1.935 (26.118%) 024: dt: 0.2500, sse=281878.2, rms=1.646 (14.957%) 025: dt: 0.2500, sse=278096.6, rms=1.587 (3.541%) rms = 1.5855/1.5874, sse=277711.6/278096.6, time step reduction 2 of 3 to 0.125 0 0 1 026: dt: 0.2500, sse=277711.7, rms=1.586 (0.120%) 027: dt: 0.1250, sse=253904.8, rms=1.254 (20.889%) 028: dt: 0.1250, sse=249631.0, rms=1.204 (4.042%) rms = 1.2052/1.2036, sse=250965.8/249631.0, time step reduction 3 of 3 to 0.062 0 1 1 RMS increased, rejecting step 029: dt: 0.1250, sse=250965.8, rms=1.205 (-0.131%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 114.1274870; border_low = 60.0000000; outside_low = 46.7450490; outside_hi = 114.1274870; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 191 vertices, nripped=10235 mean border=83.5, 168 (4) missing vertices, mean dist -0.1 [0.2 (%61.2)->0.2 (%38.8))] %88 local maxima, % 5 large gradients and % 0 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0574 min Finding expansion regions mean absolute distance = 0.20 +- 0.29 3038 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=cpu-e, 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=317399.3, rms=2.042 rms = 2.9347/2.0416, sse=458743.6/317399.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 030: dt: 0.2500, sse=250495.9, rms=1.247 (38.941%) 031: dt: 0.2500, sse=241440.5, rms=0.968 (22.332%) rms = 1.0044/0.9682, sse=243392.6/241440.5, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.9355/0.9682, sse=239215.8/241440.5, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=239215.8, rms=0.936 (3.375%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white #ET# mris_place_surface 4.19 minutes #VMPC# mris_make_surfaces VmPeak 2410908 mris_place_surface done @#@FSTIME 2021:09:21:16:27:14 mris_place_surface N 23 e 260.75 S 1.35 U 258.72 P 99% M 2036684 F 0 R 960801 W 0 c 505 w 152 I 0 O 9984 L 11.05 11.01 11.01 @#@FSLOADPOST 2021:09:21:16:31:35 mris_place_surface N 23 11.06 11.06 11.04 #-------------------------------------------- #@# T1PialSurf lh Tue Sep 21 16:31:35 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only 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 291078 0.33999 0.13626 0.000993 2.5763 Corner 873234 60.00000 16.32764 0.156882 179.0519 Edge 436617 0.90030 0.22309 0.014329 3.4366 Hinge 436617 12.09610 13.35165 0.000008 179.9881 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=46993, wmmin=5, clip=110 MRIfindBrightNonWM(): 2095 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.5538 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 72771: xyz = (-45.9563,-0.14005,-5.01616) oxyz = (-45.9563,-0.14005,-5.01616) wxzy = (-45.9563,-0.14005,-5.01616) pxyz = (-45.9563,-0.14005,-5.01616) n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 93.8725130; border_hi = 47.7450490; border_low = 21.2351530; outside_low = 10.0000000; outside_hi = 41.1175770; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=2 had to be increased for 301 vertices, nripped=7931 mean border=45.3, 111 (111) missing vertices, mean dist 1.7 [1.6 (%0.0)->2.6 (%100.0))] % 7 local maxima, %57 large gradients and %30 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2228 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=cpu-e, 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=40075656.0, rms=38.075 001: dt: 0.5000, sse=26875736.0, rms=31.140 (18.214%) 002: dt: 0.5000, sse=17921650.0, rms=25.378 (18.504%) 003: dt: 0.5000, sse=12402212.0, rms=21.053 (17.041%) 004: dt: 0.5000, sse=8912129.0, rms=17.782 (15.536%) 005: dt: 0.5000, sse=6457894.5, rms=15.062 (15.299%) 006: dt: 0.5000, sse=4574623.0, rms=12.581 (16.474%) 007: dt: 0.5000, sse=3190499.5, rms=10.385 (17.455%) 008: dt: 0.5000, sse=2282531.0, rms=8.645 (16.755%) 009: dt: 0.5000, sse=1804134.5, rms=7.566 (12.475%) 010: dt: 0.5000, sse=1617390.2, rms=7.098 (6.186%) 011: dt: 0.5000, sse=1586617.9, rms=7.014 (1.180%) 012: dt: 0.5000, sse=1561786.2, rms=6.946 (0.977%) 013: dt: 0.5000, sse=1490259.1, rms=6.752 (2.791%) 014: dt: 0.5000, sse=1400510.8, rms=6.502 (3.705%) 015: dt: 0.5000, sse=1336081.9, rms=6.315 (2.874%) 016: dt: 0.5000, sse=1286182.9, rms=6.165 (2.371%) 017: dt: 0.5000, sse=1254625.6, rms=6.068 (1.585%) 018: dt: 0.5000, sse=1221806.4, rms=5.965 (1.693%) 019: dt: 0.5000, sse=1204866.0, rms=5.909 (0.928%) 020: dt: 0.5000, sse=1189011.0, rms=5.858 (0.878%) rms = 5.8241/5.8576, sse=1179231.6/1189011.1, time step reduction 1 of 3 to 0.250 0 0 1 021: dt: 0.5000, sse=1179231.6, rms=5.824 (0.573%) 022: dt: 0.2500, sse=1004646.9, rms=5.232 (10.159%) 023: dt: 0.2500, sse=959565.9, rms=5.071 (3.076%) rms = 5.0483/5.0714, sse=953684.7/959565.9, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=953684.7, rms=5.048 (0.457%) 025: dt: 0.1250, sse=925391.1, rms=4.943 (2.090%) rms = 4.9175/4.9427, sse=918721.7/925391.1, time step reduction 3 of 3 to 0.062 0 0 1 026: dt: 0.1250, sse=918721.7, rms=4.917 (0.511%) maximum number of reductions reached, breaking from loop positioning took 2.5 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 93.8725130; border_hi = 47.7450490; border_low = 21.2351530; outside_low = 10.0000000; outside_hi = 41.1175770; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=1 had to be increased for 9067 vertices, nripped=7931 mean border=44.4, 1821 (17) missing vertices, mean dist 0.1 [0.1 (%64.9)->0.8 (%35.1))] %17 local maxima, %48 large gradients and %28 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0756 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=cpu-e, 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=1107241.6, rms=5.398 rms = 5.6422/5.3976, sse=1180314.4/1107241.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 027: dt: 0.2500, sse=1060842.4, rms=5.237 (2.969%) rms = 5.2917/5.2374, sse=1076682.5/1060842.4, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 5.2166/5.2374, sse=1055050.5/1060842.4, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=1055050.5, rms=5.217 (0.397%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 93.8725130; border_hi = 47.7450490; border_low = 21.2351530; outside_low = 10.0000000; outside_hi = 41.1175770; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 9131 vertices, nripped=7931 mean border=43.2, 2094 (15) missing vertices, mean dist 0.2 [0.1 (%49.7)->0.6 (%50.3))] %38 local maxima, %27 large gradients and %29 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0426 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=cpu-e, 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=1200539.5, rms=5.701 rms = 5.8762/5.7010, sse=1254998.7/1200539.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 029: dt: 0.2500, sse=1127627.2, rms=5.463 (4.183%) rms = 5.4546/5.4625, sse=1125086.5/1127627.2, time step reduction 2 of 3 to 0.125 0 0 1 030: dt: 0.2500, sse=1125086.5, rms=5.455 (0.146%) rms = 5.4533/5.4546, sse=1125048.7/1125086.5, time step reduction 3 of 3 to 0.062 0 0 1 031: dt: 0.1250, sse=1125048.6, rms=5.453 (0.024%) 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 = 93.8725130; border_hi = 47.7450490; border_low = 21.2351530; outside_low = 10.0000000; outside_hi = 41.1175770; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=145541 Gdiag_no=-1 vno start=0, stop=145541 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 7163 vertices, nripped=7931 mean border=42.3, 5007 (11) missing vertices, mean dist 0.1 [0.1 (%49.8)->0.4 (%50.2))] %44 local maxima, %19 large gradients and %28 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0259 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=cpu-e, 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=1199173.1, rms=5.689 rms = 5.7852/5.6891, sse=1225785.0/1199173.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 032: dt: 0.2500, sse=1126992.1, rms=5.453 (4.141%) 033: dt: 0.2500, sse=1073456.2, rms=5.278 (3.222%) 034: dt: 0.2500, sse=1046475.8, rms=5.188 (1.695%) 035: dt: 0.2500, sse=1012664.8, rms=5.073 (2.224%) 036: dt: 0.2500, sse=991608.1, rms=4.999 (1.456%) 037: dt: 0.2500, sse=972155.0, rms=4.931 (1.367%) rms = 4.8940/4.9307, sse=961860.3/972155.0, time step reduction 2 of 3 to 0.125 0 0 1 038: dt: 0.2500, sse=961860.3, rms=4.894 (0.746%) 039: dt: 0.1250, sse=917912.6, rms=4.726 (3.434%) 040: dt: 0.1250, sse=903381.1, rms=4.670 (1.177%) rms = 4.6572/4.6702, sse=899911.8/903381.1, time step reduction 3 of 3 to 0.062 0 0 1 041: dt: 0.1250, sse=899911.8, rms=4.657 (0.280%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Pinning medial wall to white surface removing intersecting faces 000: 24 intersecting terminating search with 0 intersecting Writing output to ../surf/lh.pial.T1 #ET# mris_place_surface 4.75 minutes #VMPC# mris_make_surfaces VmPeak 1626452 mris_place_surface done @#@FSTIME 2021:09:21:16:31:35 mris_place_surface N 26 e 294.26 S 1.08 U 292.44 P 99% M 1252164 F 0 R 790534 W 0 c 556 w 129 I 0 O 10240 L 11.06 11.06 11.04 @#@FSLOADPOST 2021:09:21:16:36:30 mris_place_surface N 26 15.73 13.44 12.02 #-------------------------------------------- #@# T1PialSurf rh Tue Sep 21 16:36:30 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only 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 283886 0.33957 0.13466 0.000560 2.5872 Corner 851658 60.00000 15.99000 0.266794 179.3330 Edge 425829 0.89920 0.21915 0.013194 4.1562 Hinge 425829 11.83743 12.74235 0.000085 179.9870 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=46993, wmmin=5, clip=110 MRIfindBrightNonWM(): 2095 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.0538 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 70973: xyz = (16.7459,-6.30232,-21.6149) oxyz = (16.7459,-6.30232,-21.6149) wxzy = (16.7459,-6.30232,-21.6149) pxyz = (16.7459,-6.30232,-21.6149) n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 93.8725130; border_hi = 46.7450490; border_low = 20.2351530; outside_low = 10.0000000; outside_hi = 40.1175770; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=2 had to be increased for 344 vertices, nripped=7653 mean border=44.6, 84 (84) missing vertices, mean dist 1.7 [0.0 (%0.0)->2.7 (%100.0))] % 8 local maxima, %54 large gradients and %33 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.2216 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=cpu-e, 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=42136476.0, rms=39.525 001: dt: 0.5000, sse=28686590.0, rms=32.575 (17.583%) 002: dt: 0.5000, sse=19472194.0, rms=26.792 (17.753%) 003: dt: 0.5000, sse=13725025.0, rms=22.441 (16.239%) 004: dt: 0.5000, sse=10007749.0, rms=19.106 (14.864%) 005: dt: 0.5000, sse=7294131.5, rms=16.243 (14.985%) 006: dt: 0.5000, sse=5161344.0, rms=13.574 (16.430%) 007: dt: 0.5000, sse=3563172.8, rms=11.163 (17.762%) 008: dt: 0.5000, sse=2503300.0, rms=9.221 (17.392%) 009: dt: 0.5000, sse=1904906.2, rms=7.916 (14.158%) 010: dt: 0.5000, sse=1621699.1, rms=7.214 (8.867%) 011: dt: 0.5000, sse=1503755.1, rms=6.899 (4.371%) 012: dt: 0.5000, sse=1433397.4, rms=6.702 (2.858%) 013: dt: 0.5000, sse=1369053.5, rms=6.517 (2.761%) 014: dt: 0.5000, sse=1315796.6, rms=6.358 (2.430%) 015: dt: 0.5000, sse=1269474.6, rms=6.217 (2.225%) 016: dt: 0.5000, sse=1228982.5, rms=6.090 (2.034%) 017: dt: 0.5000, sse=1199137.1, rms=5.994 (1.575%) 018: dt: 0.5000, sse=1174742.2, rms=5.914 (1.335%) 019: dt: 0.5000, sse=1158067.9, rms=5.858 (0.946%) rms = 5.8237/5.8584, sse=1148162.8/1158067.9, time step reduction 1 of 3 to 0.250 0 0 1 020: dt: 0.5000, sse=1148162.8, rms=5.824 (0.592%) 021: dt: 0.2500, sse=952535.1, rms=5.141 (11.730%) 022: dt: 0.2500, sse=898418.9, rms=4.938 (3.936%) rms = 4.9164/4.9382, sse=893299.6/898418.9, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=893299.6, rms=4.916 (0.441%) 024: dt: 0.1250, sse=861126.9, rms=4.790 (2.570%) rms = 4.7629/4.7900, sse=854383.0/861126.9, time step reduction 3 of 3 to 0.062 0 0 1 025: dt: 0.1250, sse=854382.9, rms=4.763 (0.566%) maximum number of reductions reached, breaking from loop positioning took 2.4 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 93.8725130; border_hi = 46.7450490; border_low = 20.2351530; outside_low = 10.0000000; outside_hi = 40.1175770; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=1 had to be increased for 8785 vertices, nripped=7653 mean border=43.6, 1880 (17) missing vertices, mean dist 0.2 [0.1 (%64.0)->0.8 (%36.0))] %17 local maxima, %47 large gradients and %29 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0732 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=cpu-e, 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=1032092.4, rms=5.251 rms = 5.4887/5.2510, sse=1099349.2/1032092.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=979104.2, rms=5.058 (3.676%) rms = 5.0679/5.0579, sse=981930.9/979104.2, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 5.0286/5.0579, sse=971339.0/979104.2, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=971339.0, rms=5.029 (0.579%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 93.8725130; border_hi = 46.7450490; border_low = 20.2351530; outside_low = 10.0000000; outside_hi = 40.1175770; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 8981 vertices, nripped=7653 mean border=42.6, 2150 (15) missing vertices, mean dist 0.2 [0.1 (%50.8)->0.6 (%49.2))] %36 local maxima, %27 large gradients and %30 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0406 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=cpu-e, 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=1085249.6, rms=5.434 rms = 5.6841/5.4340, sse=1158343.0/1085249.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=1016848.8, rms=5.193 (4.428%) rms = 5.1811/5.1933, sse=1013198.6/1016848.7, time step reduction 2 of 3 to 0.125 0 0 1 029: dt: 0.2500, sse=1013198.6, rms=5.181 (0.236%) rms = 5.1591/5.1811, sse=1007402.0/1013198.6, time step reduction 3 of 3 to 0.062 0 0 1 030: dt: 0.1250, sse=1007402.0, rms=5.159 (0.425%) 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 = 93.8725130; border_hi = 46.7450490; border_low = 20.2351530; outside_low = 10.0000000; outside_hi = 40.1175770; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 BorderValsHiRes=0 nvertices=141945 Gdiag_no=-1 vno start=0, stop=141945 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 7231 vertices, nripped=7653 mean border=41.7, 4802 (11) missing vertices, mean dist 0.1 [0.1 (%51.1)->0.4 (%48.9))] %43 local maxima, %20 large gradients and %29 min vals, 0 gradients ignored MRIScomputeBorderValues_new() finished in 0.0249 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=cpu-e, 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=1064544.4, rms=5.355 rms = 5.5591/5.3547, sse=1120931.6/1064544.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 031: dt: 0.2500, sse=1002655.1, rms=5.135 (4.104%) 032: dt: 0.2500, sse=960235.7, rms=4.984 (2.933%) 033: dt: 0.2500, sse=940844.1, rms=4.916 (1.378%) 034: dt: 0.2500, sse=911388.8, rms=4.807 (2.219%) rms = 4.7607/4.8066, sse=899108.8/911388.7, time step reduction 2 of 3 to 0.125 0 0 1 035: dt: 0.2500, sse=899108.9, rms=4.761 (0.956%) 036: dt: 0.1250, sse=856029.6, rms=4.587 (3.643%) 037: dt: 0.1250, sse=842124.6, rms=4.531 (1.225%) rms = 4.5092/4.5311, sse=836646.9/842124.6, time step reduction 3 of 3 to 0.062 0 0 1 038: dt: 0.1250, sse=836646.9, rms=4.509 (0.483%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Pinning medial wall to white surface removing intersecting faces 000: 9 intersecting 001: 4 intersecting terminating search with 0 intersecting Writing output to ../surf/rh.pial.T1 #ET# mris_place_surface 4.48 minutes #VMPC# mris_make_surfaces VmPeak 1587704 mris_place_surface done @#@FSTIME 2021:09:21:16:36:30 mris_place_surface N 26 e 277.71 S 1.03 U 275.97 P 99% M 1213432 F 0 R 761867 W 0 c 411 w 127 I 0 O 9984 L 15.73 13.44 12.02 @#@FSLOADPOST 2021:09:21:16:41:07 mris_place_surface N 26 16.74 15.20 13.12 #@# white curv lh Tue Sep 21 16:41:07 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:16:41:08 mris_place_surface N 5 e 2.40 S 0.09 U 2.29 P 99% M 201388 F 0 R 31432 W 0 c 7 w 34 I 0 O 1144 L 16.74 15.20 13.12 @#@FSLOADPOST 2021:09:21:16:41:10 mris_place_surface N 5 16.84 15.25 13.15 #@# white area lh Tue Sep 21 16:41:10 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area writing curvature file ../surf/lh.area @#@FSTIME 2021:09:21:16:41:10 mris_place_surface N 3 e 1.09 S 0.08 U 0.99 P 98% M 201068 F 0 R 29961 W 0 c 5 w 34 I 0 O 1144 L 16.84 15.25 13.15 @#@FSLOADPOST 2021:09:21:16:41:11 mris_place_surface N 3 16.84 15.25 13.15 #@# pial curv lh Tue Sep 21 16:41:11 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:16:41:11 mris_place_surface N 5 e 2.35 S 0.10 U 2.23 P 99% M 201388 F 0 R 30658 W 0 c 8 w 34 I 0 O 1144 L 16.84 15.25 13.15 @#@FSLOADPOST 2021:09:21:16:41:14 mris_place_surface N 5 16.70 15.25 13.16 #@# pial area lh Tue Sep 21 16:41:14 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial writing curvature file ../surf/lh.area.pial @#@FSTIME 2021:09:21:16:41:14 mris_place_surface N 3 e 1.08 S 0.08 U 0.98 P 98% M 201072 F 0 R 29184 W 0 c 6 w 34 I 0 O 1144 L 16.70 15.25 13.16 @#@FSLOADPOST 2021:09:21:16:41:15 mris_place_surface N 3 16.70 15.25 13.16 #@# thickness lh Tue Sep 21 16:41:15 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness 0 of 145541 vertices processed 25000 of 145541 vertices processed 50000 of 145541 vertices processed 75000 of 145541 vertices processed 100000 of 145541 vertices processed 125000 of 145541 vertices processed 0 of 145541 vertices processed 25000 of 145541 vertices processed 50000 of 145541 vertices processed 75000 of 145541 vertices processed 100000 of 145541 vertices processed 125000 of 145541 vertices processed thickness calculation complete, 183:830 truncations. 64829 vertices at 0 distance 131886 vertices at 1 distance 67732 vertices at 2 distance 18208 vertices at 3 distance 5211 vertices at 4 distance 1827 vertices at 5 distance 651 vertices at 6 distance 279 vertices at 7 distance 155 vertices at 8 distance 108 vertices at 9 distance 74 vertices at 10 distance 27 vertices at 11 distance 21 vertices at 12 distance 15 vertices at 13 distance 16 vertices at 14 distance 8 vertices at 15 distance 9 vertices at 16 distance 9 vertices at 17 distance 11 vertices at 18 distance 3 vertices at 19 distance 3 vertices at 20 distance writing curvature file ../surf/lh.thickness @#@FSTIME 2021:09:21:16:41:15 mris_place_surface N 6 e 38.11 S 0.12 U 37.89 P 99% M 202240 F 0 R 77871 W 0 c 69 w 38 I 0 O 1144 L 16.70 15.25 13.16 @#@FSLOADPOST 2021:09:21:16:41:53 mris_place_surface N 6 16.81 15.44 13.30 #@# area and vertex vol lh Tue Sep 21 16:41:53 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 lh /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.volume masking with /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Total face volume 247361 Total vertex volume 247153 (mask=0) #@# 32004 lh 247153 vertexvol Done @#@FSTIME 2021:09:21:16:41:53 vertexvol N 4 e 2.02 S 0.16 U 1.78 P 96% M 330708 F 0 R 45184 W 0 c 10 w 317 I 0 O 3432 L 16.81 15.44 13.30 @#@FSLOADPOST 2021:09:21:16:41:55 vertexvol N 4 16.82 15.46 13.32 #@# white curv rh Tue Sep 21 16:41:55 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:16:41:55 mris_place_surface N 5 e 2.35 S 0.11 U 2.23 P 99% M 196556 F 0 R 30101 W 0 c 9 w 35 I 0 O 1112 L 16.82 15.46 13.32 @#@FSLOADPOST 2021:09:21:16:41:57 mris_place_surface N 5 16.82 15.46 13.32 #@# white area rh Tue Sep 21 16:41:57 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area writing curvature file ../surf/rh.area @#@FSTIME 2021:09:21:16:41:57 mris_place_surface N 3 e 1.08 S 0.08 U 0.99 P 99% M 196236 F 0 R 29050 W 0 c 7 w 34 I 0 O 1112 L 16.82 15.46 13.32 @#@FSLOADPOST 2021:09:21:16:41:59 mris_place_surface N 3 16.84 15.49 13.34 #@# pial curv rh Tue Sep 21 16:41:59 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:09:21:16:41:59 mris_place_surface N 5 e 2.31 S 0.09 U 2.20 P 99% M 196556 F 0 R 29376 W 0 c 16 w 33 I 0 O 1112 L 16.84 15.49 13.34 @#@FSLOADPOST 2021:09:21:16:42:01 mris_place_surface N 5 16.84 15.49 13.34 #@# pial area rh Tue Sep 21 16:42:01 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial writing curvature file ../surf/rh.area.pial @#@FSTIME 2021:09:21:16:42:01 mris_place_surface N 3 e 0.98 S 0.08 U 0.89 P 98% M 196240 F 0 R 27818 W 0 c 5 w 34 I 0 O 1112 L 16.84 15.49 13.34 @#@FSLOADPOST 2021:09:21:16:42:02 mris_place_surface N 3 16.84 15.49 13.34 #@# thickness rh Tue Sep 21 16:42:02 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness 0 of 141945 vertices processed 25000 of 141945 vertices processed 50000 of 141945 vertices processed 75000 of 141945 vertices processed 100000 of 141945 vertices processed 125000 of 141945 vertices processed 0 of 141945 vertices processed 25000 of 141945 vertices processed 50000 of 141945 vertices processed 75000 of 141945 vertices processed 100000 of 141945 vertices processed 125000 of 141945 vertices processed thickness calculation complete, 104:762 truncations. 63513 vertices at 0 distance 127291 vertices at 1 distance 66076 vertices at 2 distance 18868 vertices at 3 distance 5370 vertices at 4 distance 1726 vertices at 5 distance 568 vertices at 6 distance 196 vertices at 7 distance 62 vertices at 8 distance 35 vertices at 9 distance 37 vertices at 10 distance 37 vertices at 11 distance 24 vertices at 12 distance 21 vertices at 13 distance 17 vertices at 14 distance 11 vertices at 15 distance 4 vertices at 16 distance 12 vertices at 17 distance 6 vertices at 18 distance 4 vertices at 19 distance 12 vertices at 20 distance writing curvature file ../surf/rh.thickness @#@FSTIME 2021:09:21:16:42:02 mris_place_surface N 6 e 32.83 S 0.13 U 32.61 P 99% M 197372 F 0 R 72887 W 0 c 64 w 39 I 0 O 1112 L 16.84 15.49 13.34 @#@FSLOADPOST 2021:09:21:16:42:35 mris_place_surface N 6 16.63 15.58 13.45 #@# area and vertex vol rh Tue Sep 21 16:42:35 BST 2021 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 rh /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.volume masking with /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Total face volume 240692 Total vertex volume 240481 (mask=0) #@# 32004 rh 240481 vertexvol Done @#@FSTIME 2021:09:21:16:42:35 vertexvol N 4 e 2.08 S 0.16 U 1.82 P 95% M 322604 F 0 R 44423 W 0 c 13 w 313 I 0 O 3336 L 16.63 15.58 13.45 @#@FSLOADPOST 2021:09:21:16:42:37 vertexvol N 4 16.63 15.58 13.45 #----------------------------------------- #@# Curvature Stats lh Tue Sep 21 16:42:37 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 32004 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 [ 32004/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 [ 272 ] Gb_filter = 0 WARN: S lookup min: -0.129227 WARN: S explicit min: 0.000000 vertex = 42 @#@FSTIME 2021:09:21:16:42:37 mris_curvature_stats N 11 e 3.78 S 0.14 U 3.57 P 98% M 199512 F 0 R 49946 W 0 c 57 w 207 I 0 O 9192 L 16.63 15.58 13.45 @#@FSLOADPOST 2021:09:21:16:42:41 mris_curvature_stats N 11 16.50 15.57 13.46 #----------------------------------------- #@# Curvature Stats rh Tue Sep 21 16:42:41 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 32004 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 [ 32004/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 [ 273 ] Gb_filter = 0 WARN: S lookup min: -0.050864 WARN: S explicit min: 0.000000 vertex = 838 @#@FSTIME 2021:09:21:16:42:41 mris_curvature_stats N 11 e 4.14 S 0.18 U 3.89 P 98% M 194688 F 0 R 61386 W 0 c 56 w 206 I 0 O 8936 L 16.50 15.57 13.46 @#@FSLOADPOST 2021:09:21:16:42:45 mris_curvature_stats N 11 16.46 15.58 13.47 #-------------------------------------------- #@# Cortical ribbon mask Tue Sep 21 16:42:45 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 SUBJECTS_DIR is /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only 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 = 359 writing volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/ribbon.mgz mris_volmask took 7.84 minutes writing ribbon files @#@FSTIME 2021:09:21:16:42:45 mris_volmask N 12 e 470.17 S 0.94 U 468.08 P 99% M 1032772 F 0 R 320009 W 0 c 926 w 76 I 0 O 920 L 16.46 15.58 13.47 @#@FSLOADPOST 2021:09:21:16:50:35 mris_volmask N 12 20.42 19.01 15.92 #----------------------------------------- #@# Cortical Parc 2 lh Tue Sep 21 16:50:35 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 32004 lh ../surf/lh.sphere.reg /usr/local/software/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/software/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... 10 labels changed using aseg relabeling using gibbs priors... 000: 9559 changed, 145541 examined... 001: 2204 changed, 37066 examined... 002: 646 changed, 11774 examined... 003: 286 changed, 3816 examined... 004: 122 changed, 1721 examined... 005: 58 changed, 702 examined... 006: 37 changed, 320 examined... 007: 21 changed, 209 examined... 008: 13 changed, 106 examined... 009: 7 changed, 68 examined... 010: 4 changed, 36 examined... 011: 3 changed, 25 examined... 012: 0 changed, 18 examined... 8 labels changed using aseg 000: 258 total segments, 171 labels (2162 vertices) changed 001: 95 total segments, 8 labels (64 vertices) changed 002: 87 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 29 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1492 vertices marked for relabeling... 1492 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 17 seconds. @#@FSTIME 2021:09:21:16:50:36 mris_ca_label N 11 e 17.20 S 1.30 U 15.83 P 99% M 2018072 F 0 R 535882 W 0 c 29 w 65 I 0 O 2288 L 20.42 19.01 15.92 @#@FSLOADPOST 2021:09:21:16:50:53 mris_ca_label N 11 20.40 19.08 15.99 #----------------------------------------- #@# Cortical Parc 2 rh Tue Sep 21 16:50:53 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 32004 rh ../surf/rh.sphere.reg /usr/local/software/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/software/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... 53 labels changed using aseg relabeling using gibbs priors... 000: 9630 changed, 141945 examined... 001: 2176 changed, 37179 examined... 002: 603 changed, 11573 examined... 003: 258 changed, 3512 examined... 004: 124 changed, 1564 examined... 005: 54 changed, 715 examined... 006: 25 changed, 329 examined... 007: 10 changed, 140 examined... 008: 3 changed, 54 examined... 009: 2 changed, 13 examined... 010: 0 changed, 12 examined... 43 labels changed using aseg 000: 251 total segments, 165 labels (2325 vertices) changed 001: 102 total segments, 18 labels (82 vertices) changed 002: 85 total segments, 1 labels (1 vertices) changed 003: 84 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 37 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1335 vertices marked for relabeling... 1335 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 17 seconds. @#@FSTIME 2021:09:21:16:50:53 mris_ca_label N 11 e 17.34 S 1.36 U 15.88 P 99% M 1947388 F 0 R 565146 W 0 c 40 w 60 I 0 O 2232 L 20.40 19.08 15.99 @#@FSLOADPOST 2021:09:21:16:51:10 mris_ca_label N 11 20.42 19.17 16.08 #----------------------------------------- #@# Cortical Parc 3 lh Tue Sep 21 16:51:10 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 32004 lh ../surf/lh.sphere.reg /usr/local/software/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/software/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... 2113 labels changed using aseg relabeling using gibbs priors... 000: 2233 changed, 145541 examined... 001: 554 changed, 10154 examined... 002: 163 changed, 3051 examined... 003: 95 changed, 953 examined... 004: 53 changed, 542 examined... 005: 37 changed, 305 examined... 006: 19 changed, 197 examined... 007: 11 changed, 108 examined... 008: 13 changed, 51 examined... 009: 11 changed, 64 examined... 010: 12 changed, 56 examined... 011: 6 changed, 52 examined... 012: 4 changed, 34 examined... 013: 6 changed, 28 examined... 014: 4 changed, 31 examined... 015: 8 changed, 24 examined... 016: 8 changed, 36 examined... 017: 8 changed, 40 examined... 018: 3 changed, 32 examined... 019: 3 changed, 17 examined... 020: 3 changed, 16 examined... 021: 3 changed, 16 examined... 022: 1 changed, 16 examined... 023: 2 changed, 7 examined... 024: 0 changed, 8 examined... 419 labels changed using aseg 000: 63 total segments, 30 labels (244 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 6 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 976 vertices marked for relabeling... 976 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2021:09:21:16:51:10 mris_ca_label N 11 e 12.46 S 0.55 U 11.86 P 99% M 1013600 F 0 R 328781 W 0 c 47 w 59 I 0 O 2280 L 20.42 19.17 16.08 @#@FSLOADPOST 2021:09:21:16:51:23 mris_ca_label N 11 20.51 19.23 16.14 #----------------------------------------- #@# Cortical Parc 3 rh Tue Sep 21 16:51:23 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 32004 rh ../surf/rh.sphere.reg /usr/local/software/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/software/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... 2138 labels changed using aseg relabeling using gibbs priors... 000: 2078 changed, 141945 examined... 001: 515 changed, 9686 examined... 002: 147 changed, 2907 examined... 003: 85 changed, 845 examined... 004: 45 changed, 429 examined... 005: 24 changed, 254 examined... 006: 16 changed, 122 examined... 007: 9 changed, 89 examined... 008: 6 changed, 55 examined... 009: 7 changed, 33 examined... 010: 3 changed, 39 examined... 011: 5 changed, 19 examined... 012: 3 changed, 22 examined... 013: 2 changed, 19 examined... 014: 1 changed, 9 examined... 015: 1 changed, 7 examined... 016: 1 changed, 7 examined... 017: 1 changed, 8 examined... 018: 1 changed, 7 examined... 019: 1 changed, 7 examined... 020: 1 changed, 6 examined... 021: 0 changed, 7 examined... 394 labels changed using aseg 000: 49 total segments, 16 labels (75 vertices) changed 001: 33 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... 951 vertices marked for relabeling... 951 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2021:09:21:16:51:23 mris_ca_label N 11 e 12.19 S 0.52 U 11.63 P 99% M 931332 F 0 R 292199 W 0 c 52 w 59 I 0 O 2224 L 20.51 19.23 16.14 @#@FSLOADPOST 2021:09:21:16:51:35 mris_ca_label N 11 20.62 19.31 16.21 #----------------------------------------- #@# WM/GM Contrast lh Tue Sep 21 16:51:35 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts pctsurfcon --s 32004 --lh-only Log file is /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts/pctsurfcon.log Tue Sep 21 16:51:35 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts /usr/local/software/freesurfer/7.1.0/bin/pctsurfcon pctsurfcon 7.1.0 Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 mri_vol2surf --mov /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.252968/lh.wm.mgh --regheader 32004 --cortex srcvol = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 -0.00001; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Reading surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 = 116342 Masking with /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.252968/lh.wm.mgh Dim: 145541 1 1 mri_vol2surf --mov /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.252968/lh.gm.mgh --projfrac 0.3 --regheader 32004 --cortex srcvol = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 -0.00001; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Reading surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Done reading source surface Reading thickness /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 = 133705 Masking with /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.252968/lh.gm.mgh Dim: 145541 1 1 mri_concat /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.252968/lh.wm.mgh /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.252968/lh.gm.mgh --paired-diff-norm --mul 100 --o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh mri_segstats --in /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh --annot 32004 lh aparc --sum /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/stats/lh.w-g.pct.stats --snr 7.1.0 cwd cmdline mri_segstats --in /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh --annot 32004 lh aparc --sum /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/stats/lh.w-g.pct.stats --snr sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh Vertex Area is 0.679966 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 2021:09:21:16:51:35 pctsurfcon N 3 e 10.96 S 6.34 U 4.40 P 98% M 351392 F 0 R 87470 W 0 c 42 w 430 I 112280 O 3536 L 20.62 19.31 16.21 @#@FSLOADPOST 2021:09:21:16:51:46 pctsurfcon N 3 20.52 19.34 16.26 #----------------------------------------- #@# WM/GM Contrast rh Tue Sep 21 16:51:46 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts pctsurfcon --s 32004 --rh-only Log file is /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts/pctsurfcon.log Tue Sep 21 16:51:46 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts /usr/local/software/freesurfer/7.1.0/bin/pctsurfcon pctsurfcon 7.1.0 Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 mri_vol2surf --mov /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.253284/rh.wm.mgh --regheader 32004 --cortex srcvol = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 -0.00001; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Reading surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 = 113648 Masking with /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.253284/rh.wm.mgh Dim: 141945 1 1 mri_vol2surf --mov /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.253284/rh.gm.mgh --projfrac 0.3 --regheader 32004 --cortex srcvol = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 -0.00001; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Reading surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Done reading source surface Reading thickness /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 = 130399 Masking with /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.253284/rh.gm.mgh Dim: 141945 1 1 mri_concat /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.253284/rh.wm.mgh /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/tmp.pctsurfcon.253284/rh.gm.mgh --paired-diff-norm --mul 100 --o /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh mri_segstats --in /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh --annot 32004 rh aparc --sum /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/stats/rh.w-g.pct.stats --snr 7.1.0 cwd cmdline mri_segstats --in /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh --annot 32004 rh aparc --sum /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/stats/rh.w-g.pct.stats --snr sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh Vertex Area is 0.679132 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 2021:09:21:16:51:46 pctsurfcon N 3 e 4.60 S 0.38 U 4.12 P 97% M 347248 F 0 R 80943 W 0 c 31 w 464 I 0 O 3440 L 20.52 19.34 16.26 @#@FSLOADPOST 2021:09:21:16:51:51 pctsurfcon N 3 20.56 19.36 16.28 #----------------------------------------- #@# Relabel Hypointensities Tue Sep 21 16:51:51 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz reading input surface ../surf/lh.white... relabeling lh hypointensities... 803 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 932 voxels changed to hypointensity... 1782 hypointense voxels neighboring cortex changed @#@FSTIME 2021:09:21:16:51:51 mri_relabel_hypointensities N 3 e 17.40 S 0.60 U 16.73 P 99% M 521708 F 0 R 169217 W 0 c 65 w 56 I 0 O 736 L 20.56 19.36 16.28 @#@FSLOADPOST 2021:09:21:16:52:08 mri_relabel_hypointensities N 3 20.58 19.43 16.35 #----------------------------------------- #@# APas-to-ASeg Tue Sep 21 16:52:08 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/ribbon.mgz --threads 1 --lh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label --lh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white --lh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial --rh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label --rh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white --rh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only outvol aseg.mgz 2 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/ribbon.mgz Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 = 174836 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 1090032 mri_surf2volseg done @#@FSTIME 2021:09:21:16:52:08 mri_surf2volseg N 20 e 16.19 S 0.54 U 15.56 P 99% M 937872 F 0 R 159312 W 0 c 280 w 105 I 0 O 736 L 20.58 19.43 16.35 @#@FSLOADPOST 2021:09:21:16:52:24 mri_surf2volseg N 20 20.63 19.51 16.44 mri_brainvol_stats 32004 ComputeBrainVolumeStats2 VoxelVol=1, KeepCSF=1 #CBVS2 MaskVol 1722748.0 #CBVS2 BrainSegVol 1175863.0 #CBVS2 BrainSegVolNotVent 1138421.0 #CBVS2 SupraTentVol 1100313.0 #CBVS2 SupraTentVolNotVent 1062871.0 #CBVS2 lhCtxGM 246939.7 #CBVS2 rhCtxGM 240315.7 #CBVS2 lhCerebralWM 258276.5 #CBVS2 rhCerebralWM 257132.5 #CBVS2 SubCortGMVol 62258.0 #CBVS2 CerebellumVol 75550.0 #CBVS2 CerebellumGMVol 58155.0 #CBVS2 VentChorVol 32555.0 #CBVS2 3rd4th5thCSF 4887.0 #CBVS2 AllCSF 37442.0 #CBVS2 CCVol 4787.0 @#@FSTIME 2021:09:21:16:52:25 mri_brainvol_stats N 1 e 6.39 S 0.28 U 6.00 P 98% M 250748 F 0 R 99400 W 0 c 22 w 98 I 2960 O 8 L 20.63 19.51 16.44 @#@FSLOADPOST 2021:09:21:16:52:31 mri_brainvol_stats N 1 20.58 19.52 16.46 #----------------------------------------- #@# AParc-to-ASeg aparc Tue Sep 21 16:52:31 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_surf2volseg --o aparc+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.aparc.annot 1000 --lh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label --lh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white --lh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial --rh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.aparc.annot 2000 --rh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label --rh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white --rh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only outvol aparc+aseg.mgz 2 avail.processors, using 1 Loading aseg.mgz Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9583 vertices from lh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9549 vertices from rh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 = 485161 ndotcheck = 21636 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 1074308 mri_surf2volseg done @#@FSTIME 2021:09:21:16:52:31 mri_surf2volseg N 25 e 160.41 S 0.41 U 159.56 P 99% M 922220 F 0 R 169860 W 0 c 399 w 216 I 0 O 840 L 20.58 19.52 16.46 @#@FSLOADPOST 2021:09:21:16:55:11 mri_surf2volseg N 25 20.06 19.84 17.08 #----------------------------------------- #@# AParc-to-ASeg aparc.a2009s Tue Sep 21 16:55:11 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_surf2volseg --o aparc.a2009s+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.aparc.a2009s.annot 11100 --lh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label --lh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white --lh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial --rh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.aparc.a2009s.annot 12100 --rh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label --rh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white --rh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only outvol aparc.a2009s+aseg.mgz 2 avail.processors, using 1 Loading aseg.mgz Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9583 vertices from lh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9549 vertices from rh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 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aparc.DKTatlas+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.aparc.DKTatlas.annot 1000 --lh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label --lh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white --lh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial --rh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.aparc.DKTatlas.annot 2000 --rh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label --rh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white --rh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only outvol aparc.DKTatlas+aseg.mgz 2 avail.processors, using 1 Loading aseg.mgz Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9583 vertices from lh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9549 vertices from rh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 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17.86 #----------------------------------------- #@# WMParc Tue Sep 21 17:00:15 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_surf2volseg --o wmparc.mgz --label-wm --i aparc+aseg.mgz --threads 1 --lh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.aparc.annot 3000 --lh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label --lh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white --lh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial --rh-annot /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.aparc.annot 4000 --rh-cortex-mask /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label --rh-white /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white --rh-pial /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only outvol wmparc.mgz 2 avail.processors, using 1 Loading aparc+aseg.mgz Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9583 vertices from lh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9549 vertices from rh hemi Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 = 510622 ndotcheck = 4797 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 1074308 mri_surf2volseg done @#@FSTIME 2021:09:21:17:00:15 mri_surf2volseg N 25 e 54.05 S 0.37 U 53.48 P 99% M 922220 F 0 R 160340 W 0 c 266 w 229 I 0 O 944 L 19.88 19.87 17.86 @#@FSLOADPOST 2021:09:21:17:01:09 mri_surf2volseg N 25 19.91 19.88 17.98 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 32004 --surf-wm-vol --ctab /usr/local/software/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 32004 --surf-wm-vol --ctab /usr/local/software/freesurfer/7.1.0/WMParcStatsLUT.txt --etiv sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1328708 mm^3 (det: 1.466165 ) 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 2021:09:21:17:01:09 mri_segstats N 24 e 337.24 S 0.36 U 336.04 P 99% M 251436 F 0 R 83509 W 0 c 525 w 88 I 3104 O 24 L 19.91 19.88 17.98 @#@FSLOADPOST 2021:09:21:17:06:46 mri_segstats N 24 41.06 31.58 23.36 #----------------------------------------- #@# Parcellation Stats lh Tue Sep 21 17:06:46 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 247361 Total vertex volume 247153 (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) = 1328708 mm^3 (det: 1.466165 ) 2112 1397 3269 2.300 0.408 0.092 0.018 13 1.5 bankssts 1029 679 1881 2.649 0.540 0.124 0.021 14 0.8 caudalanteriorcingulate 2892 1916 4925 2.401 0.397 0.109 0.022 21 2.6 caudalmiddlefrontal 2489 1729 3746 1.982 0.481 0.146 0.038 35 3.8 cuneus 665 483 1800 2.386 0.843 0.134 0.039 9 1.2 entorhinal 4596 3393 8906 2.253 0.574 0.132 0.033 66 5.7 fusiform 7131 4761 12189 2.365 0.395 0.112 0.022 75 6.4 inferiorparietal 5144 3643 8360 2.095 0.564 0.133 0.041 102 9.3 inferiortemporal 1677 1142 2513 2.092 0.667 0.125 0.029 20 1.8 isthmuscingulate 7491 5011 13824 2.351 0.501 0.127 0.028 85 8.5 lateraloccipital 4627 3232 8126 2.354 0.637 0.138 0.045 60 8.3 lateralorbitofrontal 4349 3192 7655 2.127 0.570 0.144 0.036 75 6.1 lingual 2796 2021 5366 2.392 0.642 0.128 0.035 38 3.6 medialorbitofrontal 4811 3407 10152 2.434 0.549 0.119 0.029 60 5.3 middletemporal 1147 786 2074 2.237 0.632 0.106 0.027 9 1.2 parahippocampal 2351 1554 3830 2.274 0.483 0.103 0.020 16 1.9 paracentral 1619 1130 3333 2.544 0.493 0.114 0.023 15 1.5 parsopercularis 1282 911 2705 2.427 0.520 0.140 0.040 18 1.8 parsorbitalis 1794 1211 3253 2.456 0.435 0.108 0.022 14 1.6 parstriangularis 2255 1568 2946 1.961 0.382 0.114 0.024 19 2.2 pericalcarine 6462 4203 9284 2.006 0.539 0.105 0.022 53 5.7 postcentral 1744 1203 3064 2.399 0.683 0.119 0.024 21 1.6 posteriorcingulate 8236 5245 14558 2.516 0.471 0.106 0.024 67 7.5 precentral 5775 3983 10201 2.413 0.480 0.123 0.026 60 5.9 precuneus 1362 978 2955 2.578 0.646 0.122 0.025 19 1.4 rostralanteriorcingulate 8928 6335 16794 2.373 0.446 0.126 0.029 105 9.9 rostralmiddlefrontal 12356 8299 25674 2.746 0.512 0.114 0.025 110 12.4 superiorfrontal 8683 5709 13844 2.229 0.417 0.114 0.022 82 7.7 superiorparietal 6262 4294 12306 2.453 0.563 0.110 0.027 62 6.5 superiortemporal 8171 5559 14829 2.375 0.470 0.116 0.024 84 8.0 supramarginal 435 337 1134 2.742 0.440 0.154 0.042 9 0.5 frontalpole 715 557 2182 2.840 1.133 0.172 0.058 12 1.6 temporalpole 725 486 1125 2.235 0.405 0.110 0.021 5 0.6 transversetemporal 3847 2678 8351 2.827 0.966 0.122 0.036 39 5.3 insula @#@FSTIME 2021:09:21:17:06:46 mris_anatomical_stats N 14 e 18.02 S 0.29 U 17.64 P 99% M 511388 F 0 R 138354 W 0 c 69 w 211 I 0 O 24 L 41.06 31.58 23.36 @#@FSLOADPOST 2021:09:21:17:07:04 mris_anatomical_stats N 14 40.56 32.08 23.70 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 32004 lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 247361 Total vertex volume 247153 (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) = 1328708 mm^3 (det: 1.466165 ) 2112 1403 3269 2.300 0.408 0.130 0.038 40 3.1 bankssts 1029 778 1881 2.649 0.540 0.162 0.056 51 2.0 caudalanteriorcingulate 2892 2121 4925 2.401 0.397 0.127 0.030 43 3.5 caudalmiddlefrontal 2489 2230 3746 1.982 0.481 0.169 0.048 38 4.7 cuneus 665 908 1800 2.386 0.843 0.266 0.077 15 2.3 entorhinal 4596 4512 8906 2.253 0.574 0.181 0.048 83 9.2 fusiform 7131 5708 12189 2.365 0.395 0.142 0.036 124 10.1 inferiorparietal 5144 4357 8360 2.095 0.564 0.163 0.049 84 9.8 inferiortemporal 1677 1420 2513 2.092 0.667 0.196 0.073 64 4.4 isthmuscingulate 7491 7121 13824 2.351 0.501 0.173 0.045 149 13.7 lateraloccipital 4627 3733 8126 2.354 0.637 0.168 0.054 113 9.2 lateralorbitofrontal 4349 4243 7655 2.127 0.570 0.179 0.049 106 8.6 lingual 2796 2562 5366 2.392 0.642 0.181 0.050 63 5.7 medialorbitofrontal 4811 4839 10152 2.434 0.549 0.167 0.042 70 8.5 middletemporal 1147 1136 2074 2.237 0.632 0.224 0.067 19 4.0 parahippocampal 2351 1851 3830 2.274 0.483 0.132 0.031 45 3.1 paracentral 1619 1448 3333 2.544 0.493 0.148 0.035 28 2.3 parsopercularis 1282 1303 2705 2.427 0.520 0.172 0.043 19 2.3 parsorbitalis 1794 1445 3253 2.456 0.435 0.147 0.042 41 2.7 parstriangularis 2255 1466 2946 1.961 0.382 0.123 0.033 38 2.8 pericalcarine 6462 5240 9284 2.006 0.539 0.130 0.031 69 8.1 postcentral 1744 1370 3064 2.399 0.683 0.158 0.047 188 2.8 posteriorcingulate 8236 6253 14558 2.516 0.471 0.122 0.030 128 9.6 precentral 5775 4637 10201 2.413 0.480 0.152 0.045 115 9.8 precuneus 1362 1386 2955 2.578 0.646 0.205 0.062 47 3.4 rostralanteriorcingulate 8928 7649 16794 2.373 0.446 0.153 0.037 156 13.6 rostralmiddlefrontal 12356 10200 25674 2.746 0.512 0.141 0.037 221 17.7 superiorfrontal 8683 6806 13844 2.229 0.417 0.136 0.033 214 11.1 superiorparietal 6262 5698 12306 2.453 0.563 0.158 0.041 86 10.6 superiortemporal 8171 6827 14829 2.375 0.470 0.141 0.034 117 10.7 supramarginal 435 502 1134 2.742 0.440 0.181 0.040 5 0.7 frontalpole 715 947 2182 2.840 1.133 0.217 0.055 12 1.9 temporalpole 725 527 1125 2.235 0.405 0.125 0.039 15 1.1 transversetemporal 3847 3041 8351 2.827 0.966 0.186 0.064 93 10.7 insula @#@FSTIME 2021:09:21:17:07:04 mris_anatomical_stats N 14 e 17.90 S 0.29 U 17.52 P 99% M 511384 F 0 R 140975 W 0 c 69 w 212 I 0 O 24 L 40.56 32.08 23.70 @#@FSLOADPOST 2021:09:21:17:07:22 mris_anatomical_stats N 14 40.35 32.45 23.96 #----------------------------------------- #@# Parcellation Stats rh Tue Sep 21 17:07:22 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 240692 Total vertex volume 240481 (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) = 1328708 mm^3 (det: 1.466165 ) 1584 1050 2440 2.526 0.453 0.098 0.018 8 1.3 bankssts 1245 904 2341 2.280 0.604 0.128 0.024 27 1.1 caudalanteriorcingulate 3176 2107 5584 2.520 0.363 0.111 0.022 26 2.9 caudalmiddlefrontal 2427 1686 3765 2.011 0.425 0.141 0.034 32 3.3 cuneus 579 362 991 1.994 0.803 0.124 0.040 31 0.9 entorhinal 4149 2837 8320 2.441 0.664 0.113 0.026 43 4.1 fusiform 9699 6603 17185 2.387 0.425 0.117 0.024 102 9.3 inferiorparietal 3480 2362 5039 2.030 0.586 0.123 0.032 34 4.8 inferiortemporal 1739 1197 2639 2.047 0.753 0.122 0.029 21 1.9 isthmuscingulate 8492 5919 15207 2.255 0.502 0.136 0.030 110 9.9 lateraloccipital 4103 2984 7973 2.522 0.658 0.144 0.043 65 7.4 lateralorbitofrontal 4883 3612 9598 2.242 0.601 0.137 0.033 66 6.1 lingual 3093 2247 6433 2.525 0.781 0.142 0.044 53 5.3 medialorbitofrontal 4386 2949 7673 2.293 0.637 0.116 0.029 48 5.2 middletemporal 1005 646 1606 2.287 0.521 0.092 0.020 7 0.8 parahippocampal 2507 1601 4276 2.452 0.450 0.110 0.024 19 2.4 paracentral 1874 1294 3866 2.675 0.407 0.099 0.019 14 1.4 parsopercularis 1446 1018 3345 2.633 0.474 0.126 0.033 21 1.7 parsorbitalis 2499 1696 4635 2.544 0.408 0.115 0.024 22 2.3 parstriangularis 2484 1897 3536 1.965 0.463 0.142 0.039 33 3.9 pericalcarine 6625 4215 10014 2.143 0.591 0.101 0.021 51 5.4 postcentral 2039 1453 3801 2.288 0.770 0.130 0.030 26 2.4 posteriorcingulate 8379 5360 14391 2.528 0.514 0.106 0.024 59 8.1 precentral 5953 4147 10763 2.440 0.461 0.125 0.027 61 6.4 precuneus 801 616 1918 2.629 0.695 0.126 0.037 16 1.1 rostralanteriorcingulate 9125 6481 17570 2.430 0.447 0.128 0.030 109 10.8 rostralmiddlefrontal 11072 7457 23062 2.754 0.507 0.115 0.026 96 11.2 superiorfrontal 8591 5708 13309 2.177 0.385 0.112 0.022 78 7.5 superiorparietal 4772 3099 8437 2.427 0.575 0.097 0.021 33 4.1 superiortemporal 5436 3657 9771 2.471 0.418 0.111 0.023 54 5.0 supramarginal 399 341 1219 2.811 0.490 0.169 0.044 6 0.8 frontalpole 586 403 1218 2.163 1.017 0.147 0.051 7 1.2 temporalpole 462 314 778 2.194 0.326 0.114 0.029 4 0.5 transversetemporal 3306 2306 7779 2.938 0.959 0.120 0.034 29 4.4 insula @#@FSTIME 2021:09:21:17:07:22 mris_anatomical_stats N 14 e 17.02 S 0.25 U 16.68 P 99% M 499064 F 0 R 117785 W 0 c 52 w 212 I 0 O 32 L 40.35 32.45 23.96 @#@FSLOADPOST 2021:09:21:17:07:39 mris_anatomical_stats N 14 39.91 32.86 24.27 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 32004 rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 240692 Total vertex volume 240481 (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) = 1328708 mm^3 (det: 1.466165 ) 1584 871 2440 2.526 0.453 0.107 0.033 24 2.0 bankssts 1245 1169 2341 2.280 0.604 0.205 0.059 45 3.2 caudalanteriorcingulate 3176 2344 5584 2.520 0.363 0.124 0.030 58 3.6 caudalmiddlefrontal 2427 2278 3765 2.011 0.425 0.175 0.045 66 4.4 cuneus 579 698 991 1.994 0.803 0.233 0.062 11 1.9 entorhinal 4149 3896 8320 2.441 0.664 0.166 0.045 67 7.9 fusiform 9699 7831 17185 2.387 0.425 0.142 0.035 156 13.4 inferiorparietal 3480 2593 5039 2.030 0.586 0.134 0.037 53 5.2 inferiortemporal 1739 1509 2639 2.047 0.753 0.199 0.064 126 4.1 isthmuscingulate 8492 7743 15207 2.255 0.502 0.167 0.042 184 14.3 lateraloccipital 4103 3460 7973 2.522 0.658 0.182 0.059 107 9.3 lateralorbitofrontal 4883 4991 9598 2.242 0.601 0.177 0.043 132 9.3 lingual 3093 2931 6433 2.525 0.781 0.190 0.059 96 7.3 medialorbitofrontal 4386 3636 7673 2.293 0.637 0.143 0.038 71 6.6 middletemporal 1005 831 1606 2.287 0.521 0.179 0.055 21 2.3 parahippocampal 2507 1942 4276 2.452 0.450 0.131 0.035 54 3.2 paracentral 1874 1578 3866 2.675 0.407 0.144 0.037 32 3.0 parsopercularis 1446 1588 3345 2.633 0.474 0.183 0.046 25 2.8 parsorbitalis 2499 1981 4635 2.544 0.408 0.147 0.037 58 3.8 parstriangularis 2484 1776 3536 1.965 0.463 0.145 0.042 54 3.8 pericalcarine 6625 5289 10014 2.143 0.591 0.122 0.029 70 7.4 postcentral 2039 1856 3801 2.288 0.770 0.183 0.053 68 4.5 posteriorcingulate 8379 5981 14391 2.528 0.514 0.116 0.029 152 9.2 precentral 5953 4725 10763 2.440 0.461 0.149 0.044 174 9.5 precuneus 801 908 1918 2.629 0.695 0.204 0.053 17 1.7 rostralanteriorcingulate 9125 7974 17570 2.430 0.447 0.153 0.039 194 14.3 rostralmiddlefrontal 11072 9184 23062 2.754 0.507 0.141 0.037 195 15.5 superiorfrontal 8591 6581 13309 2.177 0.385 0.129 0.029 112 9.8 superiorparietal 4772 3794 8437 2.427 0.575 0.137 0.035 70 6.9 superiortemporal 5436 4238 9771 2.471 0.418 0.129 0.031 69 6.3 supramarginal 399 552 1219 2.811 0.490 0.219 0.046 7 0.7 frontalpole 586 676 1218 2.163 1.017 0.210 0.069 7 2.1 temporalpole 462 415 778 2.194 0.326 0.152 0.038 5 0.6 transversetemporal 3306 2744 7779 2.938 0.959 0.200 0.073 276 8.6 insula @#@FSTIME 2021:09:21:17:07:39 mris_anatomical_stats N 14 e 17.23 S 0.26 U 16.88 P 99% M 499144 F 0 R 116937 W 0 c 51 w 209 I 0 O 24 L 39.91 32.86 24.27 @#@FSLOADPOST 2021:09:21:17:07:57 mris_anatomical_stats N 14 39.49 33.11 24.49 #----------------------------------------- #@# Parcellation Stats 2 lh Tue Sep 21 17:07:57 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 247361 Total vertex volume 247153 (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) = 1328708 mm^3 (det: 1.466165 ) 1407 990 2559 2.416 0.408 0.123 0.026 14 1.6 G_and_S_frontomargin 1534 1044 2858 2.359 0.422 0.125 0.028 17 1.6 G_and_S_occipital_inf 1838 1146 3138 2.269 0.507 0.112 0.026 17 1.7 G_and_S_paracentral 1664 1151 3212 2.496 0.370 0.122 0.026 18 1.7 G_and_S_subcentral 782 603 1924 2.587 0.532 0.154 0.040 16 1.1 G_and_S_transv_frontopol 2427 1701 4879 2.665 0.475 0.106 0.019 21 2.1 G_and_S_cingul-Ant 1448 959 2476 2.604 0.412 0.108 0.020 15 1.1 G_and_S_cingul-Mid-Ant 1311 881 2197 2.473 0.483 0.107 0.023 12 1.1 G_and_S_cingul-Mid-Post 559 396 1324 2.621 0.657 0.129 0.030 6 0.7 G_cingul-Post-dorsal 428 291 757 2.205 0.593 0.134 0.036 6 0.4 G_cingul-Post-ventral 2226 1539 3619 2.017 0.502 0.150 0.041 37 3.4 G_cuneus 1107 808 3059 2.791 0.413 0.128 0.027 16 1.2 G_front_inf-Opercular 414 301 1227 2.898 0.421 0.138 0.038 6 0.6 G_front_inf-Orbital 889 604 2021 2.634 0.418 0.122 0.028 11 0.9 G_front_inf-Triangul 4409 3160 10229 2.548 0.401 0.128 0.029 60 4.6 G_front_middle 8225 5508 19349 2.871 0.520 0.120 0.028 83 9.0 G_front_sup 670 476 1821 3.179 0.856 0.121 0.035 8 0.7 G_Ins_lg_and_S_cent_ins 689 556 2684 3.412 0.818 0.163 0.054 13 1.4 G_insular_short 2243 1429 5219 2.625 0.516 0.119 0.026 30 2.2 G_occipital_middle 1468 919 2585 2.317 0.442 0.119 0.025 15 1.5 G_occipital_sup 1780 1379 4287 2.450 0.569 0.148 0.038 36 2.7 G_oc-temp_lat-fusifor 2919 2229 5994 2.218 0.609 0.162 0.045 65 4.8 G_oc-temp_med-Lingual 1447 998 3190 2.334 0.708 0.119 0.036 16 2.0 G_oc-temp_med-Parahip 2980 2074 6226 2.344 0.686 0.145 0.051 47 5.5 G_orbital 3204 2190 7021 2.520 0.428 0.129 0.028 51 3.3 G_pariet_inf-Angular 3873 2645 8072 2.487 0.470 0.119 0.026 49 4.0 G_pariet_inf-Supramar 3444 2265 6489 2.337 0.429 0.124 0.025 45 3.4 G_parietal_sup 2486 1570 3853 2.020 0.526 0.108 0.024 25 2.4 G_postcentral 3245 1977 6796 2.684 0.455 0.109 0.028 33 3.2 G_precentral 2909 2048 6577 2.564 0.519 0.131 0.029 41 3.1 G_precuneus 893 682 2079 2.333 0.587 0.143 0.052 19 1.6 G_rectus 859 592 1469 2.473 0.927 0.137 0.049 11 1.3 G_subcallosal 554 362 917 2.347 0.439 0.119 0.025 5 0.5 G_temp_sup-G_T_transv 2161 1515 5509 2.701 0.572 0.128 0.036 34 2.9 G_temp_sup-Lateral 701 506 1858 2.772 0.899 0.103 0.027 4 0.8 G_temp_sup-Plan_polar 1119 736 2022 2.411 0.446 0.095 0.021 9 0.8 G_temp_sup-Plan_tempo 2440 1773 4883 2.165 0.621 0.151 0.056 80 5.9 G_temporal_inf 2630 1896 6884 2.642 0.483 0.132 0.034 48 3.2 G_temporal_middle 380 252 464 2.118 0.302 0.089 0.015 1 0.3 Lat_Fis-ant-Horizont 174 118 278 2.616 0.336 0.108 0.025 1 0.2 Lat_Fis-ant-Vertical 1131 767 1444 2.160 0.427 0.121 0.025 8 1.3 Lat_Fis-post 2123 1451 4211 2.312 0.551 0.135 0.031 28 2.7 Pole_occipital 1551 1175 3538 2.397 0.877 0.167 0.052 31 3.1 Pole_temporal 2564 1774 3201 2.034 0.466 0.112 0.022 19 2.4 S_calcarine 3277 2169 3645 1.934 0.569 0.097 0.019 15 2.8 S_central 1282 835 1713 2.263 0.384 0.092 0.016 6 0.9 S_cingul-Marginalis 508 341 694 2.279 0.532 0.119 0.036 5 0.7 S_circular_insula_ant 1461 964 2416 2.730 0.970 0.089 0.018 6 1.2 S_circular_insula_inf 1747 1114 2281 2.421 0.459 0.095 0.020 7 1.7 S_circular_insula_sup 1228 845 1646 2.053 0.435 0.105 0.023 7 1.4 S_collat_transv_ant 640 453 908 2.087 0.419 0.128 0.026 6 0.7 S_collat_transv_post 1917 1304 2833 2.248 0.458 0.111 0.022 14 1.9 S_front_inf 1585 1109 2180 2.210 0.379 0.121 0.027 15 1.7 S_front_middle 3348 2311 5377 2.386 0.350 0.111 0.023 23 3.3 S_front_sup 764 497 878 2.193 0.312 0.097 0.017 3 0.6 S_interm_prim-Jensen 3608 2400 4615 2.130 0.345 0.100 0.016 19 2.6 S_intrapariet_and_P_trans 1125 751 1397 2.167 0.416 0.116 0.028 7 1.2 S_oc_middle_and_Lunatus 1310 859 1649 2.122 0.304 0.110 0.020 9 1.1 S_oc_sup_and_transversal 719 479 975 2.179 0.325 0.099 0.014 4 0.5 S_occipital_ant 865 593 1166 2.006 0.344 0.100 0.024 7 0.7 S_oc-temp_lat 2246 1567 3237 2.086 0.550 0.112 0.024 16 2.3 S_oc-temp_med_and_Lingual 455 313 628 2.274 0.452 0.103 0.021 3 0.3 S_orbital_lateral 882 583 1216 2.389 0.603 0.103 0.019 5 0.7 S_orbital_med-olfact 1839 1328 2919 2.323 0.508 0.143 0.044 22 3.4 S_orbital-H_Shaped 2378 1614 3041 2.085 0.411 0.115 0.022 18 2.4 S_parieto_occipital 1553 994 1445 1.838 0.702 0.125 0.027 22 1.6 S_pericallosal 3488 2376 4836 2.138 0.380 0.114 0.024 28 3.4 S_postcentral 1607 1064 2362 2.286 0.445 0.106 0.019 11 1.3 S_precentral-inf-part 1465 946 1889 2.397 0.346 0.096 0.017 7 1.1 S_precentral-sup-part 1143 825 2107 2.351 0.637 0.132 0.029 15 1.4 S_suborbital 1032 704 1408 2.393 0.316 0.117 0.022 6 1.1 S_subparietal 1960 1387 2533 1.989 0.484 0.120 0.027 13 2.5 S_temporal_inf 6971 4690 10366 2.258 0.423 0.097 0.019 44 5.8 S_temporal_sup 250 180 393 2.154 0.372 0.092 0.014 1 0.2 S_temporal_transverse @#@FSTIME 2021:09:21:17:07:57 mris_anatomical_stats N 14 e 19.04 S 0.31 U 18.59 P 99% M 511392 F 0 R 136372 W 0 c 56 w 292 I 0 O 48 L 39.49 33.11 24.49 @#@FSLOADPOST 2021:09:21:17:08:16 mris_anatomical_stats N 14 39.06 33.43 24.78 #----------------------------------------- #@# Parcellation Stats 2 rh Tue Sep 21 17:08:16 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 rh white computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 240692 Total vertex volume 240481 (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) = 1328708 mm^3 (det: 1.466165 ) 945 754 2020 2.342 0.515 0.158 0.038 17 1.5 G_and_S_frontomargin 1313 948 3092 2.590 0.593 0.138 0.030 19 1.5 G_and_S_occipital_inf 1533 921 2669 2.371 0.501 0.110 0.028 15 1.5 G_and_S_paracentral 1756 1195 3446 2.654 0.503 0.114 0.024 16 1.7 G_and_S_subcentral 897 725 2556 2.776 0.552 0.138 0.034 11 1.2 G_and_S_transv_frontopol 2805 2040 5609 2.604 0.630 0.117 0.029 30 3.1 G_and_S_cingul-Ant 1311 937 2593 2.549 0.469 0.108 0.024 23 1.1 G_and_S_cingul-Mid-Ant 1776 1244 3314 2.503 0.484 0.123 0.030 17 2.0 G_and_S_cingul-Mid-Post 550 396 1380 2.717 0.607 0.148 0.036 9 0.7 G_cingul-Post-dorsal 479 331 1025 2.375 0.681 0.140 0.039 8 0.6 G_cingul-Post-ventral 2269 1580 3601 1.999 0.441 0.145 0.038 33 3.3 G_cuneus 1414 1004 3623 2.851 0.434 0.118 0.027 16 1.5 G_front_inf-Opercular 491 354 1357 2.805 0.413 0.143 0.039 10 0.6 G_front_inf-Orbital 1133 770 2599 2.651 0.374 0.128 0.028 14 1.2 G_front_inf-Triangul 4354 3030 10079 2.566 0.396 0.134 0.033 65 5.4 G_front_middle 7716 5189 18463 2.867 0.511 0.125 0.030 88 8.8 G_front_sup 566 397 1632 3.293 1.243 0.104 0.029 4 0.7 G_Ins_lg_and_S_cent_ins 651 517 2557 3.558 0.848 0.149 0.047 9 1.1 G_insular_short 2429 1718 5047 2.368 0.371 0.138 0.031 40 2.8 G_occipital_middle 1667 1083 2834 2.139 0.465 0.116 0.025 19 1.4 G_occipital_sup 2200 1495 5522 2.723 0.680 0.120 0.030 30 2.4 G_oc-temp_lat-fusifor 3085 2324 6979 2.379 0.646 0.152 0.039 53 4.3 G_oc-temp_med-Lingual 1013 646 1926 2.213 0.717 0.112 0.033 35 1.3 G_oc-temp_med-Parahip 2889 2164 7178 2.666 0.686 0.152 0.047 54 5.4 G_orbital 3531 2393 7664 2.503 0.498 0.127 0.030 54 3.9 G_pariet_inf-Angular 2541 1760 5666 2.626 0.382 0.119 0.026 32 2.6 G_pariet_inf-Supramar 2616 1745 5034 2.329 0.367 0.126 0.026 35 2.6 G_parietal_sup 2379 1417 4025 2.240 0.517 0.106 0.025 23 2.1 G_postcentral 3290 1981 6755 2.681 0.517 0.106 0.028 28 3.4 G_precentral 2335 1645 5106 2.561 0.432 0.139 0.034 33 2.9 G_precuneus 944 700 2028 2.269 0.708 0.167 0.060 26 2.2 G_rectus 479 328 1002 2.865 0.785 0.142 0.059 7 1.1 G_subcallosal 363 245 694 2.323 0.434 0.119 0.029 4 0.4 G_temp_sup-G_T_transv 1597 1032 3394 2.558 0.604 0.117 0.030 18 1.7 G_temp_sup-Lateral 944 619 1450 2.167 0.717 0.127 0.049 11 2.0 G_temp_sup-Plan_polar 793 524 1611 2.627 0.479 0.107 0.023 8 0.7 G_temp_sup-Plan_tempo 1718 1198 2965 2.027 0.698 0.141 0.045 24 3.2 G_temporal_inf 2406 1604 4511 2.255 0.667 0.123 0.035 28 3.2 G_temporal_middle 477 320 598 2.374 0.385 0.103 0.017 2 0.4 Lat_Fis-ant-Horizont 69 46 84 2.228 0.272 0.109 0.031 0 0.1 Lat_Fis-ant-Vertical 1329 871 1763 2.334 0.441 0.094 0.018 6 1.0 Lat_Fis-post 3495 2538 6558 2.158 0.540 0.146 0.034 51 4.6 Pole_occipital 1223 789 1607 1.826 0.868 0.124 0.034 12 1.9 Pole_temporal 2948 2211 4021 2.001 0.486 0.130 0.034 32 4.4 S_calcarine 3276 2196 3677 1.917 0.543 0.105 0.020 18 3.0 S_central 1419 966 2221 2.338 0.366 0.105 0.019 10 1.1 S_cingul-Marginalis 603 421 1049 2.812 0.564 0.110 0.029 4 0.7 S_circular_insula_ant 894 580 1464 2.422 0.918 0.089 0.022 3 0.8 S_circular_insula_inf 1570 1021 2177 2.572 0.380 0.095 0.018 7 1.3 S_circular_insula_sup 807 544 1136 2.230 0.455 0.098 0.018 4 0.6 S_collat_transv_ant 591 401 822 2.223 0.372 0.124 0.033 5 0.7 S_collat_transv_post 2304 1570 3495 2.312 0.371 0.103 0.021 17 2.0 S_front_inf 2269 1559 3289 2.325 0.425 0.117 0.023 16 2.3 S_front_middle 2897 1938 4477 2.555 0.383 0.105 0.021 16 2.6 S_front_sup 479 316 568 2.216 0.253 0.101 0.015 2 0.4 S_interm_prim-Jensen 4017 2697 5324 2.134 0.319 0.107 0.019 29 3.2 S_intrapariet_and_P_trans 1348 929 1653 2.059 0.255 0.123 0.021 12 1.3 S_oc_middle_and_Lunatus 1829 1211 2256 2.076 0.345 0.105 0.018 12 1.4 S_oc_sup_and_transversal 1246 852 2127 2.357 0.474 0.124 0.026 12 1.4 S_occipital_ant 989 704 1505 2.173 0.447 0.113 0.023 7 1.0 S_oc-temp_lat 2154 1428 2889 2.170 0.402 0.097 0.016 12 1.6 S_oc-temp_med_and_Lingual 665 451 947 2.398 0.381 0.107 0.022 3 0.6 S_orbital_lateral 872 588 1190 2.114 0.616 0.102 0.021 4 0.8 S_orbital_med-olfact 1537 1104 2665 2.497 0.441 0.130 0.034 21 2.2 S_orbital-H_Shaped 2397 1610 3245 2.196 0.442 0.115 0.021 18 2.3 S_parieto_occipital 1751 1152 1476 1.563 0.598 0.127 0.024 23 1.6 S_pericallosal 2847 1896 3588 2.143 0.352 0.098 0.019 15 2.3 S_postcentral 1551 1022 2220 2.494 0.328 0.091 0.015 7 1.1 S_precentral-inf-part 1616 1071 2256 2.468 0.353 0.096 0.016 8 1.2 S_precentral-sup-part 232 190 548 3.014 0.626 0.166 0.032 2 0.4 S_suborbital 1419 989 2476 2.517 0.399 0.113 0.022 9 1.2 S_subparietal 993 680 1276 2.099 0.350 0.104 0.020 12 0.8 S_temporal_inf 6793 4494 10412 2.437 0.460 0.098 0.018 35 5.4 S_temporal_sup 312 219 416 2.081 0.445 0.089 0.013 1 0.2 S_temporal_transverse @#@FSTIME 2021:09:21:17:08:16 mris_anatomical_stats N 14 e 18.42 S 0.28 U 18.02 P 99% M 499060 F 0 R 114603 W 0 c 56 w 290 I 0 O 40 L 39.06 33.43 24.78 @#@FSLOADPOST 2021:09:21:17:08:34 mris_anatomical_stats N 14 38.47 33.66 25.04 #----------------------------------------- #@# Parcellation Stats 3 lh Tue Sep 21 17:08:34 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 247361 Total vertex volume 247153 (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) = 1328708 mm^3 (det: 1.466165 ) 1545 1005 2671 2.624 0.500 0.119 0.021 20 1.3 caudalanteriorcingulate 3136 2081 5274 2.389 0.396 0.109 0.022 23 2.9 caudalmiddlefrontal 3377 2299 4930 2.001 0.478 0.134 0.034 42 4.5 cuneus 566 412 1612 2.391 0.872 0.134 0.037 6 0.9 entorhinal 4321 3174 8340 2.271 0.552 0.129 0.032 59 5.3 fusiform 7393 4964 13005 2.388 0.397 0.115 0.022 81 6.7 inferiorparietal 5236 3752 8726 2.083 0.576 0.138 0.043 108 9.8 inferiortemporal 1697 1158 2556 2.108 0.665 0.125 0.029 20 1.8 isthmuscingulate 7490 4985 13886 2.359 0.508 0.125 0.028 82 8.4 lateraloccipital 5368 3776 9645 2.360 0.684 0.141 0.047 74 9.9 lateralorbitofrontal 4440 3254 7848 2.131 0.568 0.144 0.036 76 6.2 lingual 2606 1911 5269 2.391 0.683 0.134 0.039 40 3.7 medialorbitofrontal 6358 4442 12349 2.373 0.536 0.113 0.027 70 6.6 middletemporal 1209 822 2163 2.236 0.642 0.106 0.028 9 1.3 parahippocampal 2744 1808 4734 2.371 0.555 0.103 0.020 19 2.3 paracentral 1528 1071 3186 2.570 0.483 0.117 0.024 15 1.5 parsopercularis 1136 789 2439 2.527 0.503 0.121 0.033 12 1.3 parsorbitalis 2186 1462 3852 2.443 0.444 0.109 0.023 18 2.0 parstriangularis 2238 1542 2908 1.965 0.384 0.113 0.024 19 2.1 pericalcarine 7298 4752 10462 2.031 0.535 0.107 0.022 61 6.6 postcentral 1932 1319 3296 2.397 0.658 0.117 0.023 22 1.7 posteriorcingulate 8083 5130 14236 2.519 0.471 0.106 0.023 65 7.3 precentral 5500 3821 10037 2.435 0.474 0.123 0.026 59 5.6 precuneus 2116 1483 4366 2.584 0.653 0.119 0.026 25 2.1 rostralanteriorcingulate 6410 4587 12343 2.374 0.442 0.128 0.029 75 7.1 rostralmiddlefrontal 13467 9191 27673 2.688 0.514 0.118 0.027 128 14.1 superiorfrontal 7109 4687 11210 2.232 0.397 0.115 0.022 67 6.3 superiorparietal 8554 5890 17042 2.474 0.615 0.113 0.029 88 9.5 superiortemporal 7466 5076 13296 2.345 0.473 0.116 0.024 77 7.4 supramarginal 734 492 1142 2.237 0.402 0.112 0.021 6 0.6 transversetemporal 2715 1896 6656 3.011 0.942 0.110 0.029 23 3.1 insula @#@FSTIME 2021:09:21:17:08:34 mris_anatomical_stats N 14 e 17.40 S 0.29 U 17.02 P 99% M 511272 F 0 R 140121 W 0 c 22 w 204 I 0 O 32 L 38.47 33.66 25.04 @#@FSLOADPOST 2021:09:21:17:08:52 mris_anatomical_stats N 14 38.29 33.86 25.24 #----------------------------------------- #@# Parcellation Stats 3 rh Tue Sep 21 17:08:52 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 32004 rh white computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 240692 Total vertex volume 240481 (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) = 1328708 mm^3 (det: 1.466165 ) 1340 970 2492 2.277 0.606 0.128 0.024 29 1.2 caudalanteriorcingulate 3352 2221 5748 2.511 0.362 0.112 0.022 27 3.1 caudalmiddlefrontal 3002 2074 4550 2.022 0.410 0.135 0.031 36 3.7 cuneus 502 313 971 2.098 0.843 0.125 0.039 31 0.8 entorhinal 3981 2726 8222 2.496 0.635 0.112 0.026 42 3.8 fusiform 9645 6552 16930 2.386 0.423 0.117 0.024 102 9.3 inferiorparietal 3774 2535 5207 1.992 0.579 0.121 0.032 36 5.1 inferiortemporal 1691 1167 2576 2.055 0.746 0.121 0.029 20 1.8 isthmuscingulate 8401 5879 15097 2.250 0.501 0.138 0.030 112 10.0 lateraloccipital 4646 3450 9425 2.508 0.667 0.150 0.044 79 8.7 lateralorbitofrontal 4824 3569 9490 2.241 0.603 0.137 0.033 64 6.0 lingual 2410 1797 5328 2.537 0.779 0.151 0.050 48 4.7 medialorbitofrontal 5661 3814 9763 2.317 0.619 0.113 0.027 55 6.2 middletemporal 1024 656 1620 2.287 0.514 0.090 0.019 7 0.8 parahippocampal 2639 1684 4533 2.467 0.445 0.111 0.025 21 2.5 paracentral 2196 1511 4374 2.629 0.417 0.099 0.020 17 1.6 parsopercularis 1278 889 2692 2.568 0.471 0.119 0.029 15 1.4 parsorbitalis 2511 1691 4550 2.535 0.415 0.117 0.024 23 2.5 parstriangularis 2475 1890 3551 1.971 0.466 0.143 0.039 33 3.9 pericalcarine 7257 4642 10909 2.159 0.585 0.103 0.022 56 6.2 postcentral 2108 1499 3861 2.282 0.769 0.129 0.030 26 2.4 posteriorcingulate 8023 5129 13864 2.526 0.512 0.106 0.024 57 7.8 precentral 6084 4254 11170 2.441 0.462 0.125 0.027 63 6.7 precuneus 1071 783 2435 2.676 0.771 0.123 0.036 18 1.4 rostralanteriorcingulate 6689 4690 12765 2.417 0.434 0.125 0.029 81 7.8 rostralmiddlefrontal 13835 9478 28862 2.719 0.515 0.118 0.027 125 14.5 superiorfrontal 7191 4746 11199 2.181 0.385 0.111 0.022 65 6.0 superiorparietal 6290 4104 10949 2.407 0.623 0.104 0.025 47 6.4 superiortemporal 5155 3467 9285 2.455 0.419 0.110 0.023 51 4.7 supramarginal 462 316 789 2.204 0.328 0.116 0.030 4 0.5 transversetemporal 2879 2032 7276 3.051 0.931 0.114 0.030 23 3.4 insula @#@FSTIME 2021:09:21:17:08:52 mris_anatomical_stats N 14 e 17.50 S 0.26 U 17.15 P 99% M 499148 F 0 R 114899 W 0 c 50 w 202 I 0 O 24 L 38.29 33.86 25.24 @#@FSLOADPOST 2021:09:21:17:09:09 mris_anatomical_stats N 14 37.77 34.03 25.48 #-------------------------------------------- #@# ASeg Stats Tue Sep 21 17:09:09 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 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/software/freesurfer/7.1.0/ASegStatsLUT.txt --subject 32004 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/software/freesurfer/7.1.0/ASegStatsLUT.txt --subject 32004 sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1328708 mm^3 (det: 1.466165 ) Computing euler number orig.nofix lheno = -44, rheno = -18 orig.nofix lhholes = 23, rhholes = 10 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 2021:09:21:17:09:09 mri_segstats N 32 e 165.01 S 0.54 U 164.05 P 99% M 261092 F 0 R 204961 W 0 c 422 w 98 I 19640 O 24 L 37.77 34.03 25.48 @#@FSLOADPOST 2021:09:21:17:11:54 mri_segstats N 32 32.84 34.04 26.93 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label #-------------------------------------------- #@# BA_exvivo Labels lh Tue Sep 21 17:11:54 BST 2021 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA1_exvivo.label --trgsubject 32004 --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 181 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 4310 mri_label2label: Done @#@FSTIME 2021:09:21:17:11:54 mri_label2label N 12 e 6.61 S 0.34 U 6.23 P 99% M 579300 F 0 R 129815 W 0 c 181 w 52 I 0 O 280 L 32.84 34.04 26.93 @#@FSLOADPOST 2021:09:21:17:12:01 mri_label2label N 12 32.53 33.96 26.94 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA2_exvivo.label --trgsubject 32004 --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 484 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 8393 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:01 mri_label2label N 12 e 7.63 S 0.27 U 7.28 P 99% M 579576 F 0 R 131694 W 0 c 282 w 52 I 0 O 552 L 32.53 33.96 26.94 @#@FSLOADPOST 2021:09:21:17:12:09 mri_label2label N 12 31.68 33.73 26.94 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3a_exvivo.label --trgsubject 32004 --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 74 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 4151 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:09 mri_label2label N 12 e 6.44 S 0.25 U 6.15 P 99% M 579288 F 0 R 122904 W 0 c 165 w 63 I 0 O 240 L 31.68 33.73 26.94 @#@FSLOADPOST 2021:09:21:17:12:15 mri_label2label N 12 31.07 33.57 26.92 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3b_exvivo.label --trgsubject 32004 --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 215 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 6198 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:15 mri_label2label N 12 e 7.19 S 0.45 U 6.70 P 99% M 579428 F 0 R 121188 W 0 c 54 w 52 I 0 O 392 L 31.07 33.57 26.92 @#@FSLOADPOST 2021:09:21:17:12:22 mri_label2label N 12 30.42 33.39 26.90 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4a_exvivo.label --trgsubject 32004 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 374 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 6158 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:22 mri_label2label N 12 e 7.09 S 0.34 U 6.71 P 99% M 579420 F 0 R 136436 W 0 c 158 w 52 I 0 O 408 L 30.42 33.39 26.90 @#@FSLOADPOST 2021:09:21:17:12:30 mri_label2label N 12 29.28 33.05 26.86 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4p_exvivo.label --trgsubject 32004 --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 189 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 4259 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:30 mri_label2label N 12 e 6.49 S 0.34 U 6.07 P 98% M 579288 F 0 R 119875 W 0 c 74 w 55 I 0 O 272 L 29.28 33.05 26.86 @#@FSLOADPOST 2021:09:21:17:12:36 mri_label2label N 12 28.54 32.83 26.82 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA6_exvivo.label --trgsubject 32004 --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 1294 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 14883 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:36 mri_label2label N 12 e 10.22 S 0.28 U 9.90 P 99% M 580004 F 0 R 121122 W 0 c 48 w 52 I 0 O 1008 L 28.54 32.83 26.82 @#@FSLOADPOST 2021:09:21:17:12:46 mri_label2label N 12 28.98 32.78 26.87 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA44_exvivo.label --trgsubject 32004 --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 140 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 4321 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:47 mri_label2label N 12 e 6.51 S 0.33 U 6.15 P 99% M 579300 F 0 R 133810 W 0 c 61 w 52 I 0 O 232 L 28.98 32.78 26.87 @#@FSLOADPOST 2021:09:21:17:12:53 mri_label2label N 12 30.27 32.98 26.97 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA45_exvivo.label --trgsubject 32004 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 415 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 3837 mri_label2label: Done @#@FSTIME 2021:09:21:17:12:53 mri_label2label N 12 e 6.39 S 0.30 U 6.06 P 99% M 579256 F 0 R 130615 W 0 c 90 w 52 I 0 O 256 L 30.27 32.98 26.97 @#@FSLOADPOST 2021:09:21:17:12:59 mri_label2label N 12 32.45 33.36 27.15 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V1_exvivo.label --trgsubject 32004 --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 1327 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 5968 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:00 mri_label2label N 12 e 6.56 S 0.27 U 6.20 P 98% M 579372 F 0 R 121591 W 0 c 28 w 54 I 0 O 488 L 32.45 33.36 27.15 @#@FSLOADPOST 2021:09:21:17:13:06 mri_label2label N 12 33.37 33.54 27.24 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V2_exvivo.label --trgsubject 32004 --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 2234 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 10348 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:06 mri_label2label N 12 e 7.57 S 0.27 U 7.25 P 99% M 579652 F 0 R 121434 W 0 c 23 w 52 I 0 O 832 L 33.37 33.54 27.24 @#@FSLOADPOST 2021:09:21:17:13:14 mri_label2label N 12 34.93 33.86 27.42 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.MT_exvivo.label --trgsubject 32004 --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 284 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 2302 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:14 mri_label2label N 12 e 5.17 S 0.26 U 4.88 P 99% M 579144 F 0 R 125631 W 0 c 19 w 52 I 0 O 176 L 34.93 33.86 27.42 @#@FSLOADPOST 2021:09:21:17:13:19 mri_label2label N 12 35.74 34.05 27.51 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject 32004 --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 83 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 1373 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:19 mri_label2label N 12 e 4.88 S 0.26 U 4.60 P 99% M 579100 F 0 R 124777 W 0 c 11 w 52 I 0 O 96 L 35.74 34.05 27.51 @#@FSLOADPOST 2021:09:21:17:13:24 mri_label2label N 12 36.40 34.21 27.60 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject 32004 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 55 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1254 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:24 mri_label2label N 12 e 5.69 S 0.27 U 5.40 P 99% M 579072 F 0 R 119594 W 0 c 22 w 52 I 0 O 88 L 36.40 34.21 27.60 @#@FSLOADPOST 2021:09:21:17:13:30 mri_label2label N 12 36.93 34.36 27.68 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG1.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.FG1.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 414 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 137 Checking for and removing duplicates Writing label file ./lh.FG1.mpm.vpnl.label 551 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:30 mri_label2label N 12 e 5.61 S 0.26 U 5.33 P 99% M 579024 F 0 R 118453 W 0 c 24 w 55 I 0 O 48 L 36.93 34.36 27.68 @#@FSLOADPOST 2021:09:21:17:13:35 mri_label2label N 12 37.49 34.52 27.77 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG2.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.FG2.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 703 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 161 Checking for and removing duplicates Writing label file ./lh.FG2.mpm.vpnl.label 864 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:35 mri_label2label N 12 e 5.53 S 0.26 U 5.23 P 99% M 579056 F 0 R 119930 W 0 c 16 w 52 I 0 O 80 L 37.49 34.52 27.77 @#@FSLOADPOST 2021:09:21:17:13:41 mri_label2label N 12 37.93 34.66 27.85 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG3.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.FG3.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1873 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 141 Checking for and removing duplicates Writing label file ./lh.FG3.mpm.vpnl.label 2014 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:41 mri_label2label N 12 e 5.78 S 0.25 U 5.50 P 99% M 579132 F 0 R 121631 W 0 c 36 w 52 I 0 O 152 L 37.93 34.66 27.85 @#@FSLOADPOST 2021:09:21:17:13:47 mri_label2label N 12 38.42 34.82 27.94 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG4.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.FG4.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2101 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 407 Checking for and removing duplicates Writing label file ./lh.FG4.mpm.vpnl.label 2508 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:47 mri_label2label N 12 e 5.75 S 0.26 U 5.46 P 99% M 579152 F 0 R 122700 W 0 c 18 w 52 I 0 O 208 L 38.42 34.82 27.94 @#@FSLOADPOST 2021:09:21:17:13:53 mri_label2label N 12 38.63 34.92 28.01 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc1.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.hOc1.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3877 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 1072 Checking for and removing duplicates Writing label file ./lh.hOc1.mpm.vpnl.label 4949 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:53 mri_label2label N 12 e 6.15 S 0.27 U 5.85 P 99% M 579312 F 0 R 120698 W 0 c 17 w 53 I 0 O 400 L 38.63 34.92 28.01 @#@FSLOADPOST 2021:09:21:17:13:59 mri_label2label N 12 39.30 35.19 28.17 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc2.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.hOc2.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2919 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 889 Checking for and removing duplicates Writing label file ./lh.hOc2.mpm.vpnl.label 3808 mri_label2label: Done @#@FSTIME 2021:09:21:17:13:59 mri_label2label N 12 e 5.06 S 0.26 U 4.77 P 99% M 579236 F 0 R 126714 W 0 c 16 w 51 I 0 O 312 L 39.30 35.19 28.17 @#@FSLOADPOST 2021:09:21:17:14:04 mri_label2label N 12 39.52 35.30 28.24 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc3v.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.hOc3v.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1286 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 495 Checking for and removing duplicates Writing label file ./lh.hOc3v.mpm.vpnl.label 1781 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:04 mri_label2label N 12 e 5.78 S 0.25 U 5.50 P 99% M 579096 F 0 R 120216 W 0 c 30 w 52 I 0 O 160 L 39.52 35.30 28.24 @#@FSLOADPOST 2021:09:21:17:14:10 mri_label2label N 12 39.71 35.41 28.32 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc4v.mpm.vpnl.label --trgsubject 32004 --trglabel ./lh.hOc4v.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1006 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 382 Checking for and removing duplicates Writing label file ./lh.hOc4v.mpm.vpnl.label 1388 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:10 mri_label2label N 12 e 5.36 S 0.44 U 4.89 P 99% M 579080 F 0 R 119389 W 0 c 20 w 60 I 0 O 128 L 39.71 35.41 28.32 @#@FSLOADPOST 2021:09:21:17:14:15 mri_label2label N 12 39.82 35.50 28.39 mris_label2annot --s 32004 --ctab /usr/local/software/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/software/freesurfer/7.1.0/average/colortable_vpnl.txt Number of ctab entries 9 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label cmdline mris_label2annot --s 32004 --ctab /usr/local/software/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 cpu-e-183 machine x86_64 user mp2011 subject 32004 hemi lh SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only ColorTable /usr/local/software/freesurfer/7.1.0/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 129168 unhit vertices Writing annot to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.mpm.vpnl.annot @#@FSTIME 2021:09:21:17:14:15 mris_label2annot N 26 e 0.97 S 0.16 U 0.71 P 90% M 165704 F 0 R 23283 W 0 c 2 w 158 I 10240 O 2280 L 39.82 35.50 28.39 @#@FSLOADPOST 2021:09:21:17:14:16 mris_label2annot N 26 39.82 35.50 28.39 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 56 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1070 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:16 mri_label2label N 12 e 4.77 S 0.27 U 4.45 P 99% M 579072 F 0 R 124840 W 0 c 12 w 53 I 0 O 72 L 39.82 35.50 28.39 @#@FSLOADPOST 2021:09:21:17:14:21 mri_label2label N 12 39.99 35.61 28.46 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 66 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 2158 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:21 mri_label2label N 12 e 5.82 S 0.24 U 5.55 P 99% M 579144 F 0 R 118153 W 0 c 29 w 52 I 0 O 144 L 39.99 35.61 28.46 @#@FSLOADPOST 2021:09:21:17:14:27 mri_label2label N 12 40.23 35.73 28.54 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 20 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1524 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:27 mri_label2label N 12 e 5.75 S 0.25 U 5.47 P 99% M 579104 F 0 R 120164 W 0 c 14 w 51 I 0 O 88 L 40.23 35.73 28.54 @#@FSLOADPOST 2021:09:21:17:14:33 mri_label2label N 12 40.29 35.82 28.60 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 43 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2039 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:33 mri_label2label N 12 e 5.80 S 0.29 U 5.49 P 99% M 579164 F 0 R 123167 W 0 c 24 w 52 I 0 O 136 L 40.29 35.82 28.60 @#@FSLOADPOST 2021:09:21:17:14:39 mri_label2label N 12 40.27 35.89 28.66 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 200 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 2519 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:39 mri_label2label N 12 e 5.77 S 0.27 U 5.46 P 99% M 579172 F 0 R 121920 W 0 c 17 w 52 I 0 O 176 L 40.27 35.89 28.66 @#@FSLOADPOST 2021:09:21:17:14:44 mri_label2label N 12 40.08 35.99 28.78 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 40 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 1589 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:44 mri_label2label N 12 e 5.70 S 0.26 U 5.41 P 99% M 579124 F 0 R 120423 W 0 c 23 w 53 I 0 O 96 L 40.08 35.99 28.78 @#@FSLOADPOST 2021:09:21:17:14:50 mri_label2label N 12 40.00 36.04 28.83 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 541 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 7576 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:50 mri_label2label N 12 e 5.95 S 0.28 U 5.63 P 99% M 579512 F 0 R 126047 W 0 c 19 w 52 I 0 O 504 L 40.00 36.04 28.83 @#@FSLOADPOST 2021:09:21:17:14:56 mri_label2label N 12 40.00 36.11 28.89 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 34 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 1946 mri_label2label: Done @#@FSTIME 2021:09:21:17:14:56 mri_label2label N 12 e 5.76 S 0.25 U 5.48 P 99% M 579132 F 0 R 119752 W 0 c 18 w 52 I 0 O 104 L 40.00 36.11 28.89 @#@FSLOADPOST 2021:09:21:17:15:02 mri_label2label N 12 40.08 36.19 28.96 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 124 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1275 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:02 mri_label2label N 12 e 5.67 S 0.26 U 5.38 P 99% M 579092 F 0 R 118555 W 0 c 19 w 52 I 0 O 88 L 40.08 36.19 28.96 @#@FSLOADPOST 2021:09:21:17:15:08 mri_label2label N 12 40.07 36.25 29.01 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 979 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 4384 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:08 mri_label2label N 12 e 6.09 S 0.26 U 5.80 P 99% M 579260 F 0 R 118580 W 0 c 17 w 52 I 0 O 360 L 40.07 36.25 29.01 @#@FSLOADPOST 2021:09:21:17:15:14 mri_label2label N 12 40.06 36.38 29.13 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 1027 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 4361 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:14 mri_label2label N 12 e 6.11 S 0.26 U 5.80 P 99% M 579260 F 0 R 122587 W 0 c 18 w 53 I 0 O 360 L 40.06 36.38 29.13 @#@FSLOADPOST 2021:09:21:17:15:20 mri_label2label N 12 40.05 36.44 29.19 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 101 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 614 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:20 mri_label2label N 12 e 4.80 S 0.26 U 4.51 P 99% M 579032 F 0 R 127715 W 0 c 16 w 53 I 0 O 48 L 40.05 36.44 29.19 @#@FSLOADPOST 2021:09:21:17:15:25 mri_label2label N 12 39.97 36.48 29.24 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 46 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 516 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:25 mri_label2label N 12 e 5.53 S 0.27 U 5.22 P 99% M 579040 F 0 R 122965 W 0 c 20 w 52 I 0 O 40 L 39.97 36.48 29.24 @#@FSLOADPOST 2021:09:21:17:15:30 mri_label2label N 12 39.89 36.52 29.30 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject 32004 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 145541 Number of reverse mapping hits = 23 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 473 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:30 mri_label2label N 12 e 5.48 S 0.26 U 5.17 P 99% M 579036 F 0 R 120653 W 0 c 23 w 55 I 0 O 40 L 39.89 36.52 29.30 @#@FSLOADPOST 2021:09:21:17:15:36 mri_label2label N 12 39.90 36.58 29.35 mris_label2annot --s 32004 --hemi lh --ctab /usr/local/software/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/software/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label cmdline mris_label2annot --s 32004 --hemi lh --ctab /usr/local/software/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 cpu-e-183 machine x86_64 user mp2011 subject 32004 hemi lh SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only ColorTable /usr/local/software/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 102643 unhit vertices Writing annot to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.BA_exvivo.annot @#@FSTIME 2021:09:21:17:15:36 mris_label2annot N 38 e 1.00 S 0.09 U 0.86 P 94% M 166220 F 0 R 23474 W 0 c 2 w 238 I 0 O 2280 L 39.90 36.58 29.35 @#@FSLOADPOST 2021:09:21:17:15:37 mris_label2annot N 38 39.90 36.58 29.35 mris_label2annot --s 32004 --hemi lh --ctab /usr/local/software/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/software/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label cmdline mris_label2annot --s 32004 --hemi lh --ctab /usr/local/software/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 cpu-e-183 machine x86_64 user mp2011 subject 32004 hemi lh SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only ColorTable /usr/local/software/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 120486 unhit vertices Writing annot to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/lh.BA_exvivo.thresh.annot @#@FSTIME 2021:09:21:17:15:37 mris_label2annot N 38 e 0.95 S 0.09 U 0.81 P 95% M 165960 F 0 R 22824 W 0 c 3 w 236 I 0 O 2280 L 39.90 36.58 29.35 @#@FSLOADPOST 2021:09:21:17:15:38 mris_label2annot N 38 39.90 36.58 29.35 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab 32004 lh white computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 247361 Total vertex volume 247153 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/software/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) = 1328708 mm^3 (det: 1.466165 ) 1221 741 2115 2.185 0.573 0.111 0.029 14 1.3 BA1_exvivo 4475 2967 6626 2.191 0.401 0.111 0.023 37 4.3 BA2_exvivo 1100 736 1041 1.792 0.399 0.127 0.026 9 1.2 BA3a_exvivo 2533 1671 3304 1.833 0.559 0.099 0.019 18 2.1 BA3b_exvivo 1970 1208 3475 2.495 0.498 0.104 0.026 15 1.8 BA4a_exvivo 1450 893 2299 2.566 0.475 0.091 0.023 7 1.4 BA4p_exvivo 10487 6849 20846 2.659 0.475 0.110 0.023 90 9.8 BA6_exvivo 1896 1335 4060 2.531 0.504 0.113 0.022 20 1.6 BA44_exvivo 2605 1783 4841 2.430 0.491 0.115 0.026 24 2.6 BA45_exvivo 3870 2755 6335 2.095 0.522 0.130 0.031 57 4.7 V1_exvivo 8016 5641 13649 2.148 0.525 0.142 0.035 109 11.1 V2_exvivo 1913 1225 3613 2.479 0.487 0.110 0.022 20 1.6 MT_exvivo 705 541 1685 2.374 0.786 0.144 0.049 11 1.4 perirhinal_exvivo 657 454 1576 2.348 0.946 0.119 0.030 8 0.8 entorhinal_exvivo @#@FSTIME 2021:09:21:17:15:38 mris_anatomical_stats N 12 e 5.71 S 0.24 U 5.41 P 98% M 506608 F 0 R 115200 W 0 c 40 w 171 I 0 O 24 L 39.90 36.58 29.35 @#@FSLOADPOST 2021:09:21:17:15:44 mris_anatomical_stats N 12 40.06 36.72 29.48 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 32004 lh white computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 247361 Total vertex volume 247153 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/software/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) = 1328708 mm^3 (det: 1.466165 ) 764 455 1312 2.188 0.638 0.120 0.034 10 0.8 BA1_exvivo 1573 1026 2350 2.105 0.381 0.097 0.018 11 1.2 BA2_exvivo 921 626 799 1.739 0.344 0.134 0.028 8 1.1 BA3a_exvivo 1496 990 1513 1.498 0.265 0.084 0.013 6 1.0 BA3b_exvivo 1934 1177 3247 2.490 0.483 0.102 0.025 13 1.9 BA4a_exvivo 1095 686 1607 2.480 0.468 0.092 0.023 5 1.1 BA4p_exvivo 5856 3783 11608 2.668 0.483 0.112 0.025 52 5.6 BA6_exvivo 1108 811 2636 2.568 0.493 0.117 0.023 13 1.1 BA44_exvivo 933 640 2018 2.553 0.408 0.126 0.031 12 1.1 BA45_exvivo 4085 2917 6854 2.106 0.526 0.128 0.031 59 5.0 V1_exvivo 4047 2885 6650 2.047 0.507 0.153 0.039 63 6.2 V2_exvivo 530 331 944 2.475 0.467 0.109 0.022 6 0.5 MT_exvivo 294 228 581 2.230 0.642 0.139 0.042 2 0.5 perirhinal_exvivo 419 287 945 2.431 0.652 0.088 0.023 2 0.3 entorhinal_exvivo @#@FSTIME 2021:09:21:17:15:44 mris_anatomical_stats N 12 e 4.89 S 0.26 U 4.57 P 98% M 506488 F 0 R 120028 W 0 c 18 w 171 I 0 O 24 L 40.06 36.72 29.48 @#@FSLOADPOST 2021:09:21:17:15:49 mris_anatomical_stats N 12 40.06 36.78 29.53 #-------------------------------------------- #@# BA_exvivo Labels rh Tue Sep 21 17:15:49 BST 2021 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA1_exvivo.label --trgsubject 32004 --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 218 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 4180 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:49 mri_label2label N 12 e 6.13 S 0.28 U 5.82 P 99% M 571168 F 0 R 120038 W 0 c 31 w 52 I 0 O 272 L 40.06 36.78 29.53 @#@FSLOADPOST 2021:09:21:17:15:55 mri_label2label N 12 40.05 36.83 29.59 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA2_exvivo.label --trgsubject 32004 --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 206 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 6893 mri_label2label: Done @#@FSTIME 2021:09:21:17:15:55 mri_label2label N 12 e 6.68 S 0.26 U 6.39 P 99% M 571360 F 0 R 120262 W 0 c 21 w 52 I 0 O 424 L 40.05 36.83 29.59 @#@FSLOADPOST 2021:09:21:17:16:02 mri_label2label N 12 40.05 36.88 29.65 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3a_exvivo.label --trgsubject 32004 --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 112 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 4092 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:02 mri_label2label N 12 e 6.00 S 0.26 U 5.70 P 99% M 571168 F 0 R 120625 W 0 c 16 w 52 I 0 O 240 L 40.05 36.88 29.65 @#@FSLOADPOST 2021:09:21:17:16:08 mri_label2label N 12 40.05 36.94 29.70 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3b_exvivo.label --trgsubject 32004 --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 240 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 4762 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:08 mri_label2label N 12 e 6.10 S 0.26 U 5.80 P 99% M 571212 F 0 R 118609 W 0 c 18 w 53 I 0 O 304 L 40.05 36.94 29.70 @#@FSLOADPOST 2021:09:21:17:16:14 mri_label2label N 12 40.12 37.05 29.82 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4a_exvivo.label --trgsubject 32004 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 395 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 6142 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:14 mri_label2label N 12 e 6.42 S 0.28 U 6.11 P 99% M 571304 F 0 R 120870 W 0 c 20 w 54 I 0 O 408 L 40.12 37.05 29.82 @#@FSLOADPOST 2021:09:21:17:16:20 mri_label2label N 12 40.11 37.10 29.87 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4p_exvivo.label --trgsubject 32004 --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 186 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 4659 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:20 mri_label2label N 12 e 6.18 S 0.26 U 5.89 P 99% M 571208 F 0 R 122106 W 0 c 17 w 52 I 0 O 280 L 40.11 37.10 29.87 @#@FSLOADPOST 2021:09:21:17:16:27 mri_label2label N 12 40.10 37.15 29.93 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA6_exvivo.label --trgsubject 32004 --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 928 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 13184 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:27 mri_label2label N 12 e 8.05 S 0.27 U 7.75 P 99% M 571780 F 0 R 129219 W 0 c 26 w 52 I 0 O 896 L 40.10 37.15 29.93 @#@FSLOADPOST 2021:09:21:17:16:35 mri_label2label N 12 39.93 37.21 30.02 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA44_exvivo.label --trgsubject 32004 --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 537 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 7449 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:35 mri_label2label N 12 e 6.61 S 0.25 U 6.33 P 99% M 571388 F 0 R 119608 W 0 c 38 w 52 I 0 O 496 L 39.93 37.21 30.02 @#@FSLOADPOST 2021:09:21:17:16:41 mri_label2label N 12 39.86 37.24 30.07 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA45_exvivo.label --trgsubject 32004 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 993 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 6348 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:41 mri_label2label N 12 e 6.34 S 0.26 U 6.04 P 99% M 571296 F 0 R 115979 W 0 c 24 w 52 I 0 O 472 L 39.86 37.24 30.07 @#@FSLOADPOST 2021:09:21:17:16:48 mri_label2label N 12 39.87 37.29 30.13 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V1_exvivo.label --trgsubject 32004 --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 1619 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 6346 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:48 mri_label2label N 12 e 5.40 S 0.27 U 5.10 P 99% M 571272 F 0 R 126434 W 0 c 19 w 52 I 0 O 520 L 39.87 37.29 30.13 @#@FSLOADPOST 2021:09:21:17:16:53 mri_label2label N 12 39.80 37.32 30.17 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V2_exvivo.label --trgsubject 32004 --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 2625 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 10641 mri_label2label: Done @#@FSTIME 2021:09:21:17:16:53 mri_label2label N 12 e 7.51 S 0.27 U 7.06 P 97% M 571540 F 0 R 120540 W 0 c 29 w 52 I 0 O 864 L 39.80 37.32 30.17 @#@FSLOADPOST 2021:09:21:17:17:01 mri_label2label N 12 39.60 37.35 30.26 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.MT_exvivo.label --trgsubject 32004 --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 828 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 2760 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:01 mri_label2label N 12 e 5.88 S 0.28 U 5.58 P 99% M 571076 F 0 R 120279 W 0 c 18 w 53 I 0 O 240 L 39.60 37.35 30.26 @#@FSLOADPOST 2021:09:21:17:17:07 mri_label2label N 12 39.55 37.38 30.31 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject 32004 --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 45 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1083 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:07 mri_label2label N 12 e 5.76 S 0.25 U 5.47 P 99% M 570996 F 0 R 119887 W 0 c 22 w 52 I 0 O 72 L 39.55 37.38 30.31 @#@FSLOADPOST 2021:09:21:17:17:13 mri_label2label N 12 39.51 37.41 30.36 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject 32004 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 26 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 778 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:13 mri_label2label N 12 e 5.59 S 0.27 U 5.27 P 99% M 570956 F 0 R 115853 W 0 c 16 w 53 I 0 O 56 L 39.51 37.41 30.36 @#@FSLOADPOST 2021:09:21:17:17:18 mri_label2label N 12 39.55 37.45 30.41 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG1.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.FG1.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 541 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 161 Checking for and removing duplicates Writing label file ./rh.FG1.mpm.vpnl.label 702 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:18 mri_label2label N 12 e 4.90 S 0.25 U 4.61 P 99% M 570960 F 0 R 126280 W 0 c 15 w 53 I 0 O 64 L 39.55 37.45 30.41 @#@FSLOADPOST 2021:09:21:17:17:23 mri_label2label N 12 39.34 37.44 30.44 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG2.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.FG2.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 721 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 315 Checking for and removing duplicates Writing label file ./rh.FG2.mpm.vpnl.label 1036 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:23 mri_label2label N 12 e 5.20 S 0.25 U 4.93 P 99% M 570956 F 0 R 121228 W 0 c 14 w 52 I 0 O 96 L 39.34 37.44 30.44 @#@FSLOADPOST 2021:09:21:17:17:28 mri_label2label N 12 39.08 37.42 30.47 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG3.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.FG3.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1523 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 190 Checking for and removing duplicates Writing label file ./rh.FG3.mpm.vpnl.label 1713 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:28 mri_label2label N 12 e 5.32 S 0.23 U 5.06 P 99% M 571036 F 0 R 121145 W 0 c 16 w 52 I 0 O 136 L 39.08 37.42 30.47 @#@FSLOADPOST 2021:09:21:17:17:34 mri_label2label N 12 38.76 37.41 30.54 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG4.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.FG4.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1586 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 189 Checking for and removing duplicates Writing label file ./rh.FG4.mpm.vpnl.label 1775 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:34 mri_label2label N 12 e 5.27 S 0.26 U 4.99 P 99% M 571028 F 0 R 122100 W 0 c 16 w 52 I 0 O 136 L 38.76 37.41 30.54 @#@FSLOADPOST 2021:09:21:17:17:39 mri_label2label N 12 38.62 37.40 30.58 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc1.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.hOc1.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3667 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 1226 Checking for and removing duplicates Writing label file ./rh.hOc1.mpm.vpnl.label 4893 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:39 mri_label2label N 12 e 5.59 S 0.26 U 5.29 P 99% M 571188 F 0 R 120681 W 0 c 16 w 52 I 0 O 408 L 38.62 37.40 30.58 @#@FSLOADPOST 2021:09:21:17:17:45 mri_label2label N 12 38.49 37.39 30.61 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc2.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.hOc2.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2719 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 958 Checking for and removing duplicates Writing label file ./rh.hOc2.mpm.vpnl.label 3677 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:45 mri_label2label N 12 e 5.55 S 0.26 U 5.23 P 99% M 571128 F 0 R 120020 W 0 c 13 w 54 I 0 O 304 L 38.49 37.39 30.61 @#@FSLOADPOST 2021:09:21:17:17:50 mri_label2label N 12 38.21 37.35 30.64 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc3v.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.hOc3v.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1228 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 515 Checking for and removing duplicates Writing label file ./rh.hOc3v.mpm.vpnl.label 1743 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:50 mri_label2label N 12 e 5.30 S 0.27 U 4.99 P 99% M 571004 F 0 R 122361 W 0 c 14 w 53 I 0 O 152 L 38.21 37.35 30.64 @#@FSLOADPOST 2021:09:21:17:17:56 mri_label2label N 12 37.87 37.30 30.65 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc4v.mpm.vpnl.label --trgsubject 32004 --trglabel ./rh.hOc4v.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1025 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 357 Checking for and removing duplicates Writing label file ./rh.hOc4v.mpm.vpnl.label 1382 mri_label2label: Done @#@FSTIME 2021:09:21:17:17:56 mri_label2label N 12 e 5.19 S 0.23 U 4.93 P 99% M 570996 F 0 R 122376 W 0 c 15 w 52 I 0 O 120 L 37.87 37.30 30.65 @#@FSLOADPOST 2021:09:21:17:18:01 mri_label2label N 12 37.64 37.26 30.68 mris_label2annot --s 32004 --ctab /usr/local/software/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/software/freesurfer/7.1.0/average/colortable_vpnl.txt Number of ctab entries 9 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label cmdline mris_label2annot --s 32004 --ctab /usr/local/software/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 cpu-e-183 machine x86_64 user mp2011 subject 32004 hemi rh SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only ColorTable /usr/local/software/freesurfer/7.1.0/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 125991 unhit vertices Writing annot to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.mpm.vpnl.annot @#@FSTIME 2021:09:21:17:18:01 mris_label2annot N 26 e 0.97 S 0.15 U 0.78 P 96% M 161836 F 0 R 23056 W 0 c 2 w 160 I 9984 O 2224 L 37.64 37.26 30.68 @#@FSLOADPOST 2021:09:21:17:18:02 mris_label2annot N 26 37.64 37.26 30.68 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 71 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 947 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:02 mri_label2label N 12 e 5.15 S 0.24 U 4.88 P 99% M 570976 F 0 R 121341 W 0 c 14 w 51 I 0 O 72 L 37.64 37.26 30.68 @#@FSLOADPOST 2021:09:21:17:18:07 mri_label2label N 12 37.51 37.24 30.71 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 33 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 2721 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:07 mri_label2label N 12 e 5.35 S 0.25 U 5.07 P 99% M 571100 F 0 R 122556 W 0 c 14 w 52 I 0 O 160 L 37.51 37.24 30.71 @#@FSLOADPOST 2021:09:21:17:18:13 mri_label2label N 12 37.31 37.20 30.73 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 39 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1737 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:13 mri_label2label N 12 e 5.36 S 0.27 U 5.04 P 99% M 571040 F 0 R 120294 W 0 c 13 w 54 I 0 O 104 L 37.31 37.20 30.73 @#@FSLOADPOST 2021:09:21:17:18:18 mri_label2label N 12 37.12 37.16 30.75 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 80 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2263 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:18 mri_label2label N 12 e 5.34 S 0.24 U 5.07 P 99% M 571060 F 0 R 119911 W 0 c 15 w 52 I 0 O 144 L 37.12 37.16 30.75 @#@FSLOADPOST 2021:09:21:17:18:23 mri_label2label N 12 36.95 37.13 30.78 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 66 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1454 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:23 mri_label2label N 12 e 5.31 S 0.28 U 4.96 P 98% M 570996 F 0 R 120203 W 0 c 14 w 52 I 0 O 96 L 36.95 37.13 30.78 @#@FSLOADPOST 2021:09:21:17:18:29 mri_label2label N 12 36.73 37.08 30.83 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 51 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1540 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:29 mri_label2label N 12 e 5.38 S 0.26 U 5.10 P 99% M 571012 F 0 R 121199 W 0 c 14 w 52 I 0 O 96 L 36.73 37.08 30.83 @#@FSLOADPOST 2021:09:21:17:18:34 mri_label2label N 12 36.59 37.04 30.85 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 471 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 7430 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:34 mri_label2label N 12 e 6.30 S 0.25 U 6.01 P 99% M 571388 F 0 R 119143 W 0 c 17 w 52 I 0 O 504 L 36.59 37.04 30.85 @#@FSLOADPOST 2021:09:21:17:18:41 mri_label2label N 12 36.38 36.99 30.87 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 59 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1071 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:41 mri_label2label N 12 e 5.10 S 0.26 U 4.81 P 99% M 571000 F 0 R 121513 W 0 c 16 w 53 I 0 O 72 L 36.38 36.99 30.87 @#@FSLOADPOST 2021:09:21:17:18:46 mri_label2label N 12 36.11 36.92 30.88 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 108 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1286 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:46 mri_label2label N 12 e 5.24 S 0.24 U 4.96 P 99% M 570984 F 0 R 124006 W 0 c 20 w 53 I 0 O 88 L 36.11 36.92 30.88 @#@FSLOADPOST 2021:09:21:17:18:51 mri_label2label N 12 35.86 36.86 30.89 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 1087 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 4319 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:51 mri_label2label N 12 e 5.84 S 0.28 U 5.51 P 99% M 571168 F 0 R 123268 W 0 c 21 w 52 I 0 O 360 L 35.86 36.86 30.89 @#@FSLOADPOST 2021:09:21:17:18:57 mri_label2label N 12 35.63 36.79 30.90 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 1272 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 4709 mri_label2label: Done @#@FSTIME 2021:09:21:17:18:57 mri_label2label N 12 e 5.56 S 0.26 U 5.27 P 99% M 571188 F 0 R 124150 W 0 c 19 w 52 I 0 O 392 L 35.63 36.79 30.90 @#@FSLOADPOST 2021:09:21:17:19:03 mri_label2label N 12 35.42 36.73 30.91 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 143 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 411 mri_label2label: Done @#@FSTIME 2021:09:21:17:19:03 mri_label2label N 12 e 5.17 S 0.25 U 4.81 P 98% M 570936 F 0 R 121866 W 0 c 17 w 52 I 0 O 40 L 35.42 36.73 30.91 @#@FSLOADPOST 2021:09:21:17:19:08 mri_label2label N 12 35.23 36.67 30.92 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 32 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 726 mri_label2label: Done @#@FSTIME 2021:09:21:17:19:08 mri_label2label N 12 e 5.24 S 0.26 U 4.89 P 98% M 570952 F 0 R 121823 W 0 c 14 w 52 I 0 O 48 L 35.23 36.67 30.92 @#@FSLOADPOST 2021:09:21:17:19:13 mri_label2label N 12 34.97 36.59 30.93 mri_label2label --srcsubject fsaverage --srclabel /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject 32004 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 32004 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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white Reading target registration /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 141945 Number of reverse mapping hits = 6 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 297 mri_label2label: Done @#@FSTIME 2021:09:21:17:19:13 mri_label2label N 12 e 5.51 S 0.42 U 5.03 P 99% M 570912 F 0 R 122936 W 0 c 16 w 52 I 0 O 24 L 34.97 36.59 30.93 @#@FSLOADPOST 2021:09:21:17:19:19 mri_label2label N 12 33.76 36.28 30.89 mris_label2annot --s 32004 --hemi rh --ctab /usr/local/software/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/software/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label cmdline mris_label2annot --s 32004 --hemi rh --ctab /usr/local/software/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 cpu-e-183 machine x86_64 user mp2011 subject 32004 hemi rh SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only ColorTable /usr/local/software/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 97111 unhit vertices Writing annot to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.BA_exvivo.annot @#@FSTIME 2021:09:21:17:19:19 mris_label2annot N 38 e 0.99 S 0.09 U 0.80 P 90% M 162164 F 0 R 23154 W 0 c 3 w 239 I 0 O 2224 L 33.76 36.28 30.89 @#@FSLOADPOST 2021:09:21:17:19:20 mris_label2annot N 38 33.76 36.28 30.89 mris_label2annot --s 32004 --hemi rh --ctab /usr/local/software/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/software/freesurfer/7.1.0/average/colortable_BA.txt Number of ctab entries 15 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label cmdline mris_label2annot --s 32004 --hemi rh --ctab /usr/local/software/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 cpu-e-183 machine x86_64 user mp2011 subject 32004 hemi rh SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only ColorTable /usr/local/software/freesurfer/7.1.0/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 117076 unhit vertices Writing annot to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/label/rh.BA_exvivo.thresh.annot @#@FSTIME 2021:09:21:17:19:20 mris_label2annot N 38 e 0.89 S 0.08 U 0.76 P 94% M 161944 F 0 R 21854 W 0 c 3 w 236 I 0 O 2224 L 33.76 36.28 30.89 @#@FSLOADPOST 2021:09:21:17:19:21 mris_label2annot N 38 33.76 36.28 30.89 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab 32004 rh white computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 240692 Total vertex volume 240481 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/software/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) = 1328708 mm^3 (det: 1.466165 ) 1070 593 2097 2.491 0.563 0.116 0.031 12 1.2 BA1_exvivo 3304 2146 4529 2.187 0.371 0.101 0.019 22 2.7 BA2_exvivo 1215 826 1157 1.815 0.423 0.130 0.028 9 1.5 BA3a_exvivo 2174 1389 2724 1.786 0.484 0.093 0.019 14 1.6 BA3b_exvivo 1710 1011 2982 2.584 0.422 0.101 0.026 12 1.7 BA4a_exvivo 1363 870 1989 2.333 0.475 0.103 0.023 8 1.3 BA4p_exvivo 9254 5976 18185 2.673 0.461 0.108 0.024 70 8.7 BA6_exvivo 3635 2468 7307 2.652 0.424 0.103 0.020 29 3.0 BA44_exvivo 4697 3188 8913 2.515 0.425 0.118 0.026 47 4.8 BA45_exvivo 4296 3287 7837 2.103 0.564 0.141 0.037 62 6.0 V1_exvivo 8491 6031 14365 2.121 0.510 0.143 0.035 117 11.6 V2_exvivo 2706 1880 4520 2.275 0.417 0.124 0.025 27 2.6 MT_exvivo 323 213 462 1.925 0.627 0.093 0.022 2 0.3 perirhinal_exvivo 596 373 1050 2.011 0.879 0.127 0.039 33 0.9 entorhinal_exvivo @#@FSTIME 2021:09:21:17:19:21 mris_anatomical_stats N 12 e 5.58 S 0.23 U 4.93 P 92% M 494408 F 0 R 113760 W 0 c 17 w 172 I 0 O 32 L 33.76 36.28 30.89 @#@FSLOADPOST 2021:09:21:17:19:26 mris_anatomical_stats N 12 33.54 36.19 30.89 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 32004 rh white computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/wm.mgz... reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white... reading input pial surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.pial... reading input white surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 240692 Total vertex volume 240481 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /usr/local/software/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) = 1328708 mm^3 (det: 1.466165 ) 729 396 1472 2.519 0.600 0.110 0.028 8 0.7 BA1_exvivo 1827 1191 2658 2.133 0.365 0.089 0.016 11 1.1 BA2_exvivo 1048 717 949 1.774 0.413 0.136 0.029 9 1.3 BA3a_exvivo 1639 1066 1772 1.627 0.340 0.083 0.015 8 1.0 BA3b_exvivo 1074 623 1901 2.547 0.417 0.106 0.027 8 1.0 BA4a_exvivo 1095 717 1593 2.351 0.506 0.105 0.023 6 1.1 BA4p_exvivo 5949 3815 11837 2.705 0.471 0.111 0.025 48 5.7 BA6_exvivo 844 622 2246 2.825 0.429 0.112 0.023 8 0.8 BA44_exvivo 1025 694 2195 2.628 0.376 0.131 0.029 13 1.1 BA45_exvivo 4125 3157 7334 2.083 0.559 0.138 0.035 57 5.6 V1_exvivo 4533 3314 7843 2.066 0.506 0.156 0.040 73 7.1 V2_exvivo 403 281 776 2.331 0.337 0.144 0.031 6 0.5 MT_exvivo 27 19 38 2.039 0.349 0.058 0.016 0 0.0 perirhinal_exvivo 551 348 982 2.126 0.779 0.102 0.027 3 0.7 entorhinal_exvivo @#@FSTIME 2021:09:21:17:19:26 mris_anatomical_stats N 12 e 7.55 S 0.22 U 4.99 P 69% M 494408 F 0 R 112560 W 0 c 12 w 216 I 0 O 24 L 33.54 36.19 30.89 @#@FSLOADPOST 2021:09:21:17:19:34 mris_anatomical_stats N 12 33.08 36.00 30.88 #-------------------------------------------- #@# Qdec Cache preproc lh thickness fsaverage Tue Sep 21 17:19:34 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas thickness --target fsaverage --out lh.thickness.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.18892 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.thickness.fsaverage.mris_preproc.log Tue Sep 21 17:19:35 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas thickness --target fsaverage --out lh.thickness.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.18892 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:19:35 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.18892/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.thickness --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.18892/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.thickness --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.thickness srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.18892/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.thickness Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (145541) Reverse Loop had 19427 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.18892/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.18892/32004.1.mgh --o lh.thickness.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.thickness.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.18892 Tue Sep 21 17:19:40 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:19:34 mris_preproc N 10 e 5.31 S 0.30 U 3.99 P 80% M 398272 F 0 R 76243 W 0 c 20 w 503 I 0 O 2640 L 33.08 36.00 30.88 @#@FSLOADPOST 2021:09:21:17:19:40 mris_preproc N 10 32.99 35.94 30.89 #-------------------------------------------- #@# Qdec Cache preproc lh area fsaverage Tue Sep 21 17:19:40 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas area --target fsaverage --out lh.area.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.19167 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.area.fsaverage.mris_preproc.log Tue Sep 21 17:19:40 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas area --target fsaverage --out lh.area.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.19167 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:19:40 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.19167/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.19167/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area --jac --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.19167/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (145541) Reverse Loop had 19427 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.19167/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.19167/32004.1.mgh --o lh.area.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.area.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.19167 Tue Sep 21 17:19:46 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:19:40 mris_preproc N 10 e 6.00 S 0.26 U 5.58 P 97% M 398264 F 0 R 77161 W 0 c 34 w 499 I 0 O 2640 L 32.99 35.94 30.89 @#@FSLOADPOST 2021:09:21:17:19:46 mris_preproc N 10 32.67 35.82 30.88 #-------------------------------------------- #@# Qdec Cache preproc lh area.pial fsaverage Tue Sep 21 17:19:46 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas area.pial --target fsaverage --out lh.area.pial.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.19453 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.area.pial.fsaverage.mris_preproc.log Tue Sep 21 17:19:46 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas area.pial --target fsaverage --out lh.area.pial.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.19453 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:19:46 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.19453/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area.pial --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.19453/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area.pial --jac --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area.pial srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.19453/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.area.pial Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (145541) Reverse Loop had 19427 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.19453/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.19453/32004.1.mgh --o lh.area.pial.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.area.pial.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.19453 Tue Sep 21 17:19:53 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:19:46 mris_preproc N 10 e 6.88 S 0.26 U 5.72 P 87% M 398264 F 0 R 77017 W 0 c 34 w 500 I 0 O 2648 L 32.67 35.82 30.88 @#@FSLOADPOST 2021:09:21:17:19:53 mris_preproc N 10 32.46 35.72 30.87 #-------------------------------------------- #@# Qdec Cache preproc lh volume fsaverage Tue Sep 21 17:19:53 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas volume --target fsaverage --out lh.volume.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.19808 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.volume.fsaverage.mris_preproc.log Tue Sep 21 17:19:53 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas volume --target fsaverage --out lh.volume.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.19808 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:19:53 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.19808/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.volume --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.19808/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.volume --jac --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.volume srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.19808/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.volume Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (145541) Reverse Loop had 19427 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.19808/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.19808/32004.1.mgh --o lh.volume.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.volume.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.19808 Tue Sep 21 17:19:59 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:19:53 mris_preproc N 10 e 6.12 S 0.29 U 5.70 P 98% M 398264 F 0 R 77815 W 0 c 34 w 499 I 0 O 2640 L 32.46 35.72 30.87 @#@FSLOADPOST 2021:09:21:17:19:59 mris_preproc N 10 32.07 35.54 30.86 #-------------------------------------------- #@# Qdec Cache preproc lh curv fsaverage Tue Sep 21 17:19:59 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas curv --target fsaverage --out lh.curv.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.20108 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.curv.fsaverage.mris_preproc.log Tue Sep 21 17:19:59 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas curv --target fsaverage --out lh.curv.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.20108 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:19:59 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20108/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.curv --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20108/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.curv --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.curv srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.20108/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.curv Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (145541) Reverse Loop had 19427 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.20108/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.20108/32004.1.mgh --o lh.curv.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.curv.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.20108 Tue Sep 21 17:20:03 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:19:59 mris_preproc N 10 e 4.49 S 0.28 U 4.10 P 97% M 398276 F 0 R 77167 W 0 c 26 w 498 I 0 O 2640 L 32.07 35.54 30.86 @#@FSLOADPOST 2021:09:21:17:20:03 mris_preproc N 10 32.07 35.54 30.86 #-------------------------------------------- #@# Qdec Cache preproc lh sulc fsaverage Tue Sep 21 17:20:03 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas sulc --target fsaverage --out lh.sulc.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.20375 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.sulc.fsaverage.mris_preproc.log Tue Sep 21 17:20:04 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas sulc --target fsaverage --out lh.sulc.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.20375 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:04 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20375/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sulc --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20375/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sulc --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sulc srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.20375/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sulc Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (145541) Reverse Loop had 19427 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.20375/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.20375/32004.1.mgh --o lh.sulc.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.sulc.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.20375 Tue Sep 21 17:20:08 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:03 mris_preproc N 10 e 4.53 S 0.26 U 4.17 P 98% M 398276 F 0 R 75245 W 0 c 30 w 496 I 0 O 2640 L 32.07 35.54 30.86 @#@FSLOADPOST 2021:09:21:17:20:08 mris_preproc N 10 31.75 35.41 30.85 #-------------------------------------------- #@# Qdec Cache preproc lh white.K fsaverage Tue Sep 21 17:20:08 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas white.K --target fsaverage --out lh.white.K.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.20661 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.white.K.fsaverage.mris_preproc.log Tue Sep 21 17:20:08 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas white.K --target fsaverage --out lh.white.K.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.20661 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:08 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20661/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.K --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20661/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.K --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.K srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.20661/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.K Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (145541) Reverse Loop had 19427 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.20661/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.20661/32004.1.mgh --o lh.white.K.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.white.K.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.20661 Tue Sep 21 17:20:13 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:08 mris_preproc N 10 e 4.51 S 0.30 U 4.09 P 97% M 398272 F 0 R 75186 W 0 c 28 w 511 I 1144 O 2640 L 31.75 35.41 30.85 @#@FSLOADPOST 2021:09:21:17:20:13 mris_preproc N 10 31.45 35.29 30.83 #-------------------------------------------- #@# Qdec Cache preproc lh white.H fsaverage Tue Sep 21 17:20:13 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas white.H --target fsaverage --out lh.white.H.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.20889 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.white.H.fsaverage.mris_preproc.log Tue Sep 21 17:20:13 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas white.H --target fsaverage --out lh.white.H.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.20889 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:13 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20889/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.H --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.20889/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.H --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.H srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.20889/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.white.H Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (145541) Reverse Loop had 19427 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.20889/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.20889/32004.1.mgh --o lh.white.H.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.white.H.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.20889 Tue Sep 21 17:20:17 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:13 mris_preproc N 10 e 4.62 S 0.26 U 4.19 P 96% M 398272 F 0 R 75978 W 0 c 19 w 509 I 1144 O 2632 L 31.45 35.29 30.83 @#@FSLOADPOST 2021:09:21:17:20:17 mris_preproc N 10 31.33 35.20 30.83 #-------------------------------------------- #@# Qdec Cache preproc lh jacobian_white fsaverage Tue Sep 21 17:20:17 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas jacobian_white --target fsaverage --out lh.jacobian_white.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.21153 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.jacobian_white.fsaverage.mris_preproc.log Tue Sep 21 17:20:17 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas jacobian_white --target fsaverage --out lh.jacobian_white.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.21153 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:17 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21153/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.jacobian_white --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21153/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.jacobian_white --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.jacobian_white srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.21153/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.jacobian_white Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (145541) Reverse Loop had 19427 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.21153/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.21153/32004.1.mgh --o lh.jacobian_white.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.jacobian_white.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.21153 Tue Sep 21 17:20:22 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:17 mris_preproc N 10 e 4.25 S 0.27 U 3.91 P 98% M 398272 F 0 R 75935 W 0 c 25 w 499 I 0 O 2632 L 31.33 35.20 30.83 @#@FSLOADPOST 2021:09:21:17:20:22 mris_preproc N 10 30.99 35.06 30.81 #-------------------------------------------- #@# Qdec Cache preproc lh w-g.pct.mgh fsaverage Tue Sep 21 17:20:22 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi lh --meas w-g.pct.mgh --target fsaverage --out lh.w-g.pct.mgh.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.21416 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is lh.w-g.pct.mgh.fsaverage.mris_preproc.log Tue Sep 21 17:20:22 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi lh --meas w-g.pct.mgh --target fsaverage --out lh.w-g.pct.mgh.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.21416 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:22 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21416/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21416/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.21416/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/lh.w-g.pct.mgh Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (145541) Reverse Loop had 19427 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 146192, nTrgMulti = 17650, MnTrgMultiHits = 2.10068 nSrc121 = 112968, nSrcLost = 0, nSrcMulti = 32573, MnSrcMultiHits = 2.15826 Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.21416/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.21416/32004.1.mgh --o lh.w-g.pct.mgh.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.w-g.pct.mgh.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.21416 Tue Sep 21 17:20:26 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:22 mris_preproc N 10 e 4.23 S 0.26 U 3.86 P 97% M 398216 F 0 R 76381 W 0 c 21 w 441 I 0 O 2640 L 30.99 35.06 30.81 @#@FSLOADPOST 2021:09:21:17:20:26 mris_preproc N 10 30.75 34.95 30.79 #-------------------------------------------- #@# Qdec Cache preproc rh thickness fsaverage Tue Sep 21 17:20:26 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas thickness --target fsaverage --out rh.thickness.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.21682 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.thickness.fsaverage.mris_preproc.log Tue Sep 21 17:20:26 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas thickness --target fsaverage --out rh.thickness.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.21682 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:26 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21682/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.thickness --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21682/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.thickness --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.thickness srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.21682/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.thickness Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (141945) Reverse Loop had 17634 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.21682/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.21682/32004.1.mgh --o rh.thickness.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.thickness.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.21682 Tue Sep 21 17:20:30 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:26 mris_preproc N 10 e 4.07 S 0.27 U 3.65 P 96% M 393944 F 0 R 73747 W 0 c 25 w 501 I 0 O 2640 L 30.75 34.95 30.79 @#@FSLOADPOST 2021:09:21:17:20:30 mris_preproc N 10 30.37 34.80 30.77 #-------------------------------------------- #@# Qdec Cache preproc rh area fsaverage Tue Sep 21 17:20:30 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas area --target fsaverage --out rh.area.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.21877 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.area.fsaverage.mris_preproc.log Tue Sep 21 17:20:30 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas area --target fsaverage --out rh.area.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.21877 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:30 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21877/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.21877/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area --jac --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.21877/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (141945) Reverse Loop had 17634 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.21877/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.21877/32004.1.mgh --o rh.area.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.area.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.21877 Tue Sep 21 17:20:36 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:30 mris_preproc N 10 e 5.77 S 0.26 U 5.44 P 98% M 393936 F 0 R 77953 W 0 c 32 w 497 I 0 O 2640 L 30.37 34.80 30.77 @#@FSLOADPOST 2021:09:21:17:20:36 mris_preproc N 10 30.10 34.67 30.75 #-------------------------------------------- #@# Qdec Cache preproc rh area.pial fsaverage Tue Sep 21 17:20:36 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas area.pial --target fsaverage --out rh.area.pial.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.22206 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.area.pial.fsaverage.mris_preproc.log Tue Sep 21 17:20:36 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas area.pial --target fsaverage --out rh.area.pial.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.22206 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:36 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.22206/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area.pial --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.22206/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area.pial --jac --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area.pial srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.22206/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.area.pial Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (141945) Reverse Loop had 17634 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.22206/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.22206/32004.1.mgh --o rh.area.pial.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.area.pial.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.22206 Tue Sep 21 17:20:42 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:36 mris_preproc N 10 e 6.04 S 0.28 U 5.64 P 98% M 393936 F 0 R 76215 W 0 c 34 w 505 I 0 O 2640 L 30.10 34.67 30.75 @#@FSLOADPOST 2021:09:21:17:20:42 mris_preproc N 10 29.77 34.52 30.72 #-------------------------------------------- #@# Qdec Cache preproc rh volume fsaverage Tue Sep 21 17:20:42 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas volume --target fsaverage --out rh.volume.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.22502 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.volume.fsaverage.mris_preproc.log Tue Sep 21 17:20:42 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas volume --target fsaverage --out rh.volume.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.22502 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:42 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.22502/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.volume --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.22502/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.volume --jac --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.volume srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.22502/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.volume Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (141945) Reverse Loop had 17634 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.22502/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.22502/32004.1.mgh --o rh.volume.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.volume.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.22502 Tue Sep 21 17:20:48 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:42 mris_preproc N 10 e 5.71 S 0.27 U 5.31 P 97% M 393936 F 0 R 77493 W 0 c 21 w 498 I 0 O 2640 L 29.77 34.52 30.72 @#@FSLOADPOST 2021:09:21:17:20:48 mris_preproc N 10 29.55 34.40 30.70 #-------------------------------------------- #@# Qdec Cache preproc rh curv fsaverage Tue Sep 21 17:20:48 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas curv --target fsaverage --out rh.curv.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.22800 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.curv.fsaverage.mris_preproc.log Tue Sep 21 17:20:48 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas curv --target fsaverage --out rh.curv.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.22800 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:48 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.22800/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.curv --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.22800/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.curv --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.curv srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.22800/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.curv Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (141945) Reverse Loop had 17634 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.22800/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.22800/32004.1.mgh --o rh.curv.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.curv.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.22800 Tue Sep 21 17:20:52 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:48 mris_preproc N 10 e 4.41 S 0.29 U 4.05 P 98% M 393940 F 0 R 77378 W 0 c 31 w 499 I 0 O 2632 L 29.55 34.40 30.70 @#@FSLOADPOST 2021:09:21:17:20:52 mris_preproc N 10 29.18 34.24 30.67 #-------------------------------------------- #@# Qdec Cache preproc rh sulc fsaverage Tue Sep 21 17:20:52 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas sulc --target fsaverage --out rh.sulc.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.23035 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.sulc.fsaverage.mris_preproc.log Tue Sep 21 17:20:52 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas sulc --target fsaverage --out rh.sulc.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.23035 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:53 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23035/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sulc --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23035/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sulc --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sulc srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.23035/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sulc Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (141945) Reverse Loop had 17634 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.23035/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.23035/32004.1.mgh --o rh.sulc.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.sulc.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.23035 Tue Sep 21 17:20:56 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:52 mris_preproc N 10 e 4.11 S 0.27 U 3.77 P 98% M 393940 F 0 R 74886 W 0 c 26 w 501 I 0 O 2640 L 29.18 34.24 30.67 @#@FSLOADPOST 2021:09:21:17:20:57 mris_preproc N 10 28.69 34.06 30.63 #-------------------------------------------- #@# Qdec Cache preproc rh white.K fsaverage Tue Sep 21 17:20:57 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas white.K --target fsaverage --out rh.white.K.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.23298 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.white.K.fsaverage.mris_preproc.log Tue Sep 21 17:20:57 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas white.K --target fsaverage --out rh.white.K.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.23298 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:20:57 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23298/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.K --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23298/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.K --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.K srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.23298/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.K Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (141945) Reverse Loop had 17634 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.23298/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.23298/32004.1.mgh --o rh.white.K.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.white.K.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.23298 Tue Sep 21 17:21:01 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:20:57 mris_preproc N 10 e 4.21 S 0.29 U 3.80 P 97% M 393944 F 0 R 75160 W 0 c 26 w 511 I 1112 O 2640 L 28.69 34.06 30.63 @#@FSLOADPOST 2021:09:21:17:21:01 mris_preproc N 10 28.39 33.91 30.60 #-------------------------------------------- #@# Qdec Cache preproc rh white.H fsaverage Tue Sep 21 17:21:01 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas white.H --target fsaverage --out rh.white.H.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.23690 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.white.H.fsaverage.mris_preproc.log Tue Sep 21 17:21:01 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas white.H --target fsaverage --out rh.white.H.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.23690 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:21:01 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23690/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.H --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23690/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.H --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.H srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.23690/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.white.H Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (141945) Reverse Loop had 17634 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.23690/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.23690/32004.1.mgh --o rh.white.H.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.white.H.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.23690 Tue Sep 21 17:21:05 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:21:01 mris_preproc N 10 e 4.37 S 0.28 U 3.99 P 97% M 393944 F 0 R 74639 W 0 c 36 w 510 I 1112 O 2640 L 28.39 33.91 30.60 @#@FSLOADPOST 2021:09:21:17:21:05 mris_preproc N 10 27.80 33.69 30.55 #-------------------------------------------- #@# Qdec Cache preproc rh jacobian_white fsaverage Tue Sep 21 17:21:05 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas jacobian_white --target fsaverage --out rh.jacobian_white.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.23886 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.jacobian_white.fsaverage.mris_preproc.log Tue Sep 21 17:21:05 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas jacobian_white --target fsaverage --out rh.jacobian_white.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.23886 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:21:05 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23886/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.jacobian_white --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.23886/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.jacobian_white --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.jacobian_white srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.23886/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.jacobian_white Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (141945) Reverse Loop had 17634 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.23886/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.23886/32004.1.mgh --o rh.jacobian_white.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.jacobian_white.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.23886 Tue Sep 21 17:21:10 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:21:05 mris_preproc N 10 e 4.41 S 0.25 U 4.08 P 98% M 393944 F 0 R 76322 W 0 c 29 w 498 I 0 O 2640 L 27.80 33.69 30.55 @#@FSLOADPOST 2021:09:21:17:21:10 mris_preproc N 10 27.26 33.48 30.50 #-------------------------------------------- #@# Qdec Cache preproc rh w-g.pct.mgh fsaverage Tue Sep 21 17:21:10 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mris_preproc --s 32004 --hemi rh --meas w-g.pct.mgh --target fsaverage --out rh.w-g.pct.mgh.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.24152 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf Log file is rh.w-g.pct.mgh.fsaverage.mris_preproc.log Tue Sep 21 17:21:10 BST 2021 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf /usr/local/software/freesurfer/7.1.0/bin/mris_preproc --s 32004 --hemi rh --meas w-g.pct.mgh --target fsaverage --out rh.w-g.pct.mgh.fsaverage.mgh Linux cpu-e-183 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.1.0 freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b tmpdir is ./tmp.mris_preproc.24152 Src rh sphere.reg Trg rh sphere.reg --------------------------------------------------- #@# 1/1 32004 Tue Sep 21 17:21:10 BST 2021 -------------- ----------------------- mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.24152/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --srcsubject 32004 --srchemi rh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi rh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.24152/32004.1.mgh --sval /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh --sfmt curv --noreshape --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = 32004 srcval = /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.24152/32004.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.sphere.reg Loading source data Reading curvature file /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf/rh.w-g.pct.mgh Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Reading target surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (141945) Reverse Loop had 17634 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 147631, nTrgMulti = 16211, MnTrgMultiHits = 2.08778 nSrc121 = 107716, nSrcLost = 0, nSrcMulti = 34229, MnSrcMultiHits = 2.1549 Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to ./tmp.mris_preproc.24152/32004.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.24152/32004.1.mgh --o rh.w-g.pct.mgh.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to rh.w-g.pct.mgh.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.24152 Tue Sep 21 17:21:14 BST 2021 mris_preproc done @#@FSTIME 2021:09:21:17:21:10 mris_preproc N 10 e 4.04 S 0.29 U 3.69 P 98% M 393856 F 0 R 76468 W 0 c 19 w 452 I 0 O 2632 L 27.26 33.48 30.50 @#@FSLOADPOST 2021:09:21:17:21:14 mris_preproc N 10 26.83 33.29 30.45 #-------------------------------------------- #@# Qdec Cache surf2surf lh thickness fwhm0 fsaverage Tue Sep 21 17:21:14 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.thickness.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.thickness.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:14 mri_surf2surf N 12 e 1.18 S 0.09 U 1.08 P 99% M 219928 F 0 R 32241 W 0 c 6 w 51 I 0 O 1312 L 26.83 33.29 30.45 @#@FSLOADPOST 2021:09:21:17:21:15 mri_surf2surf N 12 26.83 33.29 30.45 #-------------------------------------------- #@# Qdec Cache surf2surf lh thickness fwhm5 fsaverage Tue Sep 21 17:21:15 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.thickness.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.thickness.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:15 mri_surf2surf N 12 e 2.56 S 0.19 U 2.34 P 98% M 408832 F 0 R 86247 W 0 c 12 w 59 I 0 O 1312 L 26.83 33.29 30.45 @#@FSLOADPOST 2021:09:21:17:21:18 mri_surf2surf N 12 26.83 33.29 30.45 #-------------------------------------------- #@# Qdec Cache surf2surf lh thickness fwhm10 fsaverage Tue Sep 21 17:21:18 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.thickness.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.thickness.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:18 mri_surf2surf N 12 e 2.51 S 0.18 U 2.31 P 99% M 408832 F 0 R 86666 W 0 c 4 w 58 I 0 O 1312 L 26.83 33.29 30.45 @#@FSLOADPOST 2021:09:21:17:21:20 mri_surf2surf N 12 26.45 33.10 30.41 #-------------------------------------------- #@# Qdec Cache surf2surf lh thickness fwhm15 fsaverage Tue Sep 21 17:21:20 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.thickness.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.thickness.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:20 mri_surf2surf N 12 e 2.61 S 0.20 U 2.39 P 99% M 408828 F 0 R 86314 W 0 c 7 w 58 I 0 O 1312 L 26.45 33.10 30.41 @#@FSLOADPOST 2021:09:21:17:21:23 mri_surf2surf N 12 26.45 33.10 30.41 #-------------------------------------------- #@# Qdec Cache surf2surf lh thickness fwhm20 fsaverage Tue Sep 21 17:21:23 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.thickness.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.thickness.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:23 mri_surf2surf N 12 e 3.02 S 0.19 U 2.81 P 99% M 408828 F 0 R 86232 W 0 c 13 w 58 I 0 O 1312 L 26.45 33.10 30.41 @#@FSLOADPOST 2021:09:21:17:21:26 mri_surf2surf N 12 26.17 32.93 30.37 #-------------------------------------------- #@# Qdec Cache surf2surf lh thickness fwhm25 fsaverage Tue Sep 21 17:21:26 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.thickness.fsaverage.mgh --tval lh.thickness.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.thickness.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.thickness.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:26 mri_surf2surf N 12 e 3.45 S 0.24 U 3.19 P 99% M 408828 F 0 R 86807 W 0 c 12 w 58 I 0 O 1312 L 26.17 32.93 30.37 @#@FSLOADPOST 2021:09:21:17:21:30 mri_surf2surf N 12 25.76 32.74 30.32 #-------------------------------------------- #@# Qdec Cache surf2surf lh area fwhm0 fsaverage Tue Sep 21 17:21:30 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.area.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:30 mri_surf2surf N 12 e 1.22 S 0.11 U 1.09 P 99% M 219932 F 0 R 31491 W 0 c 6 w 49 I 0 O 1312 L 25.76 32.74 30.32 @#@FSLOADPOST 2021:09:21:17:21:31 mri_surf2surf N 12 25.76 32.74 30.32 #-------------------------------------------- #@# Qdec Cache surf2surf lh area fwhm5 fsaverage Tue Sep 21 17:21:31 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.area.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:31 mri_surf2surf N 12 e 2.52 S 0.19 U 2.32 P 99% M 408828 F 0 R 85704 W 0 c 11 w 58 I 0 O 1312 L 25.76 32.74 30.32 @#@FSLOADPOST 2021:09:21:17:21:33 mri_surf2surf N 12 25.76 32.74 30.32 #-------------------------------------------- #@# Qdec Cache surf2surf lh area fwhm10 fsaverage Tue Sep 21 17:21:33 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.area.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:33 mri_surf2surf N 12 e 2.63 S 0.19 U 2.42 P 99% M 408832 F 0 R 87011 W 0 c 12 w 58 I 0 O 1312 L 25.76 32.74 30.32 @#@FSLOADPOST 2021:09:21:17:21:36 mri_surf2surf N 12 25.46 32.56 30.27 #-------------------------------------------- #@# Qdec Cache surf2surf lh area fwhm15 fsaverage Tue Sep 21 17:21:36 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.area.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:36 mri_surf2surf N 12 e 2.70 S 0.19 U 2.47 P 98% M 408828 F 0 R 86170 W 0 c 6 w 58 I 0 O 1312 L 25.46 32.56 30.27 @#@FSLOADPOST 2021:09:21:17:21:39 mri_surf2surf N 12 25.18 32.38 30.23 #-------------------------------------------- #@# Qdec Cache surf2surf lh area fwhm20 fsaverage Tue Sep 21 17:21:39 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.area.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:39 mri_surf2surf N 12 e 2.78 S 0.19 U 2.56 P 99% M 408828 F 0 R 86387 W 0 c 5 w 58 I 0 O 1312 L 25.18 32.38 30.23 @#@FSLOADPOST 2021:09:21:17:21:42 mri_surf2surf N 12 25.18 32.38 30.23 #-------------------------------------------- #@# Qdec Cache surf2surf lh area fwhm25 fsaverage Tue Sep 21 17:21:42 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.fsaverage.mgh --tval lh.area.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.area.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:42 mri_surf2surf N 12 e 3.11 S 0.19 U 2.90 P 99% M 408828 F 0 R 87182 W 0 c 7 w 59 I 0 O 1312 L 25.18 32.38 30.23 @#@FSLOADPOST 2021:09:21:17:21:45 mri_surf2surf N 12 24.93 32.21 30.18 #-------------------------------------------- #@# Qdec Cache surf2surf lh area.pial fwhm0 fsaverage Tue Sep 21 17:21:45 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.pial.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.area.pial.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:45 mri_surf2surf N 12 e 1.23 S 0.09 U 1.12 P 99% M 219932 F 0 R 32234 W 0 c 7 w 49 I 0 O 1312 L 24.93 32.21 30.18 @#@FSLOADPOST 2021:09:21:17:21:46 mri_surf2surf N 12 24.93 32.21 30.18 #-------------------------------------------- #@# Qdec Cache surf2surf lh area.pial fwhm5 fsaverage Tue Sep 21 17:21:46 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.pial.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.area.pial.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:47 mri_surf2surf N 12 e 2.39 S 0.19 U 2.15 P 98% M 408828 F 0 R 87029 W 0 c 4 w 58 I 0 O 1312 L 24.93 32.21 30.18 @#@FSLOADPOST 2021:09:21:17:21:49 mri_surf2surf N 12 24.45 31.99 30.12 #-------------------------------------------- #@# Qdec Cache surf2surf lh area.pial fwhm10 fsaverage Tue Sep 21 17:21:49 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.pial.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.area.pial.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:49 mri_surf2surf N 12 e 2.40 S 0.19 U 2.19 P 99% M 408828 F 0 R 87144 W 0 c 6 w 58 I 0 O 1312 L 24.45 31.99 30.12 @#@FSLOADPOST 2021:09:21:17:21:51 mri_surf2surf N 12 24.45 31.99 30.12 #-------------------------------------------- #@# Qdec Cache surf2surf lh area.pial fwhm15 fsaverage Tue Sep 21 17:21:51 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.pial.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.area.pial.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:51 mri_surf2surf N 12 e 2.59 S 0.17 U 2.40 P 99% M 408828 F 0 R 87356 W 0 c 7 w 58 I 0 O 1312 L 24.45 31.99 30.12 @#@FSLOADPOST 2021:09:21:17:21:54 mri_surf2surf N 12 23.93 31.76 30.06 #-------------------------------------------- #@# Qdec Cache surf2surf lh area.pial fwhm20 fsaverage Tue Sep 21 17:21:54 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.pial.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.area.pial.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:54 mri_surf2surf N 12 e 3.06 S 0.21 U 2.82 P 99% M 408828 F 0 R 86269 W 0 c 13 w 58 I 0 O 1312 L 23.93 31.76 30.06 @#@FSLOADPOST 2021:09:21:17:21:57 mri_surf2surf N 12 23.93 31.76 30.06 #-------------------------------------------- #@# Qdec Cache surf2surf lh area.pial fwhm25 fsaverage Tue Sep 21 17:21:57 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.area.pial.fsaverage.mgh --tval lh.area.pial.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.area.pial.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.area.pial.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:21:57 mri_surf2surf N 12 e 3.35 S 0.20 U 3.11 P 98% M 408828 F 0 R 87600 W 0 c 15 w 58 I 0 O 1312 L 23.93 31.76 30.06 @#@FSLOADPOST 2021:09:21:17:22:01 mri_surf2surf N 12 23.46 31.53 29.99 #-------------------------------------------- #@# Qdec Cache surf2surf lh volume fwhm0 fsaverage Tue Sep 21 17:22:01 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.volume.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.volume.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:01 mri_surf2surf N 12 e 1.23 S 0.09 U 1.12 P 98% M 219936 F 0 R 32110 W 0 c 8 w 50 I 0 O 1312 L 23.46 31.53 29.99 @#@FSLOADPOST 2021:09:21:17:22:02 mri_surf2surf N 12 23.46 31.53 29.99 #-------------------------------------------- #@# Qdec Cache surf2surf lh volume fwhm5 fsaverage Tue Sep 21 17:22:02 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.volume.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.volume.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:02 mri_surf2surf N 12 e 2.50 S 0.21 U 2.27 P 99% M 408832 F 0 R 86865 W 0 c 13 w 58 I 0 O 1312 L 23.46 31.53 29.99 @#@FSLOADPOST 2021:09:21:17:22:04 mri_surf2surf N 12 23.42 31.39 29.95 #-------------------------------------------- #@# Qdec Cache surf2surf lh volume fwhm10 fsaverage Tue Sep 21 17:22:04 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.volume.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.volume.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:05 mri_surf2surf N 12 e 2.65 S 0.20 U 2.42 P 98% M 408828 F 0 R 86215 W 0 c 16 w 58 I 0 O 1312 L 23.42 31.39 29.95 @#@FSLOADPOST 2021:09:21:17:22:07 mri_surf2surf N 12 23.42 31.39 29.95 #-------------------------------------------- #@# Qdec Cache surf2surf lh volume fwhm15 fsaverage Tue Sep 21 17:22:07 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.volume.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.volume.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:07 mri_surf2surf N 12 e 2.79 S 0.20 U 2.58 P 99% M 408828 F 0 R 87655 W 0 c 14 w 59 I 0 O 1312 L 23.42 31.39 29.95 @#@FSLOADPOST 2021:09:21:17:22:10 mri_surf2surf N 12 24.91 31.57 30.02 #-------------------------------------------- #@# Qdec Cache surf2surf lh volume fwhm20 fsaverage Tue Sep 21 17:22:10 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.volume.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.volume.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:10 mri_surf2surf N 12 e 2.89 S 0.19 U 2.68 P 99% M 408828 F 0 R 89608 W 0 c 6 w 60 I 0 O 1312 L 24.91 31.57 30.02 @#@FSLOADPOST 2021:09:21:17:22:13 mri_surf2surf N 12 24.91 31.57 30.02 #-------------------------------------------- #@# Qdec Cache surf2surf lh volume fwhm25 fsaverage Tue Sep 21 17:22:13 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.volume.fsaverage.mgh --tval lh.volume.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.volume.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.volume.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:13 mri_surf2surf N 12 e 3.30 S 0.18 U 3.09 P 99% M 408828 F 0 R 85964 W 0 c 16 w 61 I 0 O 1312 L 24.91 31.57 30.02 @#@FSLOADPOST 2021:09:21:17:22:16 mri_surf2surf N 12 26.20 31.72 30.08 #-------------------------------------------- #@# Qdec Cache surf2surf lh curv fwhm0 fsaverage Tue Sep 21 17:22:16 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.curv.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.curv.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:16 mri_surf2surf N 12 e 1.24 S 0.12 U 1.10 P 98% M 219936 F 0 R 32179 W 0 c 6 w 49 I 0 O 1312 L 26.20 31.72 30.08 @#@FSLOADPOST 2021:09:21:17:22:18 mri_surf2surf N 12 26.20 31.72 30.08 #-------------------------------------------- #@# Qdec Cache surf2surf lh curv fwhm5 fsaverage Tue Sep 21 17:22:18 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.curv.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.curv.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:18 mri_surf2surf N 12 e 2.46 S 0.18 U 2.27 P 99% M 408828 F 0 R 86327 W 0 c 13 w 58 I 0 O 1312 L 26.20 31.72 30.08 @#@FSLOADPOST 2021:09:21:17:22:20 mri_surf2surf N 12 27.38 31.88 30.14 #-------------------------------------------- #@# Qdec Cache surf2surf lh curv fwhm10 fsaverage Tue Sep 21 17:22:20 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.curv.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.curv.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:20 mri_surf2surf N 12 e 2.55 S 0.16 U 2.37 P 99% M 408828 F 0 R 86902 W 0 c 5 w 58 I 0 O 1312 L 27.38 31.88 30.14 @#@FSLOADPOST 2021:09:21:17:22:23 mri_surf2surf N 12 27.38 31.88 30.14 #-------------------------------------------- #@# Qdec Cache surf2surf lh curv fwhm15 fsaverage Tue Sep 21 17:22:23 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.curv.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.curv.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:23 mri_surf2surf N 12 e 2.62 S 0.19 U 2.41 P 99% M 408828 F 0 R 87235 W 0 c 7 w 58 I 0 O 1312 L 27.38 31.88 30.14 @#@FSLOADPOST 2021:09:21:17:22:26 mri_surf2surf N 12 28.39 32.01 30.19 #-------------------------------------------- #@# Qdec Cache surf2surf lh curv fwhm20 fsaverage Tue Sep 21 17:22:26 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.curv.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.curv.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:26 mri_surf2surf N 12 e 2.86 S 0.20 U 2.64 P 99% M 408832 F 0 R 86869 W 0 c 7 w 59 I 0 O 1312 L 28.39 32.01 30.19 @#@FSLOADPOST 2021:09:21:17:22:28 mri_surf2surf N 12 28.39 32.01 30.19 #-------------------------------------------- #@# Qdec Cache surf2surf lh curv fwhm25 fsaverage Tue Sep 21 17:22:28 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.curv.fsaverage.mgh --tval lh.curv.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.curv.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.curv.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:29 mri_surf2surf N 12 e 3.12 S 0.19 U 2.90 P 99% M 408828 F 0 R 88625 W 0 c 8 w 58 I 0 O 1312 L 28.39 32.01 30.19 @#@FSLOADPOST 2021:09:21:17:22:32 mri_surf2surf N 12 29.40 32.16 30.25 #-------------------------------------------- #@# Qdec Cache surf2surf lh sulc fwhm0 fsaverage Tue Sep 21 17:22:32 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.sulc.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.sulc.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:32 mri_surf2surf N 12 e 1.18 S 0.12 U 1.05 P 99% M 219928 F 0 R 31709 W 0 c 4 w 49 I 0 O 1312 L 29.40 32.16 30.25 @#@FSLOADPOST 2021:09:21:17:22:33 mri_surf2surf N 12 29.40 32.16 30.25 #-------------------------------------------- #@# Qdec Cache surf2surf lh sulc fwhm5 fsaverage Tue Sep 21 17:22:33 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.sulc.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.sulc.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:33 mri_surf2surf N 12 e 2.42 S 0.19 U 2.21 P 99% M 408828 F 0 R 88953 W 0 c 5 w 59 I 0 O 1312 L 29.40 32.16 30.25 @#@FSLOADPOST 2021:09:21:17:22:35 mri_surf2surf N 12 30.41 32.32 30.31 #-------------------------------------------- #@# Qdec Cache surf2surf lh sulc fwhm10 fsaverage Tue Sep 21 17:22:35 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.sulc.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.sulc.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:35 mri_surf2surf N 12 e 2.51 S 0.21 U 2.27 P 99% M 408828 F 0 R 87034 W 0 c 8 w 58 I 0 O 1312 L 30.41 32.32 30.31 @#@FSLOADPOST 2021:09:21:17:22:38 mri_surf2surf N 12 30.41 32.32 30.31 #-------------------------------------------- #@# Qdec Cache surf2surf lh sulc fwhm15 fsaverage Tue Sep 21 17:22:38 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.sulc.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.sulc.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:38 mri_surf2surf N 12 e 2.75 S 0.18 U 2.46 P 96% M 408828 F 0 R 86943 W 0 c 7 w 60 I 0 O 1312 L 30.41 32.32 30.31 @#@FSLOADPOST 2021:09:21:17:22:41 mri_surf2surf N 12 31.26 32.47 30.37 #-------------------------------------------- #@# Qdec Cache surf2surf lh sulc fwhm20 fsaverage Tue Sep 21 17:22:41 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.sulc.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.sulc.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:41 mri_surf2surf N 12 e 2.87 S 0.22 U 2.62 P 99% M 408828 F 0 R 87620 W 0 c 9 w 58 I 0 O 1312 L 31.26 32.47 30.37 @#@FSLOADPOST 2021:09:21:17:22:44 mri_surf2surf N 12 31.96 32.59 30.42 #-------------------------------------------- #@# Qdec Cache surf2surf lh sulc fwhm25 fsaverage Tue Sep 21 17:22:44 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.sulc.fsaverage.mgh --tval lh.sulc.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.sulc.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.sulc.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:44 mri_surf2surf N 12 e 3.09 S 0.21 U 2.86 P 99% M 408828 F 0 R 87273 W 0 c 9 w 58 I 0 O 1312 L 31.96 32.59 30.42 @#@FSLOADPOST 2021:09:21:17:22:47 mri_surf2surf N 12 31.96 32.59 30.42 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.K fwhm0 fsaverage Tue Sep 21 17:22:47 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.K.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.white.K.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:47 mri_surf2surf N 12 e 1.17 S 0.09 U 1.06 P 98% M 219932 F 0 R 31631 W 0 c 4 w 49 I 0 O 1312 L 31.96 32.59 30.42 @#@FSLOADPOST 2021:09:21:17:22:48 mri_surf2surf N 12 31.96 32.59 30.42 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.K fwhm5 fsaverage Tue Sep 21 17:22:48 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.K.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.white.K.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:48 mri_surf2surf N 12 e 2.47 S 0.20 U 2.25 P 98% M 408828 F 0 R 86709 W 0 c 13 w 58 I 0 O 1312 L 31.96 32.59 30.42 @#@FSLOADPOST 2021:09:21:17:22:51 mri_surf2surf N 12 32.60 32.72 30.47 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.K fwhm10 fsaverage Tue Sep 21 17:22:51 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.K.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.white.K.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:51 mri_surf2surf N 12 e 2.52 S 0.19 U 2.31 P 99% M 408828 F 0 R 89045 W 0 c 13 w 59 I 0 O 1312 L 32.60 32.72 30.47 @#@FSLOADPOST 2021:09:21:17:22:53 mri_surf2surf N 12 32.60 32.72 30.47 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.K fwhm15 fsaverage Tue Sep 21 17:22:53 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.K.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.white.K.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:53 mri_surf2surf N 12 e 2.67 S 0.21 U 2.44 P 99% M 408828 F 0 R 86049 W 0 c 5 w 58 I 0 O 1312 L 32.60 32.72 30.47 @#@FSLOADPOST 2021:09:21:17:22:56 mri_surf2surf N 12 33.12 32.82 30.52 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.K fwhm20 fsaverage Tue Sep 21 17:22:56 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.K.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.white.K.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:56 mri_surf2surf N 12 e 2.81 S 0.19 U 2.60 P 99% M 408828 F 0 R 87265 W 0 c 7 w 59 I 0 O 1312 L 33.12 32.82 30.52 @#@FSLOADPOST 2021:09:21:17:22:59 mri_surf2surf N 12 33.59 32.92 30.56 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.K fwhm25 fsaverage Tue Sep 21 17:22:59 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.K.fsaverage.mgh --tval lh.white.K.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.K.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.white.K.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:22:59 mri_surf2surf N 12 e 3.14 S 0.18 U 2.94 P 99% M 408828 F 0 R 87103 W 0 c 9 w 59 I 0 O 1312 L 33.59 32.92 30.56 @#@FSLOADPOST 2021:09:21:17:23:02 mri_surf2surf N 12 33.59 32.92 30.56 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.H fwhm0 fsaverage Tue Sep 21 17:23:02 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.H.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.white.H.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:02 mri_surf2surf N 12 e 1.18 S 0.10 U 1.07 P 98% M 219932 F 0 R 31731 W 0 c 3 w 49 I 0 O 1312 L 33.59 32.92 30.56 @#@FSLOADPOST 2021:09:21:17:23:03 mri_surf2surf N 12 33.59 32.92 30.56 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.H fwhm5 fsaverage Tue Sep 21 17:23:03 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.H.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.white.H.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:03 mri_surf2surf N 12 e 2.73 S 0.30 U 2.41 P 99% M 408828 F 0 R 81639 W 0 c 12 w 58 I 0 O 1312 L 33.59 32.92 30.56 @#@FSLOADPOST 2021:09:21:17:23:06 mri_surf2surf N 12 34.02 33.02 30.61 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.H fwhm10 fsaverage Tue Sep 21 17:23:06 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.H.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.white.H.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:06 mri_surf2surf N 12 e 2.53 S 0.17 U 2.34 P 99% M 408828 F 0 R 87147 W 0 c 13 w 57 I 0 O 1312 L 34.02 33.02 30.61 @#@FSLOADPOST 2021:09:21:17:23:09 mri_surf2surf N 12 34.50 33.14 30.66 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.H fwhm15 fsaverage Tue Sep 21 17:23:09 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.H.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.white.H.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:09 mri_surf2surf N 12 e 2.67 S 0.18 U 2.48 P 99% M 408828 F 0 R 87849 W 0 c 13 w 62 I 0 O 1312 L 34.50 33.14 30.66 @#@FSLOADPOST 2021:09:21:17:23:11 mri_surf2surf N 12 34.50 33.14 30.66 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.H fwhm20 fsaverage Tue Sep 21 17:23:12 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.H.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.white.H.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:12 mri_surf2surf N 12 e 2.89 S 0.19 U 2.68 P 99% M 408828 F 0 R 87695 W 0 c 15 w 60 I 0 O 1312 L 34.50 33.14 30.66 @#@FSLOADPOST 2021:09:21:17:23:14 mri_surf2surf N 12 34.94 33.25 30.71 #-------------------------------------------- #@# Qdec Cache surf2surf lh white.H fwhm25 fsaverage Tue Sep 21 17:23:14 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.white.H.fsaverage.mgh --tval lh.white.H.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.white.H.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.white.H.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:15 mri_surf2surf N 12 e 3.20 S 0.19 U 2.98 P 99% M 408832 F 0 R 86326 W 0 c 8 w 61 I 0 O 1312 L 34.94 33.25 30.71 @#@FSLOADPOST 2021:09:21:17:23:18 mri_surf2surf N 12 34.94 33.25 30.71 #-------------------------------------------- #@# Qdec Cache surf2surf lh jacobian_white fwhm0 fsaverage Tue Sep 21 17:23:18 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.jacobian_white.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.jacobian_white.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:18 mri_surf2surf N 12 e 1.16 S 0.10 U 1.05 P 98% M 219932 F 0 R 31418 W 0 c 4 w 50 I 0 O 1312 L 34.94 33.25 30.71 @#@FSLOADPOST 2021:09:21:17:23:19 mri_surf2surf N 12 35.27 33.35 30.75 #-------------------------------------------- #@# Qdec Cache surf2surf lh jacobian_white fwhm5 fsaverage Tue Sep 21 17:23:19 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.jacobian_white.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.jacobian_white.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:19 mri_surf2surf N 12 e 2.29 S 0.18 U 2.09 P 99% M 408828 F 0 R 87099 W 0 c 8 w 58 I 0 O 1312 L 35.27 33.35 30.75 @#@FSLOADPOST 2021:09:21:17:23:21 mri_surf2surf N 12 35.27 33.35 30.75 #-------------------------------------------- #@# Qdec Cache surf2surf lh jacobian_white fwhm10 fsaverage Tue Sep 21 17:23:21 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.jacobian_white.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.jacobian_white.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:21 mri_surf2surf N 12 e 2.37 S 0.19 U 2.16 P 99% M 408828 F 0 R 86761 W 0 c 5 w 58 I 0 O 1312 L 35.27 33.35 30.75 @#@FSLOADPOST 2021:09:21:17:23:24 mri_surf2surf N 12 35.64 33.46 30.80 #-------------------------------------------- #@# Qdec Cache surf2surf lh jacobian_white fwhm15 fsaverage Tue Sep 21 17:23:24 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.jacobian_white.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.jacobian_white.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:24 mri_surf2surf N 12 e 2.72 S 0.19 U 2.51 P 99% M 408828 F 0 R 87694 W 0 c 13 w 59 I 0 O 1312 L 35.64 33.46 30.80 @#@FSLOADPOST 2021:09:21:17:23:27 mri_surf2surf N 12 35.64 33.46 30.80 #-------------------------------------------- #@# Qdec Cache surf2surf lh jacobian_white fwhm20 fsaverage Tue Sep 21 17:23:27 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.jacobian_white.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.jacobian_white.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:27 mri_surf2surf N 12 e 2.92 S 0.19 U 2.71 P 99% M 408828 F 0 R 86921 W 0 c 15 w 58 I 0 O 1312 L 35.64 33.46 30.80 @#@FSLOADPOST 2021:09:21:17:23:30 mri_surf2surf N 12 35.99 33.57 30.85 #-------------------------------------------- #@# Qdec Cache surf2surf lh jacobian_white fwhm25 fsaverage Tue Sep 21 17:23:30 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.jacobian_white.fsaverage.mgh --tval lh.jacobian_white.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.jacobian_white.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.jacobian_white.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:30 mri_surf2surf N 12 e 3.18 S 0.19 U 2.94 P 98% M 408828 F 0 R 87150 W 0 c 15 w 58 I 0 O 1312 L 35.99 33.57 30.85 @#@FSLOADPOST 2021:09:21:17:23:33 mri_surf2surf N 12 35.99 33.57 30.85 #-------------------------------------------- #@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm0 fsaverage Tue Sep 21 17:23:33 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 0 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.w-g.pct.mgh.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to lh.w-g.pct.mgh.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:33 mri_surf2surf N 12 e 1.19 S 0.10 U 1.07 P 98% M 219932 F 0 R 32076 W 0 c 9 w 83 I 0 O 1312 L 35.99 33.57 30.85 @#@FSLOADPOST 2021:09:21:17:23:34 mri_surf2surf N 12 36.31 33.67 30.90 #-------------------------------------------- #@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm5 fsaverage Tue Sep 21 17:23:34 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 5 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.w-g.pct.mgh.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to lh.w-g.pct.mgh.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:34 mri_surf2surf N 12 e 2.45 S 0.17 U 2.23 P 98% M 408828 F 0 R 88007 W 0 c 12 w 57 I 0 O 1312 L 36.31 33.67 30.90 @#@FSLOADPOST 2021:09:21:17:23:37 mri_surf2surf N 12 36.31 33.67 30.90 #-------------------------------------------- #@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm10 fsaverage Tue Sep 21 17:23:37 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 10 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.w-g.pct.mgh.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to lh.w-g.pct.mgh.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:37 mri_surf2surf N 12 e 2.54 S 0.17 U 2.35 P 99% M 408828 F 0 R 88079 W 0 c 14 w 61 I 0 O 1312 L 36.31 33.67 30.90 @#@FSLOADPOST 2021:09:21:17:23:39 mri_surf2surf N 12 36.61 33.78 30.95 #-------------------------------------------- #@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm15 fsaverage Tue Sep 21 17:23:39 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 15 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.w-g.pct.mgh.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 165 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 165 Saving target data Saving to lh.w-g.pct.mgh.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:39 mri_surf2surf N 12 e 2.68 S 0.19 U 2.46 P 99% M 408832 F 0 R 87790 W 0 c 14 w 58 I 0 O 1312 L 36.61 33.78 30.95 @#@FSLOADPOST 2021:09:21:17:23:42 mri_surf2surf N 12 36.61 33.78 30.95 #-------------------------------------------- #@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm20 fsaverage Tue Sep 21 17:23:42 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 20 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.w-g.pct.mgh.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to lh.w-g.pct.mgh.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:42 mri_surf2surf N 12 e 2.91 S 0.20 U 2.68 P 99% M 408828 F 0 R 88111 W 0 c 15 w 57 I 0 O 1312 L 36.61 33.78 30.95 @#@FSLOADPOST 2021:09:21:17:23:45 mri_surf2surf N 12 36.88 33.88 31.00 #-------------------------------------------- #@# Qdec Cache surf2surf lh w-g.pct.mgh fwhm25 fsaverage Tue Sep 21 17:23:45 BST 2021 mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi lh --fwhm 25 --sval lh.w-g.pct.mgh.fsaverage.mgh --tval lh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = lh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = lh.w-g.pct.mgh.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/lh.sphere.reg Loading source data Reading source subject label mask lh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label lh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to lh.w-g.pct.mgh.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:45 mri_surf2surf N 12 e 3.18 S 0.20 U 2.95 P 99% M 408828 F 0 R 87163 W 0 c 16 w 58 I 0 O 1312 L 36.88 33.88 31.00 @#@FSLOADPOST 2021:09:21:17:23:48 mri_surf2surf N 12 36.88 33.88 31.00 #-------------------------------------------- #@# Qdec Cache surf2surf rh thickness fwhm0 fsaverage Tue Sep 21 17:23:48 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.thickness.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.thickness.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:48 mri_surf2surf N 12 e 1.21 S 0.12 U 1.07 P 98% M 219932 F 0 R 31471 W 0 c 5 w 51 I 0 O 1312 L 36.88 33.88 31.00 @#@FSLOADPOST 2021:09:21:17:23:49 mri_surf2surf N 12 37.21 34.00 31.05 #-------------------------------------------- #@# Qdec Cache surf2surf rh thickness fwhm5 fsaverage Tue Sep 21 17:23:49 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.thickness.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.thickness.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:49 mri_surf2surf N 12 e 2.45 S 0.18 U 2.24 P 99% M 408828 F 0 R 88855 W 0 c 13 w 60 I 0 O 1312 L 37.21 34.00 31.05 @#@FSLOADPOST 2021:09:21:17:23:52 mri_surf2surf N 12 37.21 34.00 31.05 #-------------------------------------------- #@# Qdec Cache surf2surf rh thickness fwhm10 fsaverage Tue Sep 21 17:23:52 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.thickness.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.thickness.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:52 mri_surf2surf N 12 e 2.53 S 0.19 U 2.31 P 99% M 408828 F 0 R 87054 W 0 c 11 w 58 I 0 O 1312 L 37.21 34.00 31.05 @#@FSLOADPOST 2021:09:21:17:23:55 mri_surf2surf N 12 37.35 34.08 31.10 #-------------------------------------------- #@# Qdec Cache surf2surf rh thickness fwhm15 fsaverage Tue Sep 21 17:23:55 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.thickness.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.thickness.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:55 mri_surf2surf N 12 e 2.58 S 0.19 U 2.37 P 99% M 408828 F 0 R 87386 W 0 c 7 w 58 I 0 O 1312 L 37.35 34.08 31.10 @#@FSLOADPOST 2021:09:21:17:23:57 mri_surf2surf N 12 37.35 34.08 31.10 #-------------------------------------------- #@# Qdec Cache surf2surf rh thickness fwhm20 fsaverage Tue Sep 21 17:23:57 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.thickness.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.thickness.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:23:57 mri_surf2surf N 12 e 2.96 S 0.19 U 2.68 P 97% M 408828 F 0 R 88211 W 0 c 15 w 59 I 0 O 1312 L 37.35 34.08 31.10 @#@FSLOADPOST 2021:09:21:17:24:00 mri_surf2surf N 12 37.41 34.15 31.13 #-------------------------------------------- #@# Qdec Cache surf2surf rh thickness fwhm25 fsaverage Tue Sep 21 17:24:00 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.thickness.fsaverage.mgh --tval rh.thickness.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.thickness.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.thickness.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.thickness.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:00 mri_surf2surf N 12 e 3.20 S 0.17 U 3.00 P 99% M 408828 F 0 R 89761 W 0 c 16 w 58 I 0 O 1312 L 37.41 34.15 31.13 @#@FSLOADPOST 2021:09:21:17:24:03 mri_surf2surf N 12 37.41 34.15 31.13 #-------------------------------------------- #@# Qdec Cache surf2surf rh area fwhm0 fsaverage Tue Sep 21 17:24:03 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.area.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:04 mri_surf2surf N 12 e 1.13 S 0.10 U 1.01 P 98% M 219932 F 0 R 31656 W 0 c 4 w 49 I 0 O 1312 L 37.41 34.15 31.13 @#@FSLOADPOST 2021:09:21:17:24:05 mri_surf2surf N 12 37.53 34.23 31.18 #-------------------------------------------- #@# Qdec Cache surf2surf rh area fwhm5 fsaverage Tue Sep 21 17:24:05 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.area.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:05 mri_surf2surf N 12 e 2.24 S 0.17 U 2.05 P 99% M 408828 F 0 R 72947 W 0 c 5 w 58 I 0 O 1312 L 37.53 34.23 31.18 @#@FSLOADPOST 2021:09:21:17:24:07 mri_surf2surf N 12 37.53 34.23 31.18 #-------------------------------------------- #@# Qdec Cache surf2surf rh area fwhm10 fsaverage Tue Sep 21 17:24:07 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.area.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:07 mri_surf2surf N 12 e 2.58 S 0.18 U 2.37 P 99% M 408828 F 0 R 86226 W 0 c 11 w 58 I 0 O 1312 L 37.53 34.23 31.18 @#@FSLOADPOST 2021:09:21:17:24:10 mri_surf2surf N 12 37.65 34.31 31.22 #-------------------------------------------- #@# Qdec Cache surf2surf rh area fwhm15 fsaverage Tue Sep 21 17:24:10 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.area.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:10 mri_surf2surf N 12 e 2.60 S 0.18 U 2.39 P 99% M 408828 F 0 R 87508 W 0 c 6 w 65 I 0 O 1312 L 37.65 34.31 31.22 @#@FSLOADPOST 2021:09:21:17:24:12 mri_surf2surf N 12 37.65 34.31 31.22 #-------------------------------------------- #@# Qdec Cache surf2surf rh area fwhm20 fsaverage Tue Sep 21 17:24:12 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.area.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:12 mri_surf2surf N 12 e 2.81 S 0.20 U 2.59 P 99% M 408828 F 0 R 87262 W 0 c 7 w 62 I 0 O 1312 L 37.65 34.31 31.22 @#@FSLOADPOST 2021:09:21:17:24:15 mri_surf2surf N 12 37.68 34.37 31.25 #-------------------------------------------- #@# Qdec Cache surf2surf rh area fwhm25 fsaverage Tue Sep 21 17:24:15 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.fsaverage.mgh --tval rh.area.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.area.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:15 mri_surf2surf N 12 e 3.06 S 0.19 U 2.79 P 97% M 408828 F 0 R 87173 W 0 c 8 w 60 I 0 O 1312 L 37.68 34.37 31.25 @#@FSLOADPOST 2021:09:21:17:24:18 mri_surf2surf N 12 37.68 34.37 31.25 #-------------------------------------------- #@# Qdec Cache surf2surf rh area.pial fwhm0 fsaverage Tue Sep 21 17:24:18 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.pial.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.area.pial.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:18 mri_surf2surf N 12 e 1.17 S 0.11 U 1.04 P 98% M 219932 F 0 R 32242 W 0 c 2 w 49 I 0 O 1312 L 37.68 34.37 31.25 @#@FSLOADPOST 2021:09:21:17:24:20 mri_surf2surf N 12 37.70 34.43 31.29 #-------------------------------------------- #@# Qdec Cache surf2surf rh area.pial fwhm5 fsaverage Tue Sep 21 17:24:20 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.pial.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.area.pial.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:20 mri_surf2surf N 12 e 2.47 S 0.18 U 2.27 P 99% M 408828 F 0 R 87107 W 0 c 9 w 57 I 0 O 1312 L 37.70 34.43 31.29 @#@FSLOADPOST 2021:09:21:17:24:22 mri_surf2surf N 12 37.70 34.43 31.29 #-------------------------------------------- #@# Qdec Cache surf2surf rh area.pial fwhm10 fsaverage Tue Sep 21 17:24:22 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.pial.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.area.pial.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:22 mri_surf2surf N 12 e 2.44 S 0.18 U 2.24 P 99% M 408828 F 0 R 87345 W 0 c 6 w 60 I 0 O 1312 L 37.70 34.43 31.29 @#@FSLOADPOST 2021:09:21:17:24:25 mri_surf2surf N 12 37.65 34.47 31.32 #-------------------------------------------- #@# Qdec Cache surf2surf rh area.pial fwhm15 fsaverage Tue Sep 21 17:24:25 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.pial.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.area.pial.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:25 mri_surf2surf N 12 e 2.48 S 0.18 U 2.28 P 99% M 408828 F 0 R 71957 W 0 c 7 w 58 I 0 O 1312 L 37.65 34.47 31.32 @#@FSLOADPOST 2021:09:21:17:24:27 mri_surf2surf N 12 37.65 34.47 31.32 #-------------------------------------------- #@# Qdec Cache surf2surf rh area.pial fwhm20 fsaverage Tue Sep 21 17:24:27 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.pial.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.area.pial.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:27 mri_surf2surf N 12 e 2.79 S 0.22 U 2.55 P 99% M 408832 F 0 R 87508 W 0 c 7 w 58 I 0 O 1312 L 37.65 34.47 31.32 @#@FSLOADPOST 2021:09:21:17:24:30 mri_surf2surf N 12 37.44 34.48 31.34 #-------------------------------------------- #@# Qdec Cache surf2surf rh area.pial fwhm25 fsaverage Tue Sep 21 17:24:30 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.area.pial.fsaverage.mgh --tval rh.area.pial.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.area.pial.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.area.pial.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.area.pial.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:30 mri_surf2surf N 12 e 3.06 S 0.17 U 2.87 P 99% M 408828 F 0 R 87201 W 0 c 6 w 58 I 0 O 1312 L 37.44 34.48 31.34 @#@FSLOADPOST 2021:09:21:17:24:33 mri_surf2surf N 12 37.44 34.48 31.34 #-------------------------------------------- #@# Qdec Cache surf2surf rh volume fwhm0 fsaverage Tue Sep 21 17:24:33 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.volume.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.volume.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:33 mri_surf2surf N 12 e 1.10 S 0.10 U 0.99 P 98% M 219932 F 0 R 32242 W 0 c 4 w 49 I 0 O 1312 L 37.44 34.48 31.34 @#@FSLOADPOST 2021:09:21:17:24:34 mri_surf2surf N 12 37.40 34.52 31.37 #-------------------------------------------- #@# Qdec Cache surf2surf rh volume fwhm5 fsaverage Tue Sep 21 17:24:34 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.volume.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.volume.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:34 mri_surf2surf N 12 e 2.22 S 0.19 U 2.01 P 98% M 408828 F 0 R 69551 W 0 c 4 w 59 I 0 O 1312 L 37.40 34.52 31.37 @#@FSLOADPOST 2021:09:21:17:24:37 mri_surf2surf N 12 37.40 34.52 31.37 #-------------------------------------------- #@# Qdec Cache surf2surf rh volume fwhm10 fsaverage Tue Sep 21 17:24:37 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.volume.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.volume.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:37 mri_surf2surf N 12 e 2.31 S 0.18 U 2.11 P 99% M 408828 F 0 R 69634 W 0 c 10 w 61 I 0 O 1312 L 37.40 34.52 31.37 @#@FSLOADPOST 2021:09:21:17:24:39 mri_surf2surf N 12 37.45 34.58 31.41 #-------------------------------------------- #@# Qdec Cache surf2surf rh volume fwhm15 fsaverage Tue Sep 21 17:24:39 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.volume.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.volume.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:39 mri_surf2surf N 12 e 2.45 S 0.18 U 2.24 P 98% M 408828 F 0 R 70980 W 0 c 6 w 58 I 0 O 1312 L 37.45 34.58 31.41 @#@FSLOADPOST 2021:09:21:17:24:41 mri_surf2surf N 12 37.45 34.58 31.41 #-------------------------------------------- #@# Qdec Cache surf2surf rh volume fwhm20 fsaverage Tue Sep 21 17:24:41 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.volume.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.volume.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:42 mri_surf2surf N 12 e 2.74 S 0.20 U 2.52 P 99% M 408828 F 0 R 88679 W 0 c 6 w 59 I 0 O 1312 L 37.45 34.58 31.41 @#@FSLOADPOST 2021:09:21:17:24:44 mri_surf2surf N 12 37.41 34.62 31.44 #-------------------------------------------- #@# Qdec Cache surf2surf rh volume fwhm25 fsaverage Tue Sep 21 17:24:44 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.volume.fsaverage.mgh --tval rh.volume.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.volume.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.volume.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.volume.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:44 mri_surf2surf N 12 e 3.02 S 0.21 U 2.80 P 99% M 408828 F 0 R 87137 W 0 c 7 w 58 I 0 O 1312 L 37.41 34.62 31.44 @#@FSLOADPOST 2021:09:21:17:24:47 mri_surf2surf N 12 37.41 34.62 31.44 #-------------------------------------------- #@# Qdec Cache surf2surf rh curv fwhm0 fsaverage Tue Sep 21 17:24:47 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.curv.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.curv.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:47 mri_surf2surf N 12 e 1.14 S 0.10 U 1.03 P 98% M 219932 F 0 R 31731 W 0 c 4 w 50 I 0 O 1312 L 37.41 34.62 31.44 @#@FSLOADPOST 2021:09:21:17:24:49 mri_surf2surf N 12 37.41 34.62 31.44 #-------------------------------------------- #@# Qdec Cache surf2surf rh curv fwhm5 fsaverage Tue Sep 21 17:24:49 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.curv.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.curv.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:49 mri_surf2surf N 12 e 2.47 S 0.20 U 2.20 P 97% M 408828 F 0 R 87178 W 0 c 12 w 60 I 0 O 1312 L 37.41 34.62 31.44 @#@FSLOADPOST 2021:09:21:17:24:51 mri_surf2surf N 12 37.38 34.66 31.47 #-------------------------------------------- #@# Qdec Cache surf2surf rh curv fwhm10 fsaverage Tue Sep 21 17:24:51 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.curv.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.curv.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:51 mri_surf2surf N 12 e 2.47 S 0.18 U 2.26 P 99% M 408828 F 0 R 88760 W 0 c 7 w 59 I 0 O 1312 L 37.38 34.66 31.47 @#@FSLOADPOST 2021:09:21:17:24:54 mri_surf2surf N 12 37.38 34.66 31.47 #-------------------------------------------- #@# Qdec Cache surf2surf rh curv fwhm15 fsaverage Tue Sep 21 17:24:54 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.curv.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.curv.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:54 mri_surf2surf N 12 e 2.67 S 0.20 U 2.45 P 99% M 408828 F 0 R 88694 W 0 c 13 w 58 I 0 O 1312 L 37.51 34.73 31.51 @#@FSLOADPOST 2021:09:21:17:24:56 mri_surf2surf N 12 37.51 34.73 31.51 #-------------------------------------------- #@# Qdec Cache surf2surf rh curv fwhm20 fsaverage Tue Sep 21 17:24:56 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.curv.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.curv.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:56 mri_surf2surf N 12 e 2.92 S 0.18 U 2.71 P 99% M 408832 F 0 R 86975 W 0 c 14 w 58 I 0 O 1312 L 37.51 34.73 31.51 @#@FSLOADPOST 2021:09:21:17:24:59 mri_surf2surf N 12 37.47 34.77 31.54 #-------------------------------------------- #@# Qdec Cache surf2surf rh curv fwhm25 fsaverage Tue Sep 21 17:24:59 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.curv.fsaverage.mgh --tval rh.curv.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.curv.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.curv.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.curv.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:24:59 mri_surf2surf N 12 e 3.09 S 0.18 U 2.88 P 99% M 408832 F 0 R 87435 W 0 c 6 w 59 I 0 O 1312 L 37.47 34.77 31.54 @#@FSLOADPOST 2021:09:21:17:25:03 mri_surf2surf N 12 37.47 34.77 31.54 #-------------------------------------------- #@# Qdec Cache surf2surf rh sulc fwhm0 fsaverage Tue Sep 21 17:25:03 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.sulc.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.sulc.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:03 mri_surf2surf N 12 e 1.16 S 0.10 U 1.04 P 98% M 219932 F 0 R 31613 W 0 c 3 w 50 I 0 O 1312 L 37.47 34.77 31.54 @#@FSLOADPOST 2021:09:21:17:25:04 mri_surf2surf N 12 37.43 34.81 31.57 #-------------------------------------------- #@# Qdec Cache surf2surf rh sulc fwhm5 fsaverage Tue Sep 21 17:25:04 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.sulc.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.sulc.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:04 mri_surf2surf N 12 e 2.44 S 0.20 U 2.21 P 99% M 408828 F 0 R 88266 W 0 c 15 w 58 I 0 O 1312 L 37.43 34.81 31.57 @#@FSLOADPOST 2021:09:21:17:25:06 mri_surf2surf N 12 37.43 34.81 31.57 #-------------------------------------------- #@# Qdec Cache surf2surf rh sulc fwhm10 fsaverage Tue Sep 21 17:25:06 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.sulc.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.sulc.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:06 mri_surf2surf N 12 e 2.45 S 0.20 U 2.23 P 99% M 408828 F 0 R 87339 W 0 c 13 w 59 I 0 O 1312 L 37.43 34.81 31.57 @#@FSLOADPOST 2021:09:21:17:25:09 mri_surf2surf N 12 37.32 34.83 31.59 #-------------------------------------------- #@# Qdec Cache surf2surf rh sulc fwhm15 fsaverage Tue Sep 21 17:25:09 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.sulc.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.sulc.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:09 mri_surf2surf N 12 e 2.66 S 0.21 U 2.43 P 99% M 408828 F 0 R 87136 W 0 c 13 w 64 I 0 O 1312 L 37.32 34.83 31.59 @#@FSLOADPOST 2021:09:21:17:25:12 mri_surf2surf N 12 37.32 34.83 31.59 #-------------------------------------------- #@# Qdec Cache surf2surf rh sulc fwhm20 fsaverage Tue Sep 21 17:25:12 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.sulc.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.sulc.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:12 mri_surf2surf N 12 e 2.91 S 0.18 U 2.71 P 99% M 408828 F 0 R 86774 W 0 c 12 w 61 I 0 O 1312 L 37.32 34.83 31.59 @#@FSLOADPOST 2021:09:21:17:25:15 mri_surf2surf N 12 37.13 34.83 31.61 #-------------------------------------------- #@# Qdec Cache surf2surf rh sulc fwhm25 fsaverage Tue Sep 21 17:25:15 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.sulc.fsaverage.mgh --tval rh.sulc.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.sulc.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.sulc.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.sulc.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:15 mri_surf2surf N 12 e 3.15 S 0.19 U 2.92 P 98% M 408828 F 0 R 86172 W 0 c 10 w 61 I 0 O 1312 L 37.13 34.83 31.61 @#@FSLOADPOST 2021:09:21:17:25:18 mri_surf2surf N 12 37.13 34.83 31.61 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.K fwhm0 fsaverage Tue Sep 21 17:25:18 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.K.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.white.K.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:18 mri_surf2surf N 12 e 1.16 S 0.09 U 1.05 P 98% M 219932 F 0 R 32192 W 0 c 5 w 49 I 0 O 1312 L 37.13 34.83 31.61 @#@FSLOADPOST 2021:09:21:17:25:19 mri_surf2surf N 12 37.04 34.85 31.63 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.K fwhm5 fsaverage Tue Sep 21 17:25:19 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.K.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.white.K.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:19 mri_surf2surf N 12 e 2.44 S 0.18 U 2.22 P 98% M 408828 F 0 R 86880 W 0 c 6 w 58 I 0 O 1312 L 37.04 34.85 31.63 @#@FSLOADPOST 2021:09:21:17:25:21 mri_surf2surf N 12 37.04 34.85 31.63 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.K fwhm10 fsaverage Tue Sep 21 17:25:21 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.K.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.white.K.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:22 mri_surf2surf N 12 e 2.47 S 0.19 U 2.26 P 99% M 408828 F 0 R 87695 W 0 c 7 w 58 I 0 O 1312 L 37.04 34.85 31.63 @#@FSLOADPOST 2021:09:21:17:25:24 mri_surf2surf N 12 36.96 34.87 31.65 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.K fwhm15 fsaverage Tue Sep 21 17:25:24 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.K.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.white.K.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:24 mri_surf2surf N 12 e 2.59 S 0.18 U 2.38 P 99% M 408832 F 0 R 87451 W 0 c 8 w 58 I 0 O 1312 L 36.96 34.87 31.65 @#@FSLOADPOST 2021:09:21:17:25:27 mri_surf2surf N 12 36.96 34.87 31.65 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.K fwhm20 fsaverage Tue Sep 21 17:25:27 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.K.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.white.K.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:27 mri_surf2surf N 12 e 2.82 S 0.20 U 2.59 P 99% M 408828 F 0 R 87697 W 0 c 10 w 58 I 0 O 1312 L 36.96 34.87 31.65 @#@FSLOADPOST 2021:09:21:17:25:30 mri_surf2surf N 12 36.96 34.90 31.68 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.K fwhm25 fsaverage Tue Sep 21 17:25:30 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.K.fsaverage.mgh --tval rh.white.K.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.K.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.K.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.white.K.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:30 mri_surf2surf N 12 e 3.18 S 0.19 U 2.97 P 99% M 408828 F 0 R 87158 W 0 c 13 w 58 I 0 O 1312 L 36.96 34.90 31.68 @#@FSLOADPOST 2021:09:21:17:25:33 mri_surf2surf N 12 36.96 34.90 31.68 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.H fwhm0 fsaverage Tue Sep 21 17:25:33 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.H.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.white.H.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:33 mri_surf2surf N 12 e 1.16 S 0.11 U 1.04 P 98% M 219932 F 0 R 31731 W 0 c 6 w 49 I 0 O 1312 L 36.96 34.90 31.68 @#@FSLOADPOST 2021:09:21:17:25:34 mri_surf2surf N 12 36.96 34.94 31.71 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.H fwhm5 fsaverage Tue Sep 21 17:25:34 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.H.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.white.H.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:34 mri_surf2surf N 12 e 2.33 S 0.19 U 2.12 P 99% M 408828 F 0 R 86988 W 0 c 8 w 58 I 0 O 1312 L 36.96 34.94 31.71 @#@FSLOADPOST 2021:09:21:17:25:36 mri_surf2surf N 12 36.96 34.94 31.71 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.H fwhm10 fsaverage Tue Sep 21 17:25:36 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.H.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.white.H.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:37 mri_surf2surf N 12 e 2.45 S 0.17 U 2.26 P 99% M 408828 F 0 R 88360 W 0 c 9 w 59 I 0 O 1312 L 36.96 34.94 31.71 @#@FSLOADPOST 2021:09:21:17:25:39 mri_surf2surf N 12 36.81 34.94 31.73 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.H fwhm15 fsaverage Tue Sep 21 17:25:39 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.H.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.white.H.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:39 mri_surf2surf N 12 e 2.65 S 0.20 U 2.43 P 99% M 408828 F 0 R 87596 W 0 c 11 w 58 I 0 O 1312 L 36.81 34.94 31.73 @#@FSLOADPOST 2021:09:21:17:25:42 mri_surf2surf N 12 36.81 34.94 31.73 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.H fwhm20 fsaverage Tue Sep 21 17:25:42 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.H.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.white.H.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:42 mri_surf2surf N 12 e 2.81 S 0.18 U 2.61 P 99% M 408828 F 0 R 87194 W 0 c 13 w 58 I 0 O 1312 L 36.81 34.94 31.73 @#@FSLOADPOST 2021:09:21:17:25:45 mri_surf2surf N 12 36.82 34.97 31.76 #-------------------------------------------- #@# Qdec Cache surf2surf rh white.H fwhm25 fsaverage Tue Sep 21 17:25:45 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.white.H.fsaverage.mgh --tval rh.white.H.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.white.H.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.white.H.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.white.H.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:45 mri_surf2surf N 12 e 3.15 S 0.21 U 2.89 P 98% M 408828 F 0 R 87225 W 0 c 11 w 58 I 0 O 1312 L 36.82 34.97 31.76 @#@FSLOADPOST 2021:09:21:17:25:48 mri_surf2surf N 12 36.82 34.97 31.76 #-------------------------------------------- #@# Qdec Cache surf2surf rh jacobian_white fwhm0 fsaverage Tue Sep 21 17:25:48 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.jacobian_white.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.jacobian_white.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:48 mri_surf2surf N 12 e 1.16 S 0.10 U 1.05 P 99% M 219932 F 0 R 31544 W 0 c 6 w 49 I 0 O 1312 L 36.82 34.97 31.76 @#@FSLOADPOST 2021:09:21:17:25:49 mri_surf2surf N 12 36.84 35.01 31.79 #-------------------------------------------- #@# Qdec Cache surf2surf rh jacobian_white fwhm5 fsaverage Tue Sep 21 17:25:49 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.jacobian_white.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.jacobian_white.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:49 mri_surf2surf N 12 e 2.35 S 0.18 U 2.15 P 99% M 408832 F 0 R 87024 W 0 c 11 w 61 I 0 O 1312 L 36.84 35.01 31.79 @#@FSLOADPOST 2021:09:21:17:25:51 mri_surf2surf N 12 36.84 35.01 31.79 #-------------------------------------------- #@# Qdec Cache surf2surf rh jacobian_white fwhm10 fsaverage Tue Sep 21 17:25:51 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.jacobian_white.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.jacobian_white.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:52 mri_surf2surf N 12 e 2.47 S 0.19 U 2.25 P 98% M 408828 F 0 R 88364 W 0 c 10 w 60 I 0 O 1312 L 36.84 35.01 31.79 @#@FSLOADPOST 2021:09:21:17:25:54 mri_surf2surf N 12 36.93 35.06 31.82 #-------------------------------------------- #@# Qdec Cache surf2surf rh jacobian_white fwhm15 fsaverage Tue Sep 21 17:25:54 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.jacobian_white.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.jacobian_white.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:54 mri_surf2surf N 12 e 2.65 S 0.17 U 2.46 P 99% M 408828 F 0 R 87175 W 0 c 11 w 58 I 0 O 1312 L 36.93 35.06 31.82 @#@FSLOADPOST 2021:09:21:17:25:57 mri_surf2surf N 12 36.93 35.06 31.82 #-------------------------------------------- #@# Qdec Cache surf2surf rh jacobian_white fwhm20 fsaverage Tue Sep 21 17:25:57 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.jacobian_white.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.jacobian_white.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:25:57 mri_surf2surf N 12 e 2.93 S 0.20 U 2.70 P 99% M 408828 F 0 R 88154 W 0 c 12 w 58 I 0 O 1312 L 36.93 35.06 31.82 @#@FSLOADPOST 2021:09:21:17:26:00 mri_surf2surf N 12 36.69 35.04 31.83 #-------------------------------------------- #@# Qdec Cache surf2surf rh jacobian_white fwhm25 fsaverage Tue Sep 21 17:26:00 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.jacobian_white.fsaverage.mgh --tval rh.jacobian_white.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.jacobian_white.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.jacobian_white.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.jacobian_white.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:26:00 mri_surf2surf N 12 e 3.10 S 0.18 U 2.90 P 99% M 408828 F 0 R 86240 W 0 c 10 w 59 I 0 O 1312 L 36.69 35.04 31.83 @#@FSLOADPOST 2021:09:21:17:26:03 mri_surf2surf N 12 36.69 35.04 31.83 #-------------------------------------------- #@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm0 fsaverage Tue Sep 21 17:26:03 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 0 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm0.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.w-g.pct.mgh.fwhm0.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Reading target space mask label rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 Saving target data Saving to rh.w-g.pct.mgh.fwhm0.fsaverage.mgh @#@FSTIME 2021:09:21:17:26:03 mri_surf2surf N 12 e 1.14 S 0.11 U 1.02 P 98% M 219932 F 0 R 31731 W 0 c 7 w 50 I 0 O 1312 L 36.69 35.04 31.83 @#@FSLOADPOST 2021:09:21:17:26:04 mri_surf2surf N 12 36.48 35.02 31.84 #-------------------------------------------- #@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm5 fsaverage Tue Sep 21 17:26:04 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 5 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm5.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.w-g.pct.mgh.fwhm5.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 5 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 5.000000, std = 2.123305, with 18 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 18 Saving target data Saving to rh.w-g.pct.mgh.fwhm5.fsaverage.mgh @#@FSTIME 2021:09:21:17:26:04 mri_surf2surf N 12 e 2.38 S 0.17 U 2.18 P 99% M 408828 F 0 R 86713 W 0 c 9 w 58 I 0 O 1312 L 36.48 35.02 31.84 @#@FSLOADPOST 2021:09:21:17:26:07 mri_surf2surf N 12 36.48 35.02 31.84 #-------------------------------------------- #@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm10 fsaverage Tue Sep 21 17:26:07 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 10 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm10.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.w-g.pct.mgh.fwhm10.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 74 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 74 Saving target data Saving to rh.w-g.pct.mgh.fwhm10.fsaverage.mgh @#@FSTIME 2021:09:21:17:26:07 mri_surf2surf N 12 e 2.45 S 0.19 U 2.21 P 98% M 408832 F 0 R 87353 W 0 c 8 w 58 I 0 O 1312 L 36.48 35.02 31.84 @#@FSLOADPOST 2021:09:21:17:26:09 mri_surf2surf N 12 36.04 34.96 31.84 #-------------------------------------------- #@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm15 fsaverage Tue Sep 21 17:26:09 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 15 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm15.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.w-g.pct.mgh.fwhm15.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 15 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 15.000000, std = 6.369914, with 166 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 166 Saving target data Saving to rh.w-g.pct.mgh.fwhm15.fsaverage.mgh @#@FSTIME 2021:09:21:17:26:09 mri_surf2surf N 12 e 2.60 S 0.21 U 2.37 P 99% M 408828 F 0 R 86328 W 0 c 12 w 64 I 0 O 1312 L 36.04 34.96 31.84 @#@FSLOADPOST 2021:09:21:17:26:12 mri_surf2surf N 12 36.04 34.96 31.84 #-------------------------------------------- #@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm20 fsaverage Tue Sep 21 17:26:12 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 20 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm20.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.w-g.pct.mgh.fwhm20.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 20 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 20.000000, std = 8.493218, with 294 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 294 Saving target data Saving to rh.w-g.pct.mgh.fwhm20.fsaverage.mgh @#@FSTIME 2021:09:21:17:26:12 mri_surf2surf N 12 e 2.72 S 0.19 U 2.50 P 99% M 408828 F 0 R 78989 W 0 c 10 w 60 I 0 O 1312 L 36.04 34.96 31.84 @#@FSLOADPOST 2021:09:21:17:26:15 mri_surf2surf N 12 35.80 34.92 31.84 #-------------------------------------------- #@# Qdec Cache surf2surf rh w-g.pct.mgh fwhm25 fsaverage Tue Sep 21 17:26:15 BST 2021 mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex 7.1.0 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/surf mri_surf2surf --prune --s fsaverage --hemi rh --fwhm 25 --sval rh.w-g.pct.mgh.fsaverage.mgh --tval rh.w-g.pct.mgh.fwhm25.fsaverage.mgh --cortex sysname Linux hostname cpu-e-183 machine x86_64 user mp2011 srcsubject = fsaverage srcval = rh.w-g.pct.mgh.fsaverage.mgh srctype = trgsubject = fsaverage trgval = rh.w-g.pct.mgh.fwhm25.fsaverage.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 25 label-src = rh.cortex.label label-trg = rh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/fsaverage/surf/rh.sphere.reg Loading source data Reading source subject label mask rh.cortex.label masking the input MRImask(): AllowDiffGeom = 0 INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 25.000000, std = 10.616523, with 460 iterations of nearest-neighbor smoothing Reading target space mask label rh.cortex.label Pruning output smoothing mask by thr: 1.175494e-38 NN smoothing output with n = 460 Saving target data Saving to rh.w-g.pct.mgh.fwhm25.fsaverage.mgh @#@FSTIME 2021:09:21:17:26:15 mri_surf2surf N 12 e 3.16 S 0.17 U 2.97 P 99% M 408828 F 0 R 86986 W 0 c 11 w 60 I 0 O 1312 L 35.80 34.92 31.84 @#@FSLOADPOST 2021:09:21:17:26:18 mri_surf2surf N 12 35.80 34.92 31.84 Started at Tue Sep 21 11:18:47 BST 2021 Ended at Tue Sep 21 17:26:18 BST 2021 #@#%# recon-all-run-time-hours 6.125 recon-all -s 32004 finished without error at Tue Sep 21 17:26:18 BST 2021 #New# invocation of recon-all Thu Oct 7 13:38:45 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 /usr/local/software/freesurfer/7.1.0/bin/recon-all -all -subjid 32004 subjid 32004 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Actual FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 build-stamp.txt: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b Linux cpu-e-1124 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize unlimited coredumpsize 0 kbytes memoryuse 12247040 kbytes vmemoryuse unlimited descriptors 1024 memorylocked unlimited maxproc 4096 maxlocks unlimited maxsignal 767359 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 187G 7.8G 172G 66M 7.2G 178G Swap: 15G 0B 15G ######################################## 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: 2021/10/07-12:38:45-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:45-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:46-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:47-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:48-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:49-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:50-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/07-12:38:51-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-1124 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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/software/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/software/freesurfer/7.1.0/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# MotionCor Thu Oct 7 13:38:52 BST 2021 Found 1 runs /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig/001.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 mri_convert /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz --conform mri_convert /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz --conform reading from /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/rawavg.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -0, 0) j_ras = (-0, 1, 0) k_ras = (0, -0, 1) changing data type from float to uchar (noscale = 0)... MRIchangeType: Building histogram 0 754631 1000, flo=0, fhi=0.999, dest_type=0 Reslicing using trilinear interpolation writing to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz... @#@FSTIME 2021:10:07:13:39:02 mri_convert N 3 e 5.16 S 0.04 U 5.07 P 99% M 116484 F 0 R 7717 W 0 c 31 w 27 I 8 O 8952 L 18.23 18.14 18.77 @#@FSLOADPOST 2021:10:07:13:39:07 mri_convert N 3 18.35 18.17 18.77 mri_add_xform_to_header -c /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach.xfm /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/orig.mgz INFO: extension is mgz @#@FSTIME 2021:10:07:13:39:07 mri_add_xform_to_header N 4 e 0.57 S 0.01 U 0.48 P 86% M 19696 F 1 R 1457 W 0 c 9 w 28 I 5736 O 8952 L 18.35 18.17 18.77 @#@FSLOADPOST 2021:10:07:13:39:08 mri_add_xform_to_header N 4 18.35 18.17 18.77 #-------------------------------------------- #@# Talairach Thu Oct 7 13:39:08 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri /usr/local/software/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 cpu-e-1124 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux Thu Oct 7 13:39:08 BST 2021 Found /dev/shm , will use for temp dir tmpdir is /dev/shm/tmp.mri_nu_correct.mni.218487 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o /dev/shm/tmp.mri_nu_correct.mni.218487/nu0.mgz Using shrink factor: 4 mri_convert /dev/shm/tmp.mri_nu_correct.mni.218487/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert /dev/shm/tmp.mri_nu_correct.mni.218487/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from /dev/shm/tmp.mri_nu_correct.mni.218487/nu0.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Thu Oct 7 13:42:21 BST 2021 mri_nu_correct.mni done @#@FSTIME 2021:10:07:13:39:08 mri_nu_correct.mni N 12 e 193.52 S 0.21 U 192.70 P 99% M 486320 F 1 R 59077 W 0 c 1200 w 418 I 7120 O 8848 L 18.35 18.17 18.77 @#@FSLOADPOST 2021:10:07:13:42:21 mri_nu_correct.mni N 12 19.04 18.58 18.81 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... Started at Thu Oct 7 13:42:22 BST 2021 Ended at Thu Oct 7 13:42:47 BST 2021 talairach_avi done @#@FSTIME 2021:10:07:13:42:21 talairach_avi N 4 e 25.09 S 0.85 U 16.52 P 69% M 253968 F 5 R 37119 W 0 c 193 w 1000 I 269992 O 295232 L 19.04 18.58 18.81 @#@FSLOADPOST 2021:10:07:13:42:47 talairach_avi N 4 18.96 18.59 18.81 INFO: transforms/talairach.xfm already exists! The new transforms/talairach.auto.xfm will not be copied to transforms/talairach.xfm This is done to retain any edits made to transforms/talairach.xfm Add the -clean-tal flag to recon-all to overwrite transforms/talairach.xfm #-------------------------------------------- #@# Talairach Failure Detection Thu Oct 7 13:42:47 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7473, pval=0.6675 >= threshold=0.0050) @#@FSTIME 2021:10:07:13:42:47 talairach_afd N 4 e 0.16 S 0.00 U 0.00 P 2% M 2184 F 1 R 649 W 0 c 2 w 37 I 5824 O 0 L 18.96 18.59 18.81 @#@FSLOADPOST 2021:10:07:13:42:47 talairach_afd N 4 18.96 18.59 18.81 awk -f /usr/local/software/freesurfer/7.1.0/bin/extract_talairach_avi_QA.awk /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach_avi.log tal_QC_AZS /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach_avi.log TalAviQA: 0.96288 z-score: -3 #-------------------------------------------- #@# Nu Intensity Correction Thu Oct 7 13:42:47 BST 2021 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 --ants-n4 /usr/bin/bc /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri /usr/local/software/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 cpu-e-1124 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux Thu Oct 7 13:42:47 BST 2021 Found /dev/shm , will use for temp dir tmpdir is /dev/shm/tmp.mri_nu_correct.mni.218805 cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz Using shrink factor: 4 mri_binarize --i /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz --min -1 --o /dev/shm/tmp.mri_nu_correct.mni.218805/ones.mgz 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri cmdline mri_binarize --i /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz --min -1 --o /dev/shm/tmp.mri_nu_correct.mni.218805/ones.mgz sysname Linux hostname cpu-e-1124 machine x86_64 user mp2011 input /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz frame 0 nErode3d 0 nErode2d 0 output /dev/shm/tmp.mri_nu_correct.mni.218805/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.218805/ones.mgz --i orig.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.218805/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.218805/input.mean.dat 7.1.0 cwd cmdline mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.218805/ones.mgz --i orig.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.218805/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.218805/input.mean.dat sysname Linux hostname cpu-e-1124 machine x86_64 user mp2011 whitesurfname white UseRobust 0 Loading /dev/shm/tmp.mri_nu_correct.mni.218805/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.218805/input.mean.dat mri_segstats done mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.218805/ones.mgz --i /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.218805/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.218805/output.mean.dat 7.1.0 cwd cmdline mri_segstats --id 1 --seg /dev/shm/tmp.mri_nu_correct.mni.218805/ones.mgz --i /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz --sum /dev/shm/tmp.mri_nu_correct.mni.218805/sum.junk --avgwf /dev/shm/tmp.mri_nu_correct.mni.218805/output.mean.dat sysname Linux hostname cpu-e-1124 machine x86_64 user mp2011 whitesurfname white UseRobust 0 Loading /dev/shm/tmp.mri_nu_correct.mni.218805/ones.mgz Loading /dev/shm/tmp.mri_nu_correct.mni.218805/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.218805/output.mean.dat mri_segstats done mris_calc -o /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz mul 1.05904077542500963407 Saving result to '/dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz' (type = MGH ) [ ok ] mri_convert /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz nu.mgz --like orig.mgz mri_convert /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz nu.mgz --like orig.mgz reading from /dev/shm/tmp.mri_nu_correct.mni.218805/nu0.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) 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 (15, 129) to ( 3, 110) Thu Oct 7 13:46:23 BST 2021 mri_nu_correct.mni done @#@FSTIME 2021:10:07:13:42:47 mri_nu_correct.mni N 9 e 216.25 S 0.73 U 214.82 P 99% M 610272 F 1 R 225194 W 0 c 1314 w 825 I 5088 O 21888 L 18.96 18.59 18.81 @#@FSLOADPOST 2021:10:07:13:46:23 mri_nu_correct.mni N 9 19.00 18.81 18.86 mri_add_xform_to_header -c /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/talairach.xfm nu.mgz nu.mgz INFO: extension is mgz @#@FSTIME 2021:10:07:13:46:23 mri_add_xform_to_header N 4 e 0.51 S 0.01 U 0.49 P 98% M 19784 F 0 R 1492 W 0 c 4 w 45 I 0 O 7712 L 19.00 18.81 18.86 @#@FSLOADPOST 2021:10:07:13:46:24 mri_add_xform_to_header N 4 19.00 18.81 18.86 #-------------------------------------------- #@# Intensity Normalization Thu Oct 7 13:46:24 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 1.11773 -0.10001 -0.05072 -1.03751; 0.09846 1.00595 0.24327 -56.80216; 0.01407 -0.32615 1.21270 -29.45151; 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 = 20 Starting OpenSpline(): npoints = 20 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 76 (76), valley at 0 (0) csf peak at 38, setting threshold to 63 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 77 (77), valley at 0 (0) csf peak at 38, setting threshold to 64 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 1 minutes and 40 seconds. @#@FSTIME 2021:10:07:13:46:24 mri_normalize N 7 e 100.48 S 0.25 U 99.98 P 99% M 578700 F 0 R 23478 W 0 c 584 w 51 I 0 O 7520 L 19.00 18.81 18.86 @#@FSLOADPOST 2021:10:07:13:48:04 mri_normalize N 7 18.50 18.73 18.83 #-------------------------------------------- #@# Skull Stripping Thu Oct 7 13:48:04 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_watershed -keep brainmask.auto.mgz brainmask.mgz brainmask.mgz -T1 -brain_atlas /usr/local/software/freesurfer/7.1.0/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz Keeping brain edits brainmask.auto.mgz brainmask.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=124 y=108 z=127 r=80 first estimation of the main basin volume: 2174434 voxels Looking for seedpoints 2 found in the cerebellum 18 found in the rest of the brain global maximum in x=105, y=105, z=94, Imax=255 CSF=16, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 10 percent done. Analyze... main basin size=9811021804 voxels, voxel volume =1.000 = 9811021804 mmm3 = 9811021.824 cm3 done. PostAnalyze...Basin Prior 1282 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=125,y=123, z=115, r=10268 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 45954 RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 3384 LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 2970 RIGHT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 19386 LEFT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=4 , nb = 19530 OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=17 , nb = 684 (2) Problem with the least square interpolation in GM_MIN calculation. CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 4, 4, 16, 57 after analyzing : 4, 18, 25, 27 RIGHT_CER before analyzing : 4, 4, 16, 57 after analyzing : 4, 18, 25, 27 LEFT_CER before analyzing : 4, 4, 16, 57 after analyzing : 4, 18, 25, 27 RIGHT_BRAIN before analyzing : 4, 4, 15, 58 after analyzing : 4, 18, 25, 28 LEFT_BRAIN before analyzing : 4, 4, 17, 57 after analyzing : 4, 18, 25, 27 OTHER before analyzing : 17, 46, 87, 108 after analyzing : 17, 73, 87, 81 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...64 iterations *********************VALIDATION********************* curvature mean = -0.012, std = 0.011 curvature mean = 72.318, std = 9.901 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 1.64, sigma = 2.57 after rotation: sse = 1.64, sigma = 2.57 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 1.73, its var is 2.86 before Erosion-Dilatation 0.18% 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...29 iterations mri_strip_skull: done peeling brain Brain Size = 1812000 voxels, voxel volume = 1.000 mm3 = 1812000 mmm3 = 1812.000 cm3 MRImask(): AllowDiffGeom = 1 ****************************** Saving brainmask.auto.mgz Keeping edits ... Saving kept edits to brainmask.mgz ..... done mri_watershed utimesec 15.005496 mri_watershed stimesec 0.521079 mri_watershed ru_maxrss 847932 mri_watershed ru_ixrss 0 mri_watershed ru_idrss 0 mri_watershed ru_isrss 0 mri_watershed ru_minflt 390175 mri_watershed ru_majflt 0 mri_watershed ru_nswap 0 mri_watershed ru_inblock 163560 mri_watershed ru_oublock 5920 mri_watershed ru_msgsnd 0 mri_watershed ru_msgrcv 0 mri_watershed ru_nsignals 0 mri_watershed ru_nvcsw 153 mri_watershed ru_nivcsw 80 mri_watershed done @#@FSTIME 2021:10:07:13:48:04 mri_watershed N 10 e 16.16 S 0.56 U 15.00 P 96% M 847932 F 0 R 390200 W 0 c 80 w 154 I 163560 O 5920 L 18.50 18.73 18.83 @#@FSLOADPOST 2021:10:07:13:48:21 mri_watershed N 10 18.32 18.68 18.81 INFO: brainmask.mgz already exists! The new brainmask.auto.mgz will not be copied to brainmask.mgz. This is done to retain any edits made to brainmask.mgz. Add the -clean-bm flag to recon-all to overwrite brainmask.mgz. #------------------------------------- #@# EM Registration Thu Oct 7 13:48:21 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_em_register -uns 3 -mask brainmask.mgz nu.mgz /usr/local/software/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/software/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=16.0 skull bounding box = (61, 60, 36) --> (194, 194, 211) finding center of left hemi white matter using (105, 105, 124) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (89,89,102) --> (121, 121,145) to find MRI wm before smoothing, mri peak at 107 robust fit to distribution - 106 +- 4.8 after smoothing, mri peak at 106, scaling input intensities by 1.009 scaling channel 0 by 1.00943 initial log_p = -4.115 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.126799 @ (0.000, 0.000, 0.000) max log p = -3.964376 @ (5.263, -5.263, -15.789) max log p = -3.887327 @ (-2.632, 2.632, 2.632) max log p = -3.823252 @ (-3.947, -1.316, -1.316) max log p = -3.787471 @ (3.289, 1.974, 0.658) max log p = -3.787471 @ (0.000, 0.000, 0.000) max log p = -3.787471 @ (0.000, 0.000, 0.000) max log p = -3.787471 @ (0.000, 0.000, 0.000) Found translation: (2.0, -2.0, -13.8): log p = -3.787 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.624, old_max_log_p =-3.787 (thresh=-3.8) 1.06580 -0.03632 0.13553 -17.99726; 0.00000 1.02750 0.27532 -38.13697; -0.12074 -0.23736 0.88584 51.15107; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 24 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.620, old_max_log_p =-3.624 (thresh=-3.6) 1.06580 -0.03632 0.13553 -17.99726; 0.01694 1.12842 0.16914 -40.88130; -0.11970 -0.10121 0.91420 23.56698; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 25 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.620, old_max_log_p =-3.620 (thresh=-3.6) 1.06580 -0.03632 0.13553 -17.99726; 0.01694 1.12842 0.16914 -40.88130; -0.11970 -0.10121 0.91420 23.56698; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 25 seconds. **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.408, old_max_log_p =-3.620 (thresh=-3.6) 1.02812 -0.06510 0.09698 -6.92486; 0.04240 1.07586 0.22329 -44.09908; -0.08458 -0.17913 0.92165 31.48958; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 19 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.404, old_max_log_p =-3.408 (thresh=-3.4) 1.00884 -0.06388 0.09516 -4.41748; 0.04319 1.09603 0.22748 -47.16262; -0.08458 -0.17913 0.92165 31.48958; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 19 seconds. **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.404, old_max_log_p =-3.404 (thresh=-3.4) 1.00884 -0.06388 0.09516 -4.41748; 0.04319 1.09603 0.22748 -47.16262; -0.08458 -0.17913 0.92165 31.48958; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 19 seconds. **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.383, old_max_log_p =-3.404 (thresh=-3.4) 1.00832 -0.04285 0.08330 -5.56136; 0.02678 1.10079 0.22665 -45.56887; -0.06775 -0.17970 0.92207 28.90494; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 13 seconds. **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.371, old_max_log_p =-3.383 (thresh=-3.4) 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 13 seconds. **************************************** Nine parameter search. iteration 8 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.371, old_max_log_p =-3.371 (thresh=-3.4) 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 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 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 0.00000 0.00000 0.00000 1.00000; nsamples 2841 Quasinewton: input matrix 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 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: 011: -log(p) = -0.0 tol 0.000010 Resulting transform: 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.371 (old=-4.115) transform before final EM align: 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 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 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 0.00000 0.00000 0.00000 1.00000; nsamples 315638 Quasinewton: input matrix 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 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: 013: -log(p) = 3.9 tol 0.000000 final transform: 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... #VMPC# mri_em_register VmPeak 891868 FSRUNTIME@ mri_em_register 0.2131 hours 1 threads registration took 12 minutes and 47 seconds. @#@FSTIME 2021:10:07:13:48:21 mri_em_register N 7 e 767.12 S 1.47 U 763.66 P 99% M 613632 F 0 R 687250 W 0 c 2910 w 112 I 139960 O 16 L 18.32 18.68 18.81 @#@FSLOADPOST 2021:10:07:14:01:08 mri_em_register N 7 18.01 18.07 18.37 #-------------------------------------- #@# CA Normalize Thu Oct 7 14:01:08 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /usr/local/software/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/software/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=16.0 skull bounding box = (61, 60, 36) --> (194, 194, 211) finding center of left hemi white matter using (105, 105, 124) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (89,89,102) --> (121, 121,145) to find MRI wm before smoothing, mri peak at 107 robust fit to distribution - 106 +- 4.8 after smoothing, mri peak at 106, scaling input intensities by 1.009 scaling channel 0 by 1.00943 using 246437 sample points... INFO: compute sample coordinates transform 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70731; -0.07698 -0.21577 0.91559 36.19342; 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 (123, 63, 36) --> (194, 168, 210) Left_Cerebral_White_Matter: limiting intensities to 97.0 --> 132.0 0 of 78 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (63, 64, 33) --> (130, 166, 209) Right_Cerebral_White_Matter: limiting intensities to 99.0 --> 132.0 0 of 70 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (131, 142, 66) --> (181, 183, 123) finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (88, 143, 61) --> (132, 185, 121) finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 133, 102) --> (146, 195, 134) Brain_Stem: limiting intensities to 91.0 --> 132.0 0 of 9 (0.0%) samples deleted using 157 total control points for intensity normalization... bias field = 0.983 +- 0.064 1 of 157 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 63, 36) --> (194, 168, 210) Left_Cerebral_White_Matter: limiting intensities to 92.0 --> 132.0 0 of 121 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (63, 64, 33) --> (130, 166, 209) Right_Cerebral_White_Matter: limiting intensities to 89.0 --> 132.0 0 of 172 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (131, 142, 66) --> (181, 183, 123) finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (88, 143, 61) --> (132, 185, 121) finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 133, 102) --> (146, 195, 134) Brain_Stem: limiting intensities to 95.0 --> 132.0 22 of 62 (35.5%) samples deleted using 355 total control points for intensity normalization... bias field = 1.001 +- 0.079 2 of 329 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 63, 36) --> (194, 168, 210) Left_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0 0 of 261 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (63, 64, 33) --> (130, 166, 209) Right_Cerebral_White_Matter: limiting intensities to 91.0 --> 132.0 0 of 270 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (131, 142, 66) --> (181, 183, 123) finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (88, 143, 61) --> (132, 185, 121) finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 133, 102) --> (146, 195, 134) Brain_Stem: limiting intensities to 99.0 --> 132.0 37 of 50 (74.0%) samples deleted using 581 total control points for intensity normalization... bias field = 1.015 +- 0.057 1 of 541 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 1 minutes and 9 seconds. @#@FSTIME 2021:10:07:14:01:08 mri_ca_normalize N 8 e 69.22 S 0.58 U 68.44 P 99% M 879976 F 0 R 377904 W 0 c 472 w 86 I 0 O 3888 L 18.01 18.07 18.37 @#@FSLOADPOST 2021:10:07:14:02:17 mri_ca_normalize N 8 17.97 18.04 18.33 #-------------------------------------- #@# CA Reg Thu Oct 7 14:02:17 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_ca_register -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /usr/local/software/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/software/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 0.912293 #FOTS# QuadFit found better minimum quadopt=(dt=191.932,rms=0.845017) vs oldopt=(dt=92.48,rms=0.862637) #GCMRL# 0 dt 191.932275 rms 0.845 7.374% neg 0 invalid 762 tFOTS 14.7750 tGradient 7.2420 tsec 23.1400 #FOTS# QuadFit found better minimum quadopt=(dt=244.513,rms=0.82871) vs oldopt=(dt=92.48,rms=0.833614) #GCMRL# 1 dt 244.512821 rms 0.829 1.930% neg 0 invalid 762 tFOTS 14.7230 tGradient 7.6930 tsec 23.5390 #FOTS# QuadFit found better minimum quadopt=(dt=166.209,rms=0.817328) vs oldopt=(dt=92.48,rms=0.820019) #GCMRL# 2 dt 166.208955 rms 0.817 1.373% neg 0 invalid 762 tFOTS 15.5460 tGradient 7.1370 tsec 23.8800 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.810717) vs oldopt=(dt=369.92,rms=0.811294) #GCMRL# 3 dt 295.936000 rms 0.811 0.809% neg 0 invalid 762 tFOTS 14.7450 tGradient 7.5540 tsec 23.4950 #FOTS# QuadFit found better minimum quadopt=(dt=144,rms=0.805399) vs oldopt=(dt=92.48,rms=0.806381) #GCMRL# 4 dt 144.000000 rms 0.805 0.656% neg 0 invalid 762 tFOTS 15.5620 tGradient 7.2310 tsec 23.9170 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.800149) vs oldopt=(dt=369.92,rms=0.800556) #GCMRL# 5 dt 517.888000 rms 0.800 0.652% neg 0 invalid 762 tFOTS 14.6630 tGradient 7.1870 tsec 22.9710 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.796331) vs oldopt=(dt=92.48,rms=0.796728) #GCMRL# 6 dt 129.472000 rms 0.796 0.477% neg 0 invalid 762 tFOTS 15.6940 tGradient 7.2420 tsec 24.0580 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.793145) vs oldopt=(dt=369.92,rms=0.793723) #GCMRL# 7 dt 517.888000 rms 0.793 0.400% neg 0 invalid 762 tFOTS 14.6570 tGradient 7.4890 tsec 23.2680 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.791281) vs oldopt=(dt=92.48,rms=0.791547) #GCMRL# 8 dt 129.472000 rms 0.791 0.000% neg 0 invalid 762 tFOTS 15.5900 tGradient 7.4580 tsec 24.2020 #GCMRL# 9 dt 129.472000 rms 0.790 0.106% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5810 tsec 8.7030 #GCMRL# 10 dt 129.472000 rms 0.789 0.170% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6050 tsec 8.7260 #GCMRL# 11 dt 129.472000 rms 0.787 0.228% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.2050 tsec 8.3290 #GCMRL# 12 dt 129.472000 rms 0.785 0.275% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1340 tsec 8.2700 #GCMRL# 13 dt 129.472000 rms 0.783 0.288% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1360 tsec 8.2610 #GCMRL# 14 dt 129.472000 rms 0.781 0.276% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0670 tsec 8.1900 #GCMRL# 15 dt 129.472000 rms 0.779 0.268% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0530 tsec 8.1820 #GCMRL# 16 dt 129.472000 rms 0.777 0.266% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0720 tsec 8.1960 #GCMRL# 17 dt 129.472000 rms 0.775 0.253% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0980 tsec 8.2210 #GCMRL# 18 dt 129.472000 rms 0.773 0.246% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1460 tsec 8.2670 #GCMRL# 19 dt 129.472000 rms 0.771 0.205% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0830 tsec 8.2030 #GCMRL# 20 dt 129.472000 rms 0.770 0.173% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1790 tsec 8.3010 #GCMRL# 21 dt 129.472000 rms 0.768 0.180% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1950 tsec 8.3160 #GCMRL# 22 dt 129.472000 rms 0.767 0.172% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1350 tsec 8.2570 #GCMRL# 23 dt 129.472000 rms 0.766 0.141% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7580 tsec 8.8790 #GCMRL# 24 dt 129.472000 rms 0.765 0.135% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7070 tsec 8.8330 #GCMRL# 25 dt 129.472000 rms 0.764 0.132% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8090 tsec 8.9500 #GCMRL# 26 dt 129.472000 rms 0.763 0.128% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6620 tsec 8.7830 #GCMRL# 27 dt 129.472000 rms 0.762 0.131% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6430 tsec 8.7640 #GCMRL# 28 dt 129.472000 rms 0.761 0.117% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6460 tsec 8.7670 #GCMRL# 29 dt 129.472000 rms 0.760 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5970 tsec 8.7530 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.759943) vs oldopt=(dt=369.92,rms=0.760007) #GCMRL# 30 dt 517.888000 rms 0.760 0.000% neg 0 invalid 762 tFOTS 15.5490 tGradient 7.7630 tsec 24.4730 #GCMRL# 31 dt 517.888000 rms 0.760 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5970 tsec 8.7190 #GCAMreg# pass 0 level1 5 level2 1 tsec 438.673 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 0.760708 #FOTS# QuadFit found better minimum quadopt=(dt=110.976,rms=0.759608) vs oldopt=(dt=92.48,rms=0.759618) #GCMRL# 33 dt 110.976000 rms 0.760 0.145% neg 0 invalid 762 tFOTS 15.6270 tGradient 7.9580 tsec 24.7070 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 0.780206 #FOTS# QuadFit found better minimum quadopt=(dt=92.1081,rms=0.775537) vs oldopt=(dt=103.68,rms=0.775606) #GCMRL# 35 dt 92.108108 rms 0.776 0.598% neg 0 invalid 762 tFOTS 15.6100 tGradient 5.8840 tsec 22.6130 #FOTS# QuadFit found better minimum quadopt=(dt=248.832,rms=0.766538) vs oldopt=(dt=414.72,rms=0.769012) #GCMRL# 36 dt 248.832000 rms 0.767 1.160% neg 0 invalid 762 tFOTS 14.6850 tGradient 5.8830 tsec 21.6860 #GCMRL# 37 dt 103.680000 rms 0.764 0.336% neg 0 invalid 762 tFOTS 15.4730 tGradient 5.4290 tsec 22.0200 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.761005) vs oldopt=(dt=103.68,rms=0.761438) #GCMRL# 38 dt 145.152000 rms 0.761 0.387% neg 0 invalid 762 tFOTS 14.5820 tGradient 5.2740 tsec 20.9710 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.760065) vs oldopt=(dt=25.92,rms=0.760272) #GCMRL# 39 dt 36.288000 rms 0.760 0.000% neg 0 invalid 762 tFOTS 14.6270 tGradient 5.4960 tsec 21.2730 #GCMRL# 40 dt 36.288000 rms 0.760 0.058% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6010 tsec 6.7310 #GCMRL# 41 dt 36.288000 rms 0.759 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4930 tsec 6.6090 #GCMRL# 42 dt 36.288000 rms 0.758 0.102% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2460 tsec 6.3620 #GCMRL# 43 dt 36.288000 rms 0.757 0.173% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3010 tsec 6.4170 #GCMRL# 44 dt 36.288000 rms 0.756 0.195% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5130 tsec 6.6340 #GCMRL# 45 dt 36.288000 rms 0.754 0.186% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4020 tsec 6.5200 #GCMRL# 46 dt 36.288000 rms 0.753 0.174% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4260 tsec 6.5410 #GCMRL# 47 dt 36.288000 rms 0.752 0.167% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5310 tsec 6.6460 #GCMRL# 48 dt 36.288000 rms 0.750 0.138% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5470 tsec 6.6610 #GCMRL# 49 dt 36.288000 rms 0.750 0.116% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3190 tsec 6.5070 #GCMRL# 50 dt 36.288000 rms 0.749 0.116% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5820 tsec 6.6950 #GCMRL# 51 dt 36.288000 rms 0.748 0.099% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6740 tsec 6.8190 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.747972) vs oldopt=(dt=25.92,rms=0.747975) #GCMRL# 52 dt 36.288000 rms 0.748 0.000% neg 0 invalid 762 tFOTS 16.2960 tGradient 5.6630 tsec 23.1020 #GCMRL# 53 dt 36.288000 rms 0.748 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.6240 tsec 6.7380 #GCAMreg# pass 0 level1 4 level2 1 tsec 229.944 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 0.74883 #GCMRL# 55 dt 0.000000 rms 0.748 0.116% neg 0 invalid 762 tFOTS 15.4570 tGradient 5.6320 tsec 22.1970 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 0.791341 #FOTS# QuadFit found better minimum quadopt=(dt=2.8,rms=0.79001) vs oldopt=(dt=2,rms=0.790063) #GCMRL# 57 dt 2.800000 rms 0.790 0.168% neg 0 invalid 762 tFOTS 14.4110 tGradient 4.8420 tsec 20.3560 #FOTS# QuadFit found better minimum quadopt=(dt=0.7,rms=0.790022) vs oldopt=(dt=0.5,rms=0.790025) #GCAMreg# pass 0 level1 3 level2 1 tsec 46.259 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 0.790834 #FOTS# QuadFit found better minimum quadopt=(dt=0.7,rms=0.790012) vs oldopt=(dt=0.5,rms=0.790016) #GCMRL# 59 dt 0.700000 rms 0.790 0.104% neg 0 invalid 762 tFOTS 14.3750 tGradient 4.6840 tsec 20.1570 #FOTS# QuadFit found better minimum quadopt=(dt=0.175,rms=0.789998) vs oldopt=(dt=0.125,rms=0.789998) #GCMRL# 60 dt 0.175000 rms 0.790 0.000% neg 0 invalid 762 tFOTS 14.3390 tGradient 4.6820 tsec 20.1480 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 0.898407 #FOTS# QuadFit found better minimum quadopt=(dt=3.01127,rms=0.873048) vs oldopt=(dt=2.88,rms=0.873088) #GCMRL# 62 dt 3.011268 rms 0.873 2.823% neg 0 invalid 762 tFOTS 14.3690 tGradient 4.0130 tsec 19.4750 #FOTS# QuadFit found better minimum quadopt=(dt=3.34118,rms=0.864087) vs oldopt=(dt=2.88,rms=0.864256) #GCMRL# 63 dt 3.341176 rms 0.864 1.026% neg 0 invalid 762 tFOTS 14.3030 tGradient 4.1050 tsec 19.5010 #FOTS# QuadFit found better minimum quadopt=(dt=3.07143,rms=0.858057) vs oldopt=(dt=2.88,rms=0.858081) #GCMRL# 64 dt 3.071429 rms 0.858 0.698% neg 0 invalid 762 tFOTS 14.2730 tGradient 3.8380 tsec 19.2010 #FOTS# QuadFit found better minimum quadopt=(dt=1.93906,rms=0.855441) vs oldopt=(dt=2.88,rms=0.856057) #GCMRL# 65 dt 1.939058 rms 0.855 0.305% neg 0 invalid 762 tFOTS 14.2620 tGradient 3.9690 tsec 19.3200 #FOTS# QuadFit found better minimum quadopt=(dt=5.31765,rms=0.851015) vs oldopt=(dt=2.88,rms=0.851973) #GCMRL# 66 dt 5.317647 rms 0.851 0.517% neg 0 invalid 762 tFOTS 14.2360 tGradient 3.7810 tsec 19.1040 #FOTS# QuadFit found better minimum quadopt=(dt=1.19565,rms=0.850144) vs oldopt=(dt=0.72,rms=0.850253) #GCMRL# 67 dt 1.195652 rms 0.850 0.000% neg 0 invalid 762 tFOTS 14.2280 tGradient 3.9330 tsec 19.2770 #GCMRL# 68 dt 1.195652 rms 0.850 0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1570 tsec 5.2440 #GCMRL# 69 dt 1.195652 rms 0.849 0.080% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.2800 tsec 5.3690 #GCMRL# 70 dt 1.195652 rms 0.848 0.088% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.1980 tsec 5.2850 #GCMRL# 71 dt 1.195652 rms 0.848 0.058% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9840 tsec 5.0700 #GCMRL# 72 dt 1.195652 rms 0.848 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9630 tsec 5.1010 #FOTS# QuadFit found better minimum quadopt=(dt=1.008,rms=0.847665) vs oldopt=(dt=0.72,rms=0.847667) #GCMRL# 73 dt 1.008000 rms 0.848 0.004% neg 0 invalid 762 tFOTS 13.3200 tGradient 3.8930 tsec 18.3020 #FOTS# QuadFit found better minimum quadopt=(dt=4.032,rms=0.84758) vs oldopt=(dt=2.88,rms=0.847588) #GCMRL# 74 dt 4.032000 rms 0.848 0.010% neg 0 invalid 762 tFOTS 15.0910 tGradient 3.8940 tsec 20.0720 #FOTS# QuadFit found better minimum quadopt=(dt=8.97959,rms=0.847076) vs oldopt=(dt=11.52,rms=0.847115) #GCMRL# 75 dt 8.979592 rms 0.847 0.059% neg 0 invalid 762 tFOTS 15.0960 tGradient 3.9250 tsec 20.1090 #FOTS# QuadFit found better minimum quadopt=(dt=0.000244141,rms=0.847043) vs oldopt=(dt=0.000175781,rms=0.847043) #GCAMreg# pass 0 level1 2 level2 1 tsec 228.835 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 0.847798 #GCMRL# 77 dt 0.000000 rms 0.847 0.089% neg 0 invalid 762 tFOTS 13.3540 tGradient 4.0590 tsec 18.5000 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 0.881227 #GCMRL# 79 dt 0.000000 rms 0.881 0.083% neg 0 invalid 762 tFOTS 13.3330 tGradient 3.9030 tsec 18.3250 #GCAMreg# pass 0 level1 1 level2 1 tsec 42.314 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 0.881227 #GCMRL# 81 dt 0.000000 rms 0.881 0.083% neg 0 invalid 762 tFOTS 13.3500 tGradient 3.9080 tsec 18.3450 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 0.82476 #FOTS# QuadFit found better minimum quadopt=(dt=0.218788,rms=0.81877) vs oldopt=(dt=0.32,rms=0.819575) #GCMRL# 83 dt 0.218788 rms 0.819 0.726% neg 0 invalid 762 tFOTS 14.2390 tGradient 3.2250 tsec 18.5500 #GCMRL# 84 dt 0.020000 rms 0.819 0.000% neg 0 invalid 762 tFOTS 14.2580 tGradient 3.1970 tsec 18.5700 #GCAMreg# pass 0 level1 0 level2 1 tsec 47.055 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 0.819364 #FOTS# QuadFit found better minimum quadopt=(dt=0.012,rms=0.818512) vs oldopt=(dt=0.02,rms=0.818528) #GCMRL# 86 dt 0.012000 rms 0.819 0.104% neg 0 invalid 762 tFOTS 14.2410 tGradient 3.1980 tsec 18.5320 #FOTS# QuadFit found better minimum quadopt=(dt=0.001,rms=0.818505) vs oldopt=(dt=0.00125,rms=0.818505) #GCMRL# 87 dt 0.001000 rms 0.819 0.000% neg 0 invalid 762 tFOTS 14.2320 tGradient 3.1730 tsec 18.5210 #GCMRL# 88 dt 0.001000 rms 0.819 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.1450 tsec 4.2360 GCAMregister done in 21.9988 min Starting GCAmapRenormalizeWithAlignment() without scales renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.10253 (16) mri peak = 0.12016 (27) Left_Lateral_Ventricle (4): linear fit = 1.33 x + 0.0 (2432 voxels, overlap=0.551) Left_Lateral_Ventricle (4): linear fit = 1.33 x + 0.0 (2432 voxels, peak = 21), gca=21.2 gca peak = 0.17690 (16) mri peak = 0.12020 (29) Right_Lateral_Ventricle (43): linear fit = 1.76 x + 0.0 (1269 voxels, overlap=0.279) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (1269 voxels, peak = 28), gca=24.0 gca peak = 0.28275 (96) mri peak = 0.08943 (101) Right_Pallidum (52): linear fit = 1.07 x + 0.0 (896 voxels, overlap=0.973) Right_Pallidum (52): linear fit = 1.07 x + 0.0 (896 voxels, peak = 102), gca=102.2 gca peak = 0.18948 (93) mri peak = 0.11169 (102) Left_Pallidum (13): linear fit = 1.09 x + 0.0 (675 voxels, overlap=0.633) Left_Pallidum (13): linear fit = 1.09 x + 0.0 (675 voxels, peak = 101), gca=100.9 gca peak = 0.20755 (55) mri peak = 0.15111 (51) Right_Hippocampus: unreasonable value (49.8/51.0), not in range [50, 90] - rejecting gca peak = 0.31831 (58) mri peak = 0.12264 (52) Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (501 voxels, overlap=0.911) Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (501 voxels, peak = 52), gca=51.9 gca peak = 0.11957 (102) mri peak = 0.09274 (104) Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (64412 voxels, overlap=0.827) Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (64412 voxels, peak = 104), gca=103.5 gca peak = 0.11429 (102) mri peak = 0.09199 (101) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (61073 voxels, overlap=0.785) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (61073 voxels, peak = 105), gca=104.5 gca peak = 0.14521 (59) mri peak = 0.04315 (51) Left_Cerebral_Cortex (3): linear fit = 0.94 x + 0.0 (13217 voxels, overlap=0.966) Left_Cerebral_Cortex (3): linear fit = 0.94 x + 0.0 (13217 voxels, peak = 56), gca=55.8 gca peak = 0.14336 (58) mri peak = 0.04483 (56) Right_Cerebral_Cortex (42): linear fit = 0.94 x + 0.0 (16632 voxels, overlap=0.996) Right_Cerebral_Cortex (42): linear fit = 0.94 x + 0.0 (16632 voxels, peak = 55), gca=54.8 gca peak = 0.13305 (70) mri peak = 0.06522 (59) Right_Caudate (50): linear fit = 0.89 x + 0.0 (631 voxels, overlap=0.785) Right_Caudate (50): linear fit = 0.89 x + 0.0 (631 voxels, peak = 63), gca=62.6 gca peak = 0.15761 (71) mri peak = 0.09105 (72) Left_Caudate (11): linear fit = 0.98 x + 0.0 (990 voxels, overlap=0.987) Left_Caudate (11): linear fit = 0.98 x + 0.0 (990 voxels, peak = 69), gca=69.2 gca peak = 0.13537 (57) mri peak = 0.06224 (21) Left_Cerebellum_Cortex (8): linear fit = 0.35 x + 0.0 (19415 voxels, overlap=0.001) Left_Cerebellum_Cortex (8): linear fit = 0.35 x + 0.0 (19415 voxels, peak = 20), gca=20.2 gca peak = 0.13487 (56) mri peak = 0.06836 (20) Right_Cerebellum_Cortex (47): linear fit = 0.35 x + 0.0 (23946 voxels, overlap=0.001) Right_Cerebellum_Cortex (47): linear fit = 0.35 x + 0.0 (23946 voxels, peak = 20), gca=19.9 gca peak = 0.19040 (84) mri peak = 0.03545 (77) Left_Cerebellum_White_Matter (7): linear fit = 0.94 x + 0.0 (3159 voxels, overlap=0.151) Left_Cerebellum_White_Matter (7): linear fit = 0.94 x + 0.0 (3159 voxels, peak = 79), gca=78.5 gca peak = 0.18871 (83) mri peak = 0.04851 (79) Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (2555 voxels, overlap=0.983) Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (2555 voxels, peak = 80), gca=80.1 gca peak = 0.24248 (57) mri peak = 0.09800 (53) Left_Amygdala (18): linear fit = 0.92 x + 0.0 (354 voxels, overlap=0.807) Left_Amygdala (18): linear fit = 0.92 x + 0.0 (354 voxels, peak = 52), gca=52.2 gca peak = 0.35833 (56) mri peak = 0.17300 (50) Right_Amygdala (54): linear fit = 0.89 x + 0.0 (450 voxels, overlap=0.838) Right_Amygdala (54): linear fit = 0.89 x + 0.0 (450 voxels, peak = 50), gca=50.1 gca peak = 0.12897 (85) mri peak = 0.05721 (88) Left_Thalamus (10): linear fit = 1.03 x + 0.0 (4420 voxels, overlap=0.913) Left_Thalamus (10): linear fit = 1.03 x + 0.0 (4420 voxels, peak = 88), gca=88.0 gca peak = 0.13127 (83) mri peak = 0.06385 (87) Right_Thalamus (49): linear fit = 1.07 x + 0.0 (3252 voxels, overlap=0.881) Right_Thalamus (49): linear fit = 1.07 x + 0.0 (3252 voxels, peak = 88), gca=88.4 gca peak = 0.12974 (78) mri peak = 0.07122 (74) Left_Putamen (12): linear fit = 0.94 x + 0.0 (1472 voxels, overlap=0.741) Left_Putamen (12): linear fit = 0.94 x + 0.0 (1472 voxels, peak = 73), gca=72.9 gca peak = 0.17796 (79) mri peak = 0.05245 (73) Right_Putamen (51): linear fit = 0.94 x + 0.0 (1607 voxels, overlap=0.926) Right_Putamen (51): linear fit = 0.94 x + 0.0 (1607 voxels, peak = 74), gca=73.9 gca peak = 0.10999 (80) mri peak = 0.07183 (86) Brain_Stem (16): linear fit = 1.10 x + 0.0 (6841 voxels, overlap=0.416) Brain_Stem (16): linear fit = 1.10 x + 0.0 (6841 voxels, peak = 88), gca=87.6 gca peak = 0.13215 (88) mri peak = 0.06983 (95) Right_VentralDC (60): linear fit = 1.13 x + 0.0 (909 voxels, overlap=0.402) Right_VentralDC (60): linear fit = 1.13 x + 0.0 (909 voxels, peak = 100), gca=99.9 gca peak = 0.11941 (89) mri peak = 0.07295 (98) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (1187 voxels, overlap=0.343) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (1187 voxels, peak = 100), gca=100.1 gca peak = 0.20775 (25) mri peak = 0.07720 (21) gca peak = 0.13297 (21) mri peak = 0.10514 (20) Fourth_Ventricle (15): linear fit = 0.93 x + 0.0 (452 voxels, overlap=0.895) Fourth_Ventricle (15): linear fit = 0.93 x + 0.0 (452 voxels, peak = 19), gca=19.4 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.19087 (28) gca peak Left_Cerebellum_Cortex = 0.13537 (57) 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_Cerebellum_Cortex = 0.13487 (56) gca peak Right_Hippocampus = 0.20755 (55) 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 setting label Right_Hippocampus based on Left_Hippocampus = 0.89 x + 0: 52 estimating mean gm scale to be 0.92 x + 0.0 estimating mean wm scale to be 1.02 x + 0.0 estimating mean csf scale to be 1.25 x + 0.0 setting left cbm cortex = 0.92 x + 0.00 setting right cbm cortex = 0.92 x + 0.00 Left_Pallidum too bright - rescaling by 1.000 (from 1.085) to 100.9 (was 100.9) Right_Pallidum too bright - rescaling by 0.987 (from 1.065) to 100.9 (was 102.2) saving intensity scales to talairach.label_intensities.txt GCAmapRenormalizeWithAlignment() took 3.30427 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 0.819984 #FOTS# QuadFit found better minimum quadopt=(dt=221.952,rms=0.802124) vs oldopt=(dt=369.92,rms=0.805995) #GCMRL# 90 dt 221.952000 rms 0.802 2.178% neg 0 invalid 762 tFOTS 14.2280 tGradient 6.9000 tsec 22.2140 #FOTS# QuadFit found better minimum quadopt=(dt=203.636,rms=0.795283) vs oldopt=(dt=92.48,rms=0.797643) #GCMRL# 91 dt 203.636364 rms 0.795 0.853% neg 0 invalid 762 tFOTS 15.0960 tGradient 6.6790 tsec 22.8640 #FOTS# QuadFit found better minimum quadopt=(dt=145.067,rms=0.791703) vs oldopt=(dt=92.48,rms=0.792466) #GCMRL# 92 dt 145.066667 rms 0.792 0.450% neg 0 invalid 762 tFOTS 15.1000 tGradient 6.6440 tsec 22.8300 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.786811) vs oldopt=(dt=369.92,rms=0.786969) #GCMRL# 93 dt 443.904000 rms 0.787 0.618% neg 0 invalid 762 tFOTS 14.2030 tGradient 6.7080 tsec 21.9980 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.78355) vs oldopt=(dt=92.48,rms=0.783985) #GCMRL# 94 dt 129.472000 rms 0.784 0.414% neg 0 invalid 762 tFOTS 15.0810 tGradient 7.0590 tsec 23.2280 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.781019) vs oldopt=(dt=369.92,rms=0.781217) #GCMRL# 95 dt 517.888000 rms 0.781 0.323% neg 0 invalid 762 tFOTS 14.2040 tGradient 7.3410 tsec 22.6320 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.778543) vs oldopt=(dt=92.48,rms=0.778844) #GCMRL# 96 dt 129.472000 rms 0.779 0.317% neg 0 invalid 762 tFOTS 15.9950 tGradient 6.8680 tsec 23.9490 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.776599) vs oldopt=(dt=369.92,rms=0.776723) #GCMRL# 97 dt 517.888000 rms 0.777 0.250% neg 0 invalid 762 tFOTS 14.2100 tGradient 6.9420 tsec 22.2390 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.774577) vs oldopt=(dt=92.48,rms=0.77481) #GCMRL# 98 dt 129.472000 rms 0.775 0.260% neg 0 invalid 762 tFOTS 16.0110 tGradient 6.6410 tsec 23.7380 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.773219) vs oldopt=(dt=369.92,rms=0.773253) #GCMRL# 99 dt 443.904000 rms 0.773 0.175% neg 0 invalid 762 tFOTS 15.1060 tGradient 7.2070 tsec 23.4000 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.771819) vs oldopt=(dt=92.48,rms=0.772026) #GCMRL# 100 dt 129.472000 rms 0.772 0.181% neg 0 invalid 762 tFOTS 15.1120 tGradient 6.6180 tsec 22.8180 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.77035) vs oldopt=(dt=369.92,rms=0.770485) #GCMRL# 101 dt 517.888000 rms 0.770 0.190% neg 0 invalid 762 tFOTS 15.1180 tGradient 6.8660 tsec 23.0700 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.769009) vs oldopt=(dt=92.48,rms=0.769149) #GCMRL# 102 dt 129.472000 rms 0.769 0.174% neg 0 invalid 762 tFOTS 15.1180 tGradient 6.7750 tsec 22.9790 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.767979) vs oldopt=(dt=369.92,rms=0.767995) #GCMRL# 103 dt 443.904000 rms 0.768 0.134% neg 0 invalid 762 tFOTS 15.1000 tGradient 6.8740 tsec 23.0710 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.766929) vs oldopt=(dt=92.48,rms=0.767039) #GCMRL# 104 dt 129.472000 rms 0.767 0.137% neg 0 invalid 762 tFOTS 15.1060 tGradient 6.7740 tsec 22.9710 #GCMRL# 105 dt 369.920000 rms 0.766 0.111% neg 0 invalid 762 tFOTS 15.0930 tGradient 6.7800 tsec 22.9600 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.765327) vs oldopt=(dt=92.48,rms=0.765441) #GCMRL# 106 dt 129.472000 rms 0.765 0.098% neg 0 invalid 762 tFOTS 15.1150 tGradient 6.7740 tsec 22.9780 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.764499) vs oldopt=(dt=369.92,rms=0.764566) #GCMRL# 107 dt 517.888000 rms 0.764 0.108% neg 0 invalid 762 tFOTS 15.1060 tGradient 7.0020 tsec 23.1970 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.763423) vs oldopt=(dt=92.48,rms=0.763578) #GCMRL# 108 dt 129.472000 rms 0.763 0.141% neg 0 invalid 762 tFOTS 15.1140 tGradient 6.8050 tsec 23.0060 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.763036) vs oldopt=(dt=369.92,rms=0.763053) #GCMRL# 109 dt 295.936000 rms 0.763 0.051% neg 0 invalid 762 tFOTS 15.1200 tGradient 6.7050 tsec 22.9120 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.762325) vs oldopt=(dt=92.48,rms=0.762477) #GCMRL# 110 dt 129.472000 rms 0.762 0.093% neg 0 invalid 762 tFOTS 15.1170 tGradient 6.8320 tsec 23.0360 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.761616) vs oldopt=(dt=369.92,rms=0.761746) #GCMRL# 111 dt 517.888000 rms 0.762 0.093% neg 0 invalid 762 tFOTS 15.1230 tGradient 6.8350 tsec 23.0470 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.76075) vs oldopt=(dt=92.48,rms=0.760912) #GCMRL# 112 dt 129.472000 rms 0.761 0.114% neg 0 invalid 762 tFOTS 15.1100 tGradient 6.7220 tsec 22.9190 #FOTS# QuadFit found better minimum quadopt=(dt=443.904,rms=0.760348) vs oldopt=(dt=369.92,rms=0.76035) #GCMRL# 113 dt 443.904000 rms 0.760 0.053% neg 0 invalid 762 tFOTS 15.1120 tGradient 6.8860 tsec 23.0860 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.759466) vs oldopt=(dt=92.48,rms=0.759621) #GCMRL# 114 dt 129.472000 rms 0.759 0.116% neg 0 invalid 762 tFOTS 15.1080 tGradient 6.7200 tsec 22.9160 #GCMRL# 115 dt 369.920000 rms 0.759 0.000% neg 0 invalid 762 tFOTS 15.0950 tGradient 6.8370 tsec 23.0520 #GCAMreg# pass 0 level1 5 level2 1 tsec 610.737 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 0.76025 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.7586) vs oldopt=(dt=92.48,rms=0.758638) #GCMRL# 117 dt 129.472000 rms 0.759 0.217% neg 0 invalid 762 tFOTS 15.1060 tGradient 6.8900 tsec 23.0840 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.758474) vs oldopt=(dt=92.48,rms=0.758499) #GCMRL# 118 dt 129.472000 rms 0.758 0.000% neg 0 invalid 762 tFOTS 15.0960 tGradient 6.8380 tsec 23.0520 #GCMRL# 119 dt 129.472000 rms 0.758 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8920 tsec 7.9790 #GCMRL# 120 dt 129.472000 rms 0.758 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8670 tsec 7.9630 #GCMRL# 121 dt 129.472000 rms 0.758 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7800 tsec 7.8690 #GCMRL# 122 dt 129.472000 rms 0.757 0.086% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7580 tsec 7.8450 #GCMRL# 123 dt 129.472000 rms 0.756 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8050 tsec 7.8970 #GCMRL# 124 dt 129.472000 rms 0.755 0.134% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.9000 tsec 7.9930 #GCMRL# 125 dt 129.472000 rms 0.754 0.131% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7580 tsec 7.8470 #GCMRL# 126 dt 129.472000 rms 0.753 0.120% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7790 tsec 7.8660 #GCMRL# 127 dt 129.472000 rms 0.752 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7890 tsec 7.8760 #GCMRL# 128 dt 129.472000 rms 0.752 0.082% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7820 tsec 7.8710 #GCMRL# 129 dt 129.472000 rms 0.751 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7580 tsec 7.8460 #GCMRL# 130 dt 129.472000 rms 0.751 0.086% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7930 tsec 7.8820 #GCMRL# 131 dt 129.472000 rms 0.750 0.096% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8120 tsec 7.8990 #GCMRL# 132 dt 129.472000 rms 0.749 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8020 tsec 7.8890 #GCMRL# 133 dt 129.472000 rms 0.748 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1570 tsec 8.2450 #GCMRL# 134 dt 129.472000 rms 0.748 0.103% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1530 tsec 8.2420 #GCMRL# 135 dt 129.472000 rms 0.747 0.089% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1270 tsec 8.2150 #GCMRL# 136 dt 129.472000 rms 0.746 0.085% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1550 tsec 8.2430 #GCMRL# 137 dt 129.472000 rms 0.746 0.087% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1700 tsec 8.2600 #GCMRL# 138 dt 129.472000 rms 0.745 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.2560 tsec 8.3450 #GCMRL# 139 dt 129.472000 rms 0.744 0.114% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1640 tsec 8.2510 #GCMRL# 140 dt 129.472000 rms 0.743 0.110% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7510 tsec 7.8380 #GCMRL# 141 dt 129.472000 rms 0.742 0.107% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8080 tsec 7.8960 #GCMRL# 142 dt 129.472000 rms 0.742 0.095% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8950 tsec 7.9930 #GCMRL# 143 dt 129.472000 rms 0.741 0.096% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8170 tsec 7.9040 #GCMRL# 144 dt 129.472000 rms 0.740 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8150 tsec 7.9040 #GCMRL# 145 dt 129.472000 rms 0.740 0.092% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0280 tsec 8.1160 #GCMRL# 146 dt 129.472000 rms 0.739 0.077% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8080 tsec 7.8950 #GCMRL# 147 dt 129.472000 rms 0.739 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8810 tsec 7.9690 #GCMRL# 148 dt 129.472000 rms 0.738 0.059% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8850 tsec 7.9730 #GCMRL# 149 dt 129.472000 rms 0.738 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.9540 tsec 8.0410 #GCMRL# 150 dt 129.472000 rms 0.737 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8770 tsec 7.9650 #GCMRL# 151 dt 129.472000 rms 0.737 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7710 tsec 7.8600 #GCMRL# 152 dt 129.472000 rms 0.736 0.060% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7380 tsec 7.8250 #GCMRL# 153 dt 129.472000 rms 0.736 0.059% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7990 tsec 7.8890 #GCMRL# 154 dt 129.472000 rms 0.735 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7670 tsec 7.8560 #GCMRL# 155 dt 129.472000 rms 0.735 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8140 tsec 7.9030 #GCMRL# 156 dt 129.472000 rms 0.735 0.051% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.9080 tsec 7.9960 #GCMRL# 157 dt 129.472000 rms 0.734 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.8250 tsec 7.9120 #GCMRL# 158 dt 129.472000 rms 0.734 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7070 tsec 7.7980 #GCMRL# 159 dt 129.472000 rms 0.734 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7650 tsec 7.8530 #GCMRL# 160 dt 129.472000 rms 0.733 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.6870 tsec 7.7750 #GCMRL# 161 dt 129.472000 rms 0.733 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.6920 tsec 7.7850 #GCMRL# 162 dt 129.472000 rms 0.733 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7940 tsec 7.8830 #GCMRL# 163 dt 129.472000 rms 0.732 0.051% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7820 tsec 7.8700 #GCMRL# 164 dt 129.472000 rms 0.732 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.6650 tsec 7.7560 #GCMRL# 165 dt 129.472000 rms 0.732 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7420 tsec 7.8320 #GCMRL# 166 dt 129.472000 rms 0.731 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7580 tsec 7.8450 #GCMRL# 167 dt 129.472000 rms 0.731 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.9320 tsec 8.0190 #GCMRL# 168 dt 129.472000 rms 0.731 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4370 tsec 8.5250 #GCMRL# 169 dt 129.472000 rms 0.730 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3800 tsec 8.4670 #GCMRL# 170 dt 129.472000 rms 0.730 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3800 tsec 8.4680 #GCMRL# 171 dt 129.472000 rms 0.730 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4970 tsec 8.5860 #GCMRL# 172 dt 129.472000 rms 0.730 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3830 tsec 8.4710 #GCMRL# 173 dt 129.472000 rms 0.730 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3820 tsec 8.4690 #GCMRL# 174 dt 129.472000 rms 0.729 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4290 tsec 8.5170 #GCMRL# 175 dt 129.472000 rms 0.729 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3790 tsec 8.4660 #GCMRL# 176 dt 129.472000 rms 0.729 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4620 tsec 8.5510 #GCMRL# 177 dt 129.472000 rms 0.729 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4130 tsec 8.5010 #GCMRL# 178 dt 129.472000 rms 0.729 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3620 tsec 8.4510 #GCMRL# 179 dt 129.472000 rms 0.728 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4310 tsec 8.5180 #GCMRL# 180 dt 129.472000 rms 0.728 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3660 tsec 8.4530 #GCMRL# 181 dt 129.472000 rms 0.728 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4360 tsec 8.5230 #GCMRL# 182 dt 129.472000 rms 0.728 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4980 tsec 8.5870 #GCMRL# 183 dt 129.472000 rms 0.728 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1010 tsec 8.1890 #GCMRL# 184 dt 129.472000 rms 0.727 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1350 tsec 8.2220 #GCMRL# 185 dt 129.472000 rms 0.727 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3790 tsec 8.4670 #GCMRL# 186 dt 129.472000 rms 0.727 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.2330 tsec 8.3200 #GCMRL# 187 dt 129.472000 rms 0.727 0.017% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.2420 tsec 8.3580 #FOTS# QuadFit found better minimum quadopt=(dt=1775.62,rms=0.726802) vs oldopt=(dt=1479.68,rms=0.726804) #GCMRL# 188 dt 1775.616000 rms 0.727 0.022% neg 0 invalid 762 tFOTS 16.0190 tGradient 7.1610 tsec 24.2670 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.726685) vs oldopt=(dt=92.48,rms=0.726708) #GCMRL# 189 dt 129.472000 rms 0.727 0.000% neg 0 invalid 762 tFOTS 16.0070 tGradient 7.1360 tsec 24.2590 #GCMRL# 190 dt 129.472000 rms 0.727 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0810 tsec 8.1690 #GCMRL# 191 dt 129.472000 rms 0.727 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1550 tsec 8.2420 #GCMRL# 192 dt 129.472000 rms 0.727 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1940 tsec 8.2850 #GCMRL# 193 dt 129.472000 rms 0.727 0.006% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1360 tsec 8.2230 #GCMRL# 194 dt 129.472000 rms 0.727 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1580 tsec 8.2460 #GCMRL# 195 dt 129.472000 rms 0.726 0.018% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1370 tsec 8.2240 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 0.72921 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.72084) vs oldopt=(dt=103.68,rms=0.722436) #GCMRL# 197 dt 145.152000 rms 0.721 1.148% neg 0 invalid 762 tFOTS 14.2370 tGradient 5.4430 tsec 20.7710 #FOTS# QuadFit found better minimum quadopt=(dt=248.832,rms=0.712896) vs oldopt=(dt=414.72,rms=0.714771) #GCMRL# 198 dt 248.832000 rms 0.713 1.102% neg 0 invalid 762 tFOTS 14.1830 tGradient 5.2830 tsec 20.5510 #FOTS# QuadFit found better minimum quadopt=(dt=86.3294,rms=0.707882) vs oldopt=(dt=103.68,rms=0.708075) #GCMRL# 199 dt 86.329442 rms 0.708 0.703% neg 0 invalid 762 tFOTS 15.0910 tGradient 5.4670 tsec 21.6430 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.703872) vs oldopt=(dt=103.68,rms=0.704457) #GCMRL# 200 dt 145.152000 rms 0.704 0.566% neg 0 invalid 762 tFOTS 14.2010 tGradient 5.4780 tsec 20.7650 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.701461) vs oldopt=(dt=103.68,rms=0.701646) #GCMRL# 201 dt 82.944000 rms 0.701 0.343% neg 0 invalid 762 tFOTS 15.0720 tGradient 5.4570 tsec 21.6190 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.69798) vs oldopt=(dt=103.68,rms=0.698442) #GCMRL# 202 dt 145.152000 rms 0.698 0.496% neg 0 invalid 762 tFOTS 14.1830 tGradient 5.3240 tsec 20.5920 #FOTS# QuadFit found better minimum quadopt=(dt=71.4343,rms=0.695931) vs oldopt=(dt=103.68,rms=0.696313) #GCMRL# 203 dt 71.434343 rms 0.696 0.293% neg 0 invalid 762 tFOTS 15.0640 tGradient 5.4380 tsec 21.5880 #FOTS# QuadFit found better minimum quadopt=(dt=248.832,rms=0.692217) vs oldopt=(dt=414.72,rms=0.693261) #GCMRL# 204 dt 248.832000 rms 0.692 0.534% neg 0 invalid 762 tFOTS 14.1820 tGradient 5.3510 tsec 20.6180 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.690172) vs oldopt=(dt=25.92,rms=0.690602) #GCMRL# 205 dt 36.288000 rms 0.690 0.295% neg 0 invalid 762 tFOTS 15.0760 tGradient 5.4330 tsec 21.5950 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.68846) vs oldopt=(dt=103.68,rms=0.688652) #GCMRL# 206 dt 145.152000 rms 0.688 0.248% neg 0 invalid 762 tFOTS 14.1920 tGradient 5.3450 tsec 20.6220 #FOTS# QuadFit found better minimum quadopt=(dt=99.0968,rms=0.68646) vs oldopt=(dt=103.68,rms=0.686469) #GCMRL# 207 dt 99.096774 rms 0.686 0.291% neg 0 invalid 762 tFOTS 15.0800 tGradient 5.4000 tsec 21.5790 #FOTS# QuadFit found better minimum quadopt=(dt=87.1111,rms=0.685181) vs oldopt=(dt=103.68,rms=0.685226) #GCMRL# 208 dt 87.111111 rms 0.685 0.186% neg 0 invalid 762 tFOTS 15.0750 tGradient 5.2740 tsec 21.4350 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.683231) vs oldopt=(dt=103.68,rms=0.683473) #GCMRL# 209 dt 145.152000 rms 0.683 0.285% neg 0 invalid 762 tFOTS 14.1840 tGradient 5.3730 tsec 20.6430 #FOTS# QuadFit found better minimum quadopt=(dt=66.56,rms=0.682086) vs oldopt=(dt=103.68,rms=0.682382) #GCMRL# 210 dt 66.560000 rms 0.682 0.168% neg 0 invalid 762 tFOTS 15.0750 tGradient 5.4200 tsec 21.5800 #GCMRL# 211 dt 414.720000 rms 0.679 0.428% neg 0 invalid 762 tFOTS 14.2100 tGradient 5.4390 tsec 20.7340 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.676747) vs oldopt=(dt=25.92,rms=0.67721) #GCMRL# 212 dt 36.288000 rms 0.677 0.356% neg 0 invalid 762 tFOTS 14.2100 tGradient 5.2020 tsec 20.4980 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.675989) vs oldopt=(dt=103.68,rms=0.676025) #GCMRL# 213 dt 82.944000 rms 0.676 0.112% neg 0 invalid 762 tFOTS 14.1950 tGradient 5.3020 tsec 20.5830 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.674632) vs oldopt=(dt=103.68,rms=0.674772) #GCMRL# 214 dt 145.152000 rms 0.675 0.201% neg 0 invalid 762 tFOTS 14.1920 tGradient 5.2700 tsec 20.5470 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.673973) vs oldopt=(dt=25.92,rms=0.6741) #GCMRL# 215 dt 36.288000 rms 0.674 0.098% neg 0 invalid 762 tFOTS 13.3030 tGradient 5.2980 tsec 19.6890 #FOTS# QuadFit found better minimum quadopt=(dt=331.776,rms=0.672457) vs oldopt=(dt=414.72,rms=0.672588) #GCMRL# 216 dt 331.776000 rms 0.672 0.225% neg 0 invalid 762 tFOTS 14.1830 tGradient 5.3760 tsec 20.6450 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.670459) vs oldopt=(dt=103.68,rms=0.67119) #GCMRL# 217 dt 62.208000 rms 0.670 0.297% neg 0 invalid 762 tFOTS 15.0880 tGradient 5.3680 tsec 21.5420 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.669759) vs oldopt=(dt=103.68,rms=0.669833) #GCMRL# 218 dt 145.152000 rms 0.670 0.104% neg 0 invalid 762 tFOTS 14.2040 tGradient 5.3260 tsec 20.6170 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.668718) vs oldopt=(dt=103.68,rms=0.668722) #GCMRL# 219 dt 82.944000 rms 0.669 0.155% neg 0 invalid 762 tFOTS 14.1960 tGradient 5.3650 tsec 20.6460 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.66836) vs oldopt=(dt=103.68,rms=0.668467) #GCMRL# 220 dt 62.208000 rms 0.668 0.053% neg 0 invalid 762 tFOTS 14.1890 tGradient 5.2960 tsec 20.5700 #FOTS# QuadFit found better minimum quadopt=(dt=248.832,rms=0.666992) vs oldopt=(dt=414.72,rms=0.66717) #GCMRL# 221 dt 248.832000 rms 0.667 0.205% neg 0 invalid 762 tFOTS 15.0710 tGradient 5.2840 tsec 21.4390 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.66633) vs oldopt=(dt=25.92,rms=0.666455) #GCMRL# 222 dt 36.288000 rms 0.666 0.099% neg 0 invalid 762 tFOTS 13.3050 tGradient 5.3810 tsec 19.7700 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.665828) vs oldopt=(dt=103.68,rms=0.665841) #GCMRL# 223 dt 124.416000 rms 0.666 0.075% neg 0 invalid 762 tFOTS 14.2040 tGradient 5.3010 tsec 20.5890 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.665069) vs oldopt=(dt=103.68,rms=0.665119) #GCMRL# 224 dt 82.944000 rms 0.665 0.114% neg 0 invalid 762 tFOTS 14.2000 tGradient 5.3500 tsec 20.6350 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.664811) vs oldopt=(dt=25.92,rms=0.664867) #GCMRL# 225 dt 36.288000 rms 0.665 0.000% neg 0 invalid 762 tFOTS 14.2000 tGradient 5.2950 tsec 20.6090 #GCMRL# 226 dt 36.288000 rms 0.665 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2640 tsec 6.3470 #GCMRL# 227 dt 36.288000 rms 0.664 0.056% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3750 tsec 6.4590 #GCMRL# 228 dt 36.288000 rms 0.664 0.082% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2960 tsec 6.3810 #GCMRL# 229 dt 36.288000 rms 0.663 0.109% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2760 tsec 6.3620 #GCMRL# 230 dt 36.288000 rms 0.662 0.121% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2910 tsec 6.3740 #GCMRL# 231 dt 36.288000 rms 0.661 0.137% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3620 tsec 6.4470 #GCMRL# 232 dt 36.288000 rms 0.660 0.145% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3640 tsec 6.4470 #GCMRL# 233 dt 36.288000 rms 0.659 0.152% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4210 tsec 6.5060 #GCMRL# 234 dt 36.288000 rms 0.658 0.159% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3770 tsec 6.4610 #GCMRL# 235 dt 36.288000 rms 0.657 0.161% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4030 tsec 6.4880 #GCMRL# 236 dt 36.288000 rms 0.656 0.155% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4020 tsec 6.4870 #GCMRL# 237 dt 36.288000 rms 0.655 0.152% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4140 tsec 6.4990 #GCMRL# 238 dt 36.288000 rms 0.654 0.149% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3160 tsec 6.4000 #GCMRL# 239 dt 36.288000 rms 0.653 0.139% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2940 tsec 6.3800 #GCMRL# 240 dt 36.288000 rms 0.652 0.135% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3390 tsec 6.4300 #GCMRL# 241 dt 36.288000 rms 0.652 0.125% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3950 tsec 6.4790 #GCMRL# 242 dt 36.288000 rms 0.651 0.118% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3090 tsec 6.3930 #GCMRL# 243 dt 36.288000 rms 0.650 0.121% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3340 tsec 6.4190 #GCMRL# 244 dt 36.288000 rms 0.649 0.120% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2830 tsec 6.3770 #GCMRL# 245 dt 36.288000 rms 0.649 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3390 tsec 6.4250 #GCMRL# 246 dt 36.288000 rms 0.648 0.107% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3140 tsec 6.3990 #GCMRL# 247 dt 36.288000 rms 0.647 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3630 tsec 6.4470 #GCMRL# 248 dt 36.288000 rms 0.646 0.106% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3910 tsec 6.4760 #GCMRL# 249 dt 36.288000 rms 0.646 0.104% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3630 tsec 6.4470 #GCMRL# 250 dt 36.288000 rms 0.645 0.098% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3900 tsec 6.4730 #GCMRL# 251 dt 36.288000 rms 0.645 0.095% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3360 tsec 6.4200 #GCMRL# 252 dt 36.288000 rms 0.644 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3730 tsec 6.4570 #GCMRL# 253 dt 36.288000 rms 0.643 0.087% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3660 tsec 6.4510 #GCMRL# 254 dt 36.288000 rms 0.643 0.080% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3360 tsec 6.4230 #GCMRL# 255 dt 36.288000 rms 0.642 0.074% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3070 tsec 6.3920 #GCMRL# 256 dt 36.288000 rms 0.642 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3190 tsec 6.4030 #GCMRL# 257 dt 36.288000 rms 0.642 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2680 tsec 6.3530 #GCMRL# 258 dt 36.288000 rms 0.641 0.066% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.2370 tsec 6.3210 #GCMRL# 259 dt 36.288000 rms 0.641 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3370 tsec 6.4220 #GCMRL# 260 dt 36.288000 rms 0.640 0.067% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3160 tsec 6.4010 #GCMRL# 261 dt 36.288000 rms 0.640 0.072% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3620 tsec 6.4460 #GCMRL# 262 dt 36.288000 rms 0.639 0.068% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3050 tsec 6.3880 #GCMRL# 263 dt 36.288000 rms 0.639 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3090 tsec 6.3940 #GCMRL# 264 dt 36.288000 rms 0.639 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3450 tsec 6.4290 #GCMRL# 265 dt 36.288000 rms 0.638 0.056% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3360 tsec 6.4210 #GCMRL# 266 dt 36.288000 rms 0.638 0.055% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3590 tsec 6.4450 #GCMRL# 267 dt 36.288000 rms 0.638 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3340 tsec 6.4190 #GCMRL# 268 dt 36.288000 rms 0.637 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4730 tsec 6.5600 #GCMRL# 269 dt 36.288000 rms 0.637 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5390 tsec 6.6230 #GCMRL# 270 dt 36.288000 rms 0.637 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.5370 tsec 6.6220 #GCMRL# 271 dt 36.288000 rms 0.636 0.053% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3740 tsec 6.4590 #GCMRL# 272 dt 36.288000 rms 0.636 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3830 tsec 6.4690 #GCMRL# 273 dt 36.288000 rms 0.636 0.052% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4720 tsec 6.5560 #GCMRL# 274 dt 36.288000 rms 0.635 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4720 tsec 6.5600 #GCMRL# 275 dt 36.288000 rms 0.635 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4280 tsec 6.5180 #GCMRL# 276 dt 36.288000 rms 0.635 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4100 tsec 6.4940 #GCMRL# 277 dt 36.288000 rms 0.635 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3020 tsec 6.3870 #GCMRL# 278 dt 36.288000 rms 0.634 0.053% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3340 tsec 6.4190 #GCMRL# 279 dt 36.288000 rms 0.634 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4000 tsec 6.4880 #GCMRL# 280 dt 36.288000 rms 0.634 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4430 tsec 6.5270 #GCMRL# 281 dt 36.288000 rms 0.633 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4300 tsec 6.5310 #GCMRL# 282 dt 36.288000 rms 0.633 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4430 tsec 6.5270 #GCMRL# 283 dt 36.288000 rms 0.633 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3600 tsec 6.4440 #GCMRL# 284 dt 36.288000 rms 0.633 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3320 tsec 6.4170 #GCMRL# 285 dt 36.288000 rms 0.632 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4040 tsec 6.4890 #GCMRL# 286 dt 36.288000 rms 0.632 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4730 tsec 6.5570 #GCMRL# 287 dt 36.288000 rms 0.632 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3960 tsec 6.4940 #GCMRL# 288 dt 36.288000 rms 0.632 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4060 tsec 6.4920 #GCMRL# 289 dt 36.288000 rms 0.631 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4870 tsec 6.5710 #GCMRL# 290 dt 36.288000 rms 0.631 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4020 tsec 6.4870 #GCMRL# 291 dt 36.288000 rms 0.631 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4190 tsec 6.5040 #GCMRL# 292 dt 36.288000 rms 0.631 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4030 tsec 6.4870 #GCMRL# 293 dt 36.288000 rms 0.631 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3980 tsec 6.4810 #GCMRL# 294 dt 36.288000 rms 0.630 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4000 tsec 6.4840 #GCMRL# 295 dt 36.288000 rms 0.630 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4210 tsec 6.5060 #GCMRL# 296 dt 36.288000 rms 0.630 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3090 tsec 6.3930 #GCMRL# 297 dt 36.288000 rms 0.630 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3050 tsec 6.3900 #GCMRL# 298 dt 36.288000 rms 0.630 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4450 tsec 6.5300 #GCMRL# 299 dt 36.288000 rms 0.629 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4150 tsec 6.5000 #GCMRL# 300 dt 36.288000 rms 0.629 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4290 tsec 6.5120 #GCMRL# 301 dt 36.288000 rms 0.629 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4020 tsec 6.4890 #GCMRL# 302 dt 36.288000 rms 0.629 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4290 tsec 6.5120 #GCMRL# 303 dt 36.288000 rms 0.629 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3410 tsec 6.4250 #GCMRL# 304 dt 36.288000 rms 0.628 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3310 tsec 6.4150 #GCMRL# 305 dt 36.288000 rms 0.628 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3300 tsec 6.4140 #GCMRL# 306 dt 36.288000 rms 0.628 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3300 tsec 6.4160 #GCMRL# 307 dt 36.288000 rms 0.628 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.3310 tsec 6.4150 #GCMRL# 308 dt 36.288000 rms 0.628 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4000 tsec 6.4840 #GCMRL# 309 dt 36.288000 rms 0.628 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4670 tsec 6.5520 #GCMRL# 310 dt 36.288000 rms 0.627 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4310 tsec 6.5260 #GCMRL# 311 dt 36.288000 rms 0.627 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4570 tsec 6.5420 #GCMRL# 312 dt 36.288000 rms 0.627 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4030 tsec 6.4880 #GCMRL# 313 dt 36.288000 rms 0.627 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4320 tsec 6.5440 #FOTS# QuadFit found better minimum quadopt=(dt=248.832,rms=0.626814) vs oldopt=(dt=414.72,rms=0.626844) #GCMRL# 314 dt 248.832000 rms 0.627 0.026% neg 0 invalid 762 tFOTS 15.0650 tGradient 5.4630 tsec 21.6140 #GCMRL# 315 dt 25.920000 rms 0.627 0.000% neg 0 invalid 762 tFOTS 15.0660 tGradient 5.4690 tsec 21.6470 #GCMRL# 316 dt 25.920000 rms 0.627 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4290 tsec 6.5140 #GCAMreg# pass 0 level1 4 level2 1 tsec 1235.27 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 0.627841 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.626529) vs oldopt=(dt=25.92,rms=0.626569) #GCMRL# 318 dt 36.288000 rms 0.627 0.209% neg 0 invalid 762 tFOTS 14.1980 tGradient 5.4960 tsec 20.7810 #GCMRL# 319 dt 25.920000 rms 0.626 0.000% neg 0 invalid 762 tFOTS 15.9480 tGradient 5.4280 tsec 22.4910 #GCMRL# 320 dt 25.920000 rms 0.626 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.4590 tsec 6.5430 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 0.642207 #FOTS# QuadFit found better minimum quadopt=(dt=55.7526,rms=0.637177) vs oldopt=(dt=32,rms=0.637738) #GCMRL# 322 dt 55.752577 rms 0.637 0.783% neg 0 invalid 762 tFOTS 15.0680 tGradient 4.7030 tsec 20.8550 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.632354) vs oldopt=(dt=32,rms=0.632923) #GCMRL# 323 dt 38.400000 rms 0.632 0.757% neg 0 invalid 762 tFOTS 14.1870 tGradient 4.6040 tsec 19.8760 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.629787) vs oldopt=(dt=32,rms=0.630278) #GCMRL# 324 dt 44.800000 rms 0.630 0.406% neg 0 invalid 762 tFOTS 14.1910 tGradient 4.7710 tsec 20.0470 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.626196) vs oldopt=(dt=32,rms=0.626508) #GCMRL# 325 dt 38.400000 rms 0.626 0.570% neg 0 invalid 762 tFOTS 14.1810 tGradient 4.6550 tsec 19.9190 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.624582) vs oldopt=(dt=32,rms=0.624601) #GCMRL# 326 dt 38.400000 rms 0.625 0.258% neg 0 invalid 762 tFOTS 14.1750 tGradient 4.5420 tsec 19.8010 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.621442) vs oldopt=(dt=32,rms=0.621758) #GCMRL# 327 dt 44.800000 rms 0.621 0.503% neg 0 invalid 762 tFOTS 14.1930 tGradient 4.6750 tsec 19.9520 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.62018) vs oldopt=(dt=32,rms=0.620277) #GCMRL# 328 dt 25.600000 rms 0.620 0.203% neg 0 invalid 762 tFOTS 14.1910 tGradient 4.5100 tsec 19.7870 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.617572) vs oldopt=(dt=32,rms=0.618189) #GCMRL# 329 dt 44.800000 rms 0.618 0.420% neg 0 invalid 762 tFOTS 14.1870 tGradient 4.5770 tsec 19.8480 #GCMRL# 330 dt 32.000000 rms 0.617 0.110% neg 0 invalid 762 tFOTS 14.1900 tGradient 4.5660 tsec 19.8400 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.614872) vs oldopt=(dt=32,rms=0.615217) #GCMRL# 331 dt 44.800000 rms 0.615 0.327% neg 0 invalid 762 tFOTS 14.1800 tGradient 4.4890 tsec 19.7530 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.614113) vs oldopt=(dt=32,rms=0.614132) #GCMRL# 332 dt 25.600000 rms 0.614 0.124% neg 0 invalid 762 tFOTS 14.1900 tGradient 4.5120 tsec 19.7860 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.612511) vs oldopt=(dt=32,rms=0.61283) #GCMRL# 333 dt 44.800000 rms 0.613 0.261% neg 0 invalid 762 tFOTS 14.1910 tGradient 4.5400 tsec 19.8150 #GCMRL# 334 dt 32.000000 rms 0.612 0.116% neg 0 invalid 762 tFOTS 14.1770 tGradient 4.5120 tsec 19.7790 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.610498) vs oldopt=(dt=32,rms=0.610618) #GCMRL# 335 dt 44.800000 rms 0.610 0.212% neg 0 invalid 762 tFOTS 14.1760 tGradient 4.5130 tsec 19.7730 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.609828) vs oldopt=(dt=32,rms=0.609908) #GCMRL# 336 dt 25.600000 rms 0.610 0.110% neg 0 invalid 762 tFOTS 14.1860 tGradient 4.4490 tsec 19.7230 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.608263) vs oldopt=(dt=32,rms=0.608602) #GCMRL# 337 dt 44.800000 rms 0.608 0.257% neg 0 invalid 762 tFOTS 13.3030 tGradient 4.5360 tsec 18.9230 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.607918) vs oldopt=(dt=32,rms=0.607923) #GCMRL# 338 dt 25.600000 rms 0.608 0.057% neg 0 invalid 762 tFOTS 14.1810 tGradient 4.5100 tsec 19.7750 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.606872) vs oldopt=(dt=32,rms=0.607075) #GCMRL# 339 dt 44.800000 rms 0.607 0.172% neg 0 invalid 762 tFOTS 13.2920 tGradient 4.5420 tsec 18.9180 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.606605) vs oldopt=(dt=8,rms=0.606674) #GCMRL# 340 dt 11.200000 rms 0.607 0.000% neg 0 invalid 762 tFOTS 13.2940 tGradient 4.5060 tsec 18.9120 #GCMRL# 341 dt 11.200000 rms 0.606 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5130 tsec 5.5980 #GCMRL# 342 dt 11.200000 rms 0.606 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4980 tsec 5.5830 #GCMRL# 343 dt 11.200000 rms 0.605 0.090% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4830 tsec 5.5680 #GCMRL# 344 dt 11.200000 rms 0.605 0.111% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5100 tsec 5.5940 #GCMRL# 345 dt 11.200000 rms 0.604 0.136% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5080 tsec 5.5920 #GCMRL# 346 dt 11.200000 rms 0.603 0.149% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4150 tsec 5.4990 #GCMRL# 347 dt 11.200000 rms 0.602 0.165% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4570 tsec 5.5430 #GCMRL# 348 dt 11.200000 rms 0.601 0.171% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4430 tsec 5.5260 #GCMRL# 349 dt 11.200000 rms 0.600 0.155% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4670 tsec 5.5520 #GCMRL# 350 dt 11.200000 rms 0.599 0.168% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4410 tsec 5.5260 #GCMRL# 351 dt 11.200000 rms 0.598 0.160% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4570 tsec 5.5410 #GCMRL# 352 dt 11.200000 rms 0.597 0.159% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4440 tsec 5.5340 #GCMRL# 353 dt 11.200000 rms 0.596 0.169% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4410 tsec 5.5250 #GCMRL# 354 dt 11.200000 rms 0.595 0.161% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4470 tsec 5.5310 #GCMRL# 355 dt 11.200000 rms 0.594 0.150% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4160 tsec 5.5010 #GCMRL# 356 dt 11.200000 rms 0.593 0.146% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4810 tsec 5.5710 #GCMRL# 357 dt 11.200000 rms 0.593 0.138% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4040 tsec 5.4870 #GCMRL# 358 dt 11.200000 rms 0.592 0.133% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6060 tsec 5.6900 #GCMRL# 359 dt 11.200000 rms 0.591 0.127% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4330 tsec 5.5150 #GCMRL# 360 dt 11.200000 rms 0.590 0.123% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4390 tsec 5.5220 #GCMRL# 361 dt 11.200000 rms 0.590 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4270 tsec 5.9440 #GCMRL# 362 dt 11.200000 rms 0.590 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4070 tsec 5.4890 #GCMRL# 363 dt 11.200000 rms 0.590 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4320 tsec 5.5160 #GCMRL# 364 dt 11.200000 rms 0.590 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5240 tsec 5.6040 #GCMRL# 365 dt 11.200000 rms 0.590 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4510 tsec 5.5330 #GCMRL# 366 dt 11.200000 rms 0.590 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4290 tsec 5.5120 #GCMRL# 367 dt 11.200000 rms 0.589 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4300 tsec 5.5120 #GCMRL# 368 dt 11.200000 rms 0.589 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4020 tsec 5.9200 #GCMRL# 369 dt 11.200000 rms 0.589 0.009% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4480 tsec 5.5580 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.589236) vs oldopt=(dt=8,rms=0.58924) #GCMRL# 370 dt 11.200000 rms 0.589 0.010% neg 0 invalid 762 tFOTS 15.0300 tGradient 4.4300 tsec 20.5400 #FOTS# QuadFit found better minimum quadopt=(dt=76.8,rms=0.589048) vs oldopt=(dt=128,rms=0.589072) #GCMRL# 371 dt 76.800000 rms 0.589 0.032% neg 0 invalid 762 tFOTS 14.1400 tGradient 4.4440 tsec 19.6650 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.588983) vs oldopt=(dt=8,rms=0.589002) #GCMRL# 372 dt 11.200000 rms 0.589 0.000% neg 0 invalid 762 tFOTS 13.2740 tGradient 4.4540 tsec 18.8390 #GCMRL# 373 dt 11.200000 rms 0.589 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5000 tsec 5.5810 #GCMRL# 374 dt 11.200000 rms 0.589 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4020 tsec 5.4850 #GCMRL# 375 dt 11.200000 rms 0.589 0.019% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5250 tsec 5.6060 #GCMRL# 376 dt 11.200000 rms 0.589 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4940 tsec 5.5760 #GCMRL# 377 dt 11.200000 rms 0.589 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4580 tsec 5.5410 #GCMRL# 378 dt 11.200000 rms 0.588 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4250 tsec 5.5080 #GCMRL# 379 dt 11.200000 rms 0.588 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4320 tsec 5.5170 #GCMRL# 380 dt 11.200000 rms 0.588 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5120 tsec 5.5930 #GCMRL# 381 dt 11.200000 rms 0.588 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5240 tsec 5.6050 #GCMRL# 382 dt 11.200000 rms 0.588 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4280 tsec 5.5090 #GCMRL# 383 dt 11.200000 rms 0.587 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4310 tsec 5.5130 #GCMRL# 384 dt 11.200000 rms 0.587 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4410 tsec 5.5230 #GCMRL# 385 dt 11.200000 rms 0.587 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4250 tsec 5.5070 #GCMRL# 386 dt 11.200000 rms 0.587 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4310 tsec 5.5120 #GCMRL# 387 dt 11.200000 rms 0.586 0.051% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4660 tsec 5.5470 #GCMRL# 388 dt 11.200000 rms 0.586 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4050 tsec 5.4870 #GCMRL# 389 dt 11.200000 rms 0.586 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4080 tsec 5.4890 #GCMRL# 390 dt 11.200000 rms 0.585 0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4040 tsec 5.4860 #GCMRL# 391 dt 11.200000 rms 0.585 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4460 tsec 5.5270 #GCMRL# 392 dt 11.200000 rms 0.585 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4010 tsec 5.4820 #GCMRL# 393 dt 11.200000 rms 0.585 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4790 tsec 5.5600 #GCMRL# 394 dt 11.200000 rms 0.584 0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4690 tsec 5.5500 #GCMRL# 395 dt 11.200000 rms 0.584 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3840 tsec 5.4670 #GCMRL# 396 dt 11.200000 rms 0.584 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3790 tsec 5.8950 #GCMRL# 397 dt 11.200000 rms 0.584 0.017% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4740 tsec 5.5560 #GCMRL# 398 dt 11.200000 rms 0.584 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4460 tsec 5.5560 #GCMRL# 399 dt 32.000000 rms 0.584 0.010% neg 0 invalid 762 tFOTS 13.2750 tGradient 4.4920 tsec 18.8500 #FOTS# QuadFit found better minimum quadopt=(dt=19.2,rms=0.584014) vs oldopt=(dt=32,rms=0.584018) #GCMRL# 400 dt 19.200000 rms 0.584 0.000% neg 0 invalid 762 tFOTS 14.1500 tGradient 4.3900 tsec 19.6500 #GCMRL# 401 dt 19.200000 rms 0.584 0.006% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3800 tsec 5.4600 #GCMRL# 402 dt 19.200000 rms 0.584 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4560 tsec 5.5380 #GCMRL# 403 dt 19.200000 rms 0.584 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4000 tsec 5.4810 #GCMRL# 404 dt 19.200000 rms 0.584 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3780 tsec 5.4620 #GCMRL# 405 dt 19.200000 rms 0.584 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3790 tsec 5.4610 #GCMRL# 406 dt 19.200000 rms 0.583 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3810 tsec 5.4650 #GCMRL# 407 dt 19.200000 rms 0.583 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3770 tsec 5.4580 #GCMRL# 408 dt 19.200000 rms 0.583 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3790 tsec 5.4590 #GCMRL# 409 dt 19.200000 rms 0.583 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5020 tsec 5.5840 #GCMRL# 410 dt 19.200000 rms 0.583 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4680 tsec 5.5530 #GCMRL# 411 dt 19.200000 rms 0.583 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4700 tsec 5.5500 #GCMRL# 412 dt 9.600000 rms 0.582 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4450 tsec 6.3960 #FOTS# QuadFit found better minimum quadopt=(dt=102.4,rms=0.582357) vs oldopt=(dt=128,rms=0.582361) #GCMRL# 413 dt 102.400000 rms 0.582 0.016% neg 0 invalid 762 tFOTS 15.0350 tGradient 4.3810 tsec 20.4980 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.582304) vs oldopt=(dt=8,rms=0.582315) #GCMRL# 414 dt 11.200000 rms 0.582 0.000% neg 0 invalid 762 tFOTS 13.2690 tGradient 4.3800 tsec 18.7600 #GCMRL# 415 dt 11.200000 rms 0.582 0.009% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3810 tsec 5.4630 #GCMRL# 416 dt 11.200000 rms 0.582 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3780 tsec 5.4600 #GCAMreg# pass 0 level1 3 level2 1 tsec 907.09 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 0.583112 #GCMRL# 418 dt 8.000000 rms 0.582 0.165% neg 0 invalid 762 tFOTS 13.2800 tGradient 4.4490 tsec 18.8090 #GCMRL# 419 dt 8.000000 rms 0.582 0.000% neg 0 invalid 762 tFOTS 13.2880 tGradient 4.4500 tsec 18.8490 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 0.619065 #GCMRL# 421 dt 0.000000 rms 0.618 0.138% neg 0 invalid 762 tFOTS 13.2730 tGradient 3.7610 tsec 18.1160 #GCMRL# 422 dt 0.150000 rms 0.618 0.000% neg 0 invalid 762 tFOTS 13.2700 tGradient 3.7620 tsec 19.1330 #GCAMreg# pass 0 level1 2 level2 1 tsec 47.702 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 0.619065 #GCMRL# 424 dt 0.000000 rms 0.618 0.138% neg 0 invalid 762 tFOTS 13.2730 tGradient 3.7640 tsec 18.1200 #GCMRL# 425 dt 0.150000 rms 0.618 0.000% neg 0 invalid 762 tFOTS 13.2750 tGradient 3.7620 tsec 19.1430 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 0.689454 #FOTS# QuadFit found better minimum quadopt=(dt=1.792,rms=0.681696) vs oldopt=(dt=1.28,rms=0.682309) #GCMRL# 427 dt 1.792000 rms 0.682 1.125% neg 0 invalid 762 tFOTS 13.2820 tGradient 3.5910 tsec 17.9530 #FOTS# QuadFit found better minimum quadopt=(dt=1.024,rms=0.680633) vs oldopt=(dt=1.28,rms=0.680678) #GCMRL# 428 dt 1.024000 rms 0.681 0.156% neg 0 invalid 762 tFOTS 13.2640 tGradient 3.5510 tsec 17.8970 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.68049) vs oldopt=(dt=0.32,rms=0.680507) #GCMRL# 429 dt 0.448000 rms 0.680 0.000% neg 0 invalid 762 tFOTS 13.2680 tGradient 3.5610 tsec 17.9380 #GCMRL# 430 dt 0.448000 rms 0.680 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5540 tsec 4.6360 #GCAMreg# pass 0 level1 1 level2 1 tsec 68.674 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 0.681256 #FOTS# QuadFit found better minimum quadopt=(dt=1.792,rms=0.678732) vs oldopt=(dt=1.28,rms=0.678842) #GCMRL# 432 dt 1.792000 rms 0.679 0.371% neg 0 invalid 762 tFOTS 14.1380 tGradient 3.5520 tsec 18.7690 #FOTS# QuadFit found better minimum quadopt=(dt=1.536,rms=0.677943) vs oldopt=(dt=1.28,rms=0.67798) #GCMRL# 433 dt 1.536000 rms 0.678 0.116% neg 0 invalid 762 tFOTS 14.1340 tGradient 3.5630 tsec 18.7790 #FOTS# QuadFit found better minimum quadopt=(dt=1.536,rms=0.677568) vs oldopt=(dt=1.28,rms=0.677568) #GCMRL# 434 dt 1.536000 rms 0.678 0.055% neg 0 invalid 762 tFOTS 14.1560 tGradient 3.5500 tsec 18.7880 #FOTS# QuadFit found better minimum quadopt=(dt=1.536,rms=0.677306) vs oldopt=(dt=1.28,rms=0.677316) #GCMRL# 435 dt 1.536000 rms 0.677 0.000% neg 0 invalid 762 tFOTS 13.2610 tGradient 3.5520 tsec 17.9260 #GCMRL# 436 dt 1.536000 rms 0.677 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5520 tsec 4.6320 #GCMRL# 437 dt 1.536000 rms 0.677 -0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5460 tsec 5.6450 #FOTS# QuadFit found better minimum quadopt=(dt=1.536,rms=0.676982) vs oldopt=(dt=1.28,rms=0.676983) #GCMRL# 438 dt 1.536000 rms 0.677 0.015% neg 0 invalid 762 tFOTS 13.2670 tGradient 3.5280 tsec 17.8750 #FOTS# QuadFit found better minimum quadopt=(dt=1.792,rms=0.676905) vs oldopt=(dt=1.28,rms=0.676922) 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 0.637933 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.615796) vs oldopt=(dt=0.32,rms=0.621773) #GCMRL# 440 dt 0.448000 rms 0.616 3.470% neg 0 invalid 762 tFOTS 13.2750 tGradient 2.8640 tsec 17.2190 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.608616) vs oldopt=(dt=0.32,rms=0.610692) #GCMRL# 441 dt 0.448000 rms 0.609 1.166% neg 0 invalid 762 tFOTS 13.2960 tGradient 2.8980 tsec 17.2740 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.604771) vs oldopt=(dt=0.32,rms=0.605883) #GCMRL# 442 dt 0.448000 rms 0.605 0.632% neg 0 invalid 762 tFOTS 13.2860 tGradient 2.8640 tsec 17.2320 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.602366) vs oldopt=(dt=0.32,rms=0.603045) #GCMRL# 443 dt 0.448000 rms 0.602 0.398% neg 0 invalid 762 tFOTS 13.2640 tGradient 2.8870 tsec 17.2350 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.600466) vs oldopt=(dt=0.32,rms=0.601) #GCMRL# 444 dt 0.448000 rms 0.600 0.315% neg 0 invalid 762 tFOTS 13.2660 tGradient 2.8700 tsec 17.2170 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.599089) vs oldopt=(dt=0.32,rms=0.599471) #GCMRL# 445 dt 0.448000 rms 0.599 0.229% neg 0 invalid 762 tFOTS 13.2830 tGradient 2.8630 tsec 17.2260 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.597835) vs oldopt=(dt=0.32,rms=0.598178) #GCMRL# 446 dt 0.448000 rms 0.598 0.209% neg 0 invalid 762 tFOTS 13.2690 tGradient 2.7950 tsec 17.1550 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.596935) vs oldopt=(dt=0.32,rms=0.597178) #GCMRL# 447 dt 0.448000 rms 0.597 0.151% neg 0 invalid 762 tFOTS 13.2730 tGradient 2.8820 tsec 17.2350 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.596025) vs oldopt=(dt=0.32,rms=0.596262) #GCMRL# 448 dt 0.448000 rms 0.596 0.152% neg 0 invalid 762 tFOTS 13.2850 tGradient 2.8640 tsec 17.2300 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.595405) vs oldopt=(dt=0.32,rms=0.595564) #GCMRL# 449 dt 0.448000 rms 0.595 0.104% neg 0 invalid 762 tFOTS 13.2710 tGradient 2.7940 tsec 17.1470 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.594697) vs oldopt=(dt=0.32,rms=0.59487) #GCMRL# 450 dt 0.448000 rms 0.595 0.119% neg 0 invalid 762 tFOTS 13.2640 tGradient 2.8160 tsec 17.1610 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.594248) vs oldopt=(dt=0.32,rms=0.594353) #GCMRL# 451 dt 0.448000 rms 0.594 0.075% neg 0 invalid 762 tFOTS 13.2800 tGradient 2.8150 tsec 17.1760 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.593692) vs oldopt=(dt=0.32,rms=0.593822) #GCMRL# 452 dt 0.448000 rms 0.594 0.094% neg 0 invalid 762 tFOTS 13.3060 tGradient 2.8640 tsec 17.2500 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.593347) vs oldopt=(dt=0.32,rms=0.593413) #GCMRL# 453 dt 0.448000 rms 0.593 0.058% neg 0 invalid 762 tFOTS 13.2690 tGradient 2.8620 tsec 17.2120 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.592884) vs oldopt=(dt=0.32,rms=0.592981) #GCMRL# 454 dt 0.448000 rms 0.593 0.078% neg 0 invalid 762 tFOTS 13.2830 tGradient 2.8620 tsec 17.2270 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.592616) vs oldopt=(dt=0.32,rms=0.592658) #GCMRL# 455 dt 0.448000 rms 0.593 0.000% neg 0 invalid 762 tFOTS 13.2840 tGradient 2.8610 tsec 17.2540 #GCMRL# 456 dt 0.448000 rms 0.592 0.063% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7940 tsec 3.8790 #GCMRL# 457 dt 0.448000 rms 0.592 0.093% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8630 tsec 3.9480 #GCMRL# 458 dt 0.448000 rms 0.591 0.112% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9290 tsec 4.0140 #GCMRL# 459 dt 0.448000 rms 0.590 0.145% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7950 tsec 3.8790 #GCMRL# 460 dt 0.448000 rms 0.590 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7680 tsec 4.2870 #GCMRL# 461 dt 0.448000 rms 0.590 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9370 tsec 4.0210 #GCMRL# 462 dt 0.448000 rms 0.590 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8630 tsec 3.9460 #GCMRL# 463 dt 0.448000 rms 0.589 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9310 tsec 4.0160 #GCMRL# 464 dt 0.224000 rms 0.589 0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7660 tsec 4.6940 #GCMRL# 465 dt 0.224000 rms 0.589 0.016% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9300 tsec 4.0140 #GCMRL# 466 dt 0.224000 rms 0.589 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7940 tsec 4.3440 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.588834) vs oldopt=(dt=0.32,rms=0.58885) #GCMRL# 467 dt 0.384000 rms 0.589 0.020% neg 0 invalid 762 tFOTS 13.2750 tGradient 2.8920 tsec 17.2500 #GCMRL# 468 dt 0.320000 rms 0.589 0.000% neg 0 invalid 762 tFOTS 13.2770 tGradient 2.7930 tsec 17.1810 #GCMRL# 469 dt 0.320000 rms 0.589 0.011% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8560 tsec 3.9380 #GCMRL# 470 dt 0.320000 rms 0.589 0.012% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7930 tsec 3.8780 #GCMRL# 471 dt 0.320000 rms 0.589 0.010% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9010 tsec 3.9880 #GCMRL# 472 dt 0.320000 rms 0.588 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7930 tsec 3.8770 #GCMRL# 473 dt 0.320000 rms 0.588 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8240 tsec 3.9060 #GCMRL# 474 dt 0.320000 rms 0.588 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8620 tsec 3.9470 #GCMRL# 475 dt 0.320000 rms 0.588 0.004% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8330 tsec 4.3820 #GCMRL# 476 dt 0.320000 rms 0.588 0.000% neg 0 invalid 762 tFOTS 13.2750 tGradient 2.9240 tsec 17.3110 #GCMRL# 477 dt 0.320000 rms 0.588 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9030 tsec 3.9870 #GCMRL# 478 dt 0.320000 rms 0.588 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8600 tsec 3.9460 #GCMRL# 479 dt 0.320000 rms 0.588 0.009% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8110 tsec 3.8950 #GCMRL# 480 dt 0.320000 rms 0.588 0.012% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8350 tsec 3.9230 #GCMRL# 481 dt 0.320000 rms 0.588 0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8310 tsec 3.9160 #GCMRL# 482 dt 0.320000 rms 0.588 0.013% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8020 tsec 3.8880 #GCAMreg# pass 0 level1 0 level2 1 tsec 432.201 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 0.588578 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.578342) vs oldopt=(dt=0.32,rms=0.580919) #GCMRL# 484 dt 0.448000 rms 0.578 1.739% neg 0 invalid 762 tFOTS 13.2800 tGradient 2.8790 tsec 17.2400 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.576373) vs oldopt=(dt=0.32,rms=0.576913) #GCMRL# 485 dt 0.448000 rms 0.576 0.341% neg 0 invalid 762 tFOTS 13.2700 tGradient 2.8320 tsec 17.1850 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.575485) vs oldopt=(dt=0.32,rms=0.57572) #GCMRL# 486 dt 0.448000 rms 0.575 0.154% neg 0 invalid 762 tFOTS 13.2830 tGradient 2.9010 tsec 17.2660 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.575281) vs oldopt=(dt=0.32,rms=0.575314) #GCMRL# 487 dt 0.448000 rms 0.575 0.000% neg 0 invalid 762 tFOTS 13.2890 tGradient 2.8320 tsec 17.2300 #GCMRL# 488 dt 0.448000 rms 0.575 0.004% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9290 tsec 4.0150 GCAMregister done in 72.9399 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 0.572349 #GCMRL# 490 dt 0.022578 rms 0.571 0.153% neg 0 invalid 762 tFOTS 16.8350 tGradient 6.7140 tsec 24.6310 #GCAMreg# pass 0 level1 5 level2 1 tsec 54.01 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 0.572349 #GCMRL# 492 dt 0.000000 rms 0.571 0.153% neg 0 invalid 762 tFOTS 15.9480 tGradient 6.7280 tsec 23.7570 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 0.572392 #FOTS# QuadFit found better minimum quadopt=(dt=77,rms=0.569143) vs oldopt=(dt=25.92,rms=0.569821) #GCMRL# 494 dt 77.000000 rms 0.569 0.568% neg 0 invalid 762 tFOTS 16.8560 tGradient 5.0580 tsec 22.9960 #FOTS# QuadFit found better minimum quadopt=(dt=101.101,rms=0.567605) vs oldopt=(dt=103.68,rms=0.567608) #GCMRL# 495 dt 101.101449 rms 0.568 0.270% neg 0 invalid 762 tFOTS 16.8400 tGradient 5.0140 tsec 22.9360 #FOTS# QuadFit found better minimum quadopt=(dt=31.104,rms=0.567534) vs oldopt=(dt=25.92,rms=0.567535) iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 496 dt 31.104000 rms 0.568 0.000% neg 0 invalid 762 tFOTS 16.8410 tGradient 5.0690 tsec 24.7450 #GCMRL# 497 dt 31.104000 rms 0.567 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0910 tsec 6.1720 #GCMRL# 498 dt 31.104000 rms 0.567 0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0950 tsec 6.1770 #GCAMreg# pass 0 level1 4 level2 1 tsec 94.791 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 0.568183 #FOTS# QuadFit found better minimum quadopt=(dt=76.9949,rms=0.565039) vs oldopt=(dt=103.68,rms=0.565295) #GCMRL# 500 dt 76.994924 rms 0.565 0.553% neg 0 invalid 762 tFOTS 16.8340 tGradient 5.0710 tsec 22.9860 #FOTS# QuadFit found better minimum quadopt=(dt=112.147,rms=0.562409) vs oldopt=(dt=103.68,rms=0.562415) #GCMRL# 501 dt 112.146789 rms 0.562 0.465% neg 0 invalid 762 tFOTS 16.8390 tGradient 5.0740 tsec 22.9940 #GCMRL# 502 dt 25.920000 rms 0.562 0.000% neg 0 invalid 762 tFOTS 16.8360 tGradient 5.1170 tsec 23.0620 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 503 dt 25.920000 rms 0.562 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0700 tsec 7.4300 #GCMRL# 504 dt 25.920000 rms 0.562 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0740 tsec 6.1540 #GCMRL# 505 dt 25.920000 rms 0.561 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.1160 tsec 6.1980 iter 0, gcam->neg = 1 after 3 iterations, nbhd size=0, neg = 0 #GCMRL# 506 dt 25.920000 rms 0.561 0.102% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0920 tsec 8.8020 #GCMRL# 507 dt 25.920000 rms 0.560 0.127% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0010 tsec 6.0820 #GCMRL# 508 dt 25.920000 rms 0.559 0.118% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9990 tsec 6.0860 #GCMRL# 509 dt 25.920000 rms 0.559 0.096% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0010 tsec 6.1110 #FOTS# QuadFit found better minimum quadopt=(dt=5.184,rms=0.558816) vs oldopt=(dt=6.48,rms=0.558816) #GCMRL# 510 dt 5.184000 rms 0.559 0.000% neg 0 invalid 762 tFOTS 16.8010 tGradient 4.9970 tsec 22.9080 #GCMRL# 511 dt 5.184000 rms 0.559 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9950 tsec 6.0750 #GCMRL# 512 dt 5.184000 rms 0.559 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 5.0190 tsec 6.0990 #GCMRL# 513 dt 5.184000 rms 0.559 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.9970 tsec 6.0780 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 0.560217 #FOTS# QuadFit found better minimum quadopt=(dt=47.7413,rms=0.552078) vs oldopt=(dt=32,rms=0.552717) iter 0, gcam->neg = 33 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 515 dt 47.741339 rms 0.552 1.452% neg 0 invalid 762 tFOTS 16.8520 tGradient 4.2970 tsec 24.4090 #FOTS# QuadFit found better minimum quadopt=(dt=70.6286,rms=0.547494) vs oldopt=(dt=32,rms=0.548628) iter 0, gcam->neg = 55 after 14 iterations, nbhd size=1, neg = 0 #GCMRL# 516 dt 70.628571 rms 0.548 0.810% neg 0 invalid 762 tFOTS 16.8520 tGradient 4.3390 tsec 29.8440 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.545036) vs oldopt=(dt=32,rms=0.545093) iter 0, gcam->neg = 7 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 517 dt 25.600000 rms 0.545 0.469% neg 0 invalid 762 tFOTS 16.8500 tGradient 4.4080 tsec 24.0660 iter 0, gcam->neg = 33 after 12 iterations, nbhd size=1, neg = 0 #GCMRL# 518 dt 32.000000 rms 0.544 0.000% neg 0 invalid 762 tFOTS 16.8340 tGradient 4.3410 tsec 28.9600 iter 0, gcam->neg = 5 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 519 dt 32.000000 rms 0.543 0.212% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3140 tsec 7.1170 iter 0, gcam->neg = 10 after 8 iterations, nbhd size=1, neg = 0 #GCMRL# 520 dt 32.000000 rms 0.541 0.321% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3920 tsec 10.3490 iter 0, gcam->neg = 51 after 16 iterations, nbhd size=1, neg = 0 #GCMRL# 521 dt 32.000000 rms 0.540 0.295% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.2740 tsec 13.8400 iter 0, gcam->neg = 26 after 14 iterations, nbhd size=1, neg = 0 #GCMRL# 522 dt 32.000000 rms 0.538 0.379% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3210 tsec 12.9840 iter 0, gcam->neg = 42 after 17 iterations, nbhd size=1, neg = 0 #GCMRL# 523 dt 32.000000 rms 0.536 0.270% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3410 tsec 14.3680 iter 0, gcam->neg = 47 after 25 iterations, nbhd size=1, neg = 0 #GCMRL# 524 dt 32.000000 rms 0.535 0.240% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3100 tsec 17.9560 iter 0, gcam->neg = 52 after 7 iterations, nbhd size=0, neg = 0 #GCMRL# 525 dt 32.000000 rms 0.534 0.186% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3380 tsec 9.8580 iter 0, gcam->neg = 39 after 18 iterations, nbhd size=1, neg = 0 #GCMRL# 526 dt 32.000000 rms 0.533 0.205% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3380 tsec 14.8050 iter 0, gcam->neg = 66 after 13 iterations, nbhd size=1, neg = 0 #GCMRL# 527 dt 32.000000 rms 0.532 0.109% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4620 tsec 12.6870 iter 0, gcam->neg = 58 after 16 iterations, nbhd size=1, neg = 0 #GCMRL# 528 dt 32.000000 rms 0.532 0.113% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3920 tsec 13.9510 iter 0, gcam->neg = 58 after 24 iterations, nbhd size=1, neg = 0 #GCMRL# 529 dt 32.000000 rms 0.531 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3390 tsec 17.5110 iter 0, gcam->neg = 48 after 18 iterations, nbhd size=1, neg = 0 #GCMRL# 530 dt 32.000000 rms 0.530 0.162% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4380 tsec 14.9000 iter 0, gcam->neg = 62 after 21 iterations, nbhd size=1, neg = 0 #GCMRL# 531 dt 32.000000 rms 0.530 0.078% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4900 tsec 16.3120 iter 0, gcam->neg = 44 after 20 iterations, nbhd size=1, neg = 0 #GCMRL# 532 dt 32.000000 rms 0.530 -0.039% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4620 tsec 16.8520 iter 0, gcam->neg = 4 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 533 dt 32.000000 rms 0.529 0.128% neg 0 invalid 762 tFOTS 16.8260 tGradient 4.4660 tsec 28.6070 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.52857) vs oldopt=(dt=32,rms=0.528607) iter 0, gcam->neg = 2 after 7 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 3 level2 1 tsec 360.761 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 0.529428 #FOTS# QuadFit found better minimum quadopt=(dt=29.1945,rms=0.526605) vs oldopt=(dt=32,rms=0.526646) iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 535 dt 29.194521 rms 0.527 0.533% neg 0 invalid 762 tFOTS 16.8570 tGradient 4.4340 tsec 24.0970 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.523961) vs oldopt=(dt=32,rms=0.524194) iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 536 dt 44.800000 rms 0.524 0.502% neg 0 invalid 762 tFOTS 16.8310 tGradient 4.3650 tsec 24.0050 #FOTS# QuadFit found better minimum quadopt=(dt=22.3492,rms=0.522892) vs oldopt=(dt=32,rms=0.523176) #GCMRL# 537 dt 22.349206 rms 0.523 0.000% neg 0 invalid 762 tFOTS 16.8440 tGradient 4.3650 tsec 22.3180 #GCMRL# 538 dt 22.349206 rms 0.522 0.211% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3670 tsec 5.4490 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 539 dt 22.349206 rms 0.520 0.251% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3500 tsec 6.7070 iter 0, gcam->neg = 1 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 540 dt 22.349206 rms 0.519 0.223% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3070 tsec 7.5620 #GCMRL# 541 dt 22.349206 rms 0.518 0.170% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.2700 tsec 5.3520 iter 0, gcam->neg = 4 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 542 dt 22.349206 rms 0.518 0.149% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3220 tsec 7.1300 iter 0, gcam->neg = 4 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 543 dt 22.349206 rms 0.517 0.109% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3480 tsec 7.6110 iter 0, gcam->neg = 2 after 9 iterations, nbhd size=1, neg = 0 #GCMRL# 544 dt 22.349206 rms 0.517 0.018% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3470 tsec 10.7800 #GCMRL# 545 dt 32.000000 rms 0.517 0.092% neg 0 invalid 762 tFOTS 16.8230 tGradient 4.3380 tsec 22.2440 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.516314) vs oldopt=(dt=8,rms=0.51636) #GCMRL# 546 dt 11.200000 rms 0.516 0.000% neg 0 invalid 762 tFOTS 16.8200 tGradient 4.3280 tsec 22.2580 #GCMRL# 547 dt 11.200000 rms 0.516 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.2980 tsec 5.3810 #GCMRL# 548 dt 11.200000 rms 0.516 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.2660 tsec 5.3480 #GCMRL# 549 dt 11.200000 rms 0.516 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3240 tsec 5.4070 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 550 dt 11.200000 rms 0.515 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3830 tsec 6.7400 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 551 dt 11.200000 rms 0.515 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3620 tsec 6.7200 iter 0, gcam->neg = 1 after 2 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_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 0.525593 #FOTS# QuadFit found better minimum quadopt=(dt=0.036,rms=0.52462) vs oldopt=(dt=0.045,rms=0.52462) #GCMRL# 553 dt 0.036000 rms 0.525 0.185% neg 0 invalid 762 tFOTS 16.8830 tGradient 3.6140 tsec 21.5780 #FOTS# QuadFit found better minimum quadopt=(dt=0.0001575,rms=0.524622) vs oldopt=(dt=0.0001125,rms=0.524622) #GCAMreg# pass 0 level1 2 level2 1 tsec 53.161 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 0.525593 #GCMRL# 555 dt 0.000000 rms 0.525 0.185% neg 0 invalid 762 tFOTS 16.0000 tGradient 3.6130 tsec 20.6950 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 0.545221 #FOTS# QuadFit found better minimum quadopt=(dt=1.024,rms=0.54247) vs oldopt=(dt=1.28,rms=0.542479) #GCMRL# 557 dt 1.024000 rms 0.542 0.505% neg 0 invalid 762 tFOTS 16.9210 tGradient 3.4470 tsec 21.4490 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.542317) vs oldopt=(dt=0.32,rms=0.542325) #GCMRL# 558 dt 0.448000 rms 0.542 0.000% neg 0 invalid 762 tFOTS 16.9280 tGradient 3.4390 tsec 21.4770 #GCAMreg# pass 0 level1 1 level2 1 tsec 53.125 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 0.54325 #GCMRL# 560 dt 1.280000 rms 0.541 0.460% neg 0 invalid 762 tFOTS 16.9090 tGradient 3.5530 tsec 21.5440 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.540563) vs oldopt=(dt=0.32,rms=0.540603) #GCMRL# 561 dt 0.448000 rms 0.541 0.000% neg 0 invalid 762 tFOTS 16.9060 tGradient 3.4100 tsec 21.4250 #GCMRL# 562 dt 0.448000 rms 0.540 0.018% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4380 tsec 4.5190 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 0.524605 #FOTS# QuadFit found better minimum quadopt=(dt=2.03906,rms=0.481031) vs oldopt=(dt=1.28,rms=0.487314) iter 0, gcam->neg = 2079 after 16 iterations, nbhd size=1, neg = 0 #GCMRL# 564 dt 2.039062 rms 0.483 7.910% neg 0 invalid 762 tFOTS 16.8980 tGradient 2.7780 tsec 29.3580 #FOTS# QuadFit found better minimum quadopt=(dt=0.028,rms=0.483039) vs oldopt=(dt=0.02,rms=0.483051) #GCMRL# 565 dt 0.028000 rms 0.483 0.000% neg 0 invalid 762 tFOTS 16.9310 tGradient 2.8470 tsec 20.8890 #GCMRL# 566 dt 0.028000 rms 0.483 0.002% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8470 tsec 3.9310 #GCAMreg# pass 0 level1 0 level2 1 tsec 63.719 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 0.484113 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.482461) vs oldopt=(dt=0.08,rms=0.482521) #GCMRL# 568 dt 0.112000 rms 0.482 0.341% neg 0 invalid 762 tFOTS 16.9280 tGradient 2.8480 tsec 20.8570 #FOTS# QuadFit found better minimum quadopt=(dt=0.016,rms=0.482463) vs oldopt=(dt=0.02,rms=0.482464) #GCMRL# 569 dt 0.016000 rms 0.482 0.000% neg 0 invalid 762 tFOTS 16.9170 tGradient 2.8450 tsec 21.8650 #GCMRL# 570 dt 0.016000 rms 0.482 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8460 tsec 3.9300 label assignment complete, 0 changed (0.00%) GCAMregister done in 21.0356 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 0.469214 #FOTS# QuadFit found better minimum quadopt=(dt=27.744,rms=0.469187) vs oldopt=(dt=23.12,rms=0.469188) #GCMRL# 572 dt 27.744000 rms 0.469 0.006% neg 0 invalid 762 tFOTS 16.4240 tGradient 6.0600 tsec 23.5460 #FOTS# QuadFit found better minimum quadopt=(dt=0.0180625,rms=0.469187) vs oldopt=(dt=0.0225781,rms=0.469187) #GCMRL# 573 dt 0.018063 rms 0.469 0.000% neg 0 invalid 762 tFOTS 16.4230 tGradient 6.0690 tsec 23.5820 #GCAMreg# pass 0 level1 5 level2 1 tsec 59.773 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 0.469187 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.469016) vs oldopt=(dt=92.48,rms=0.469044) #GCMRL# 575 dt 73.984000 rms 0.469 0.037% neg 0 invalid 762 tFOTS 15.5520 tGradient 6.0490 tsec 22.6620 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.469003) vs oldopt=(dt=92.48,rms=0.469005) #GCMRL# 576 dt 73.984000 rms 0.469 0.000% neg 0 invalid 762 tFOTS 15.5440 tGradient 6.0490 tsec 22.6870 #GCMRL# 577 dt 73.984000 rms 0.469 0.004% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0510 tsec 7.1120 #GCMRL# 578 dt 73.984000 rms 0.469 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.0520 tsec 7.1120 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 0.469135 #FOTS# QuadFit found better minimum quadopt=(dt=9.072,rms=0.469077) vs oldopt=(dt=6.48,rms=0.469085) #GCMRL# 580 dt 9.072000 rms 0.469 0.013% neg 0 invalid 762 tFOTS 16.4460 tGradient 4.3750 tsec 21.8830 #FOTS# QuadFit found better minimum quadopt=(dt=3.888,rms=0.469071) vs oldopt=(dt=6.48,rms=0.469073) #GCMRL# 581 dt 3.888000 rms 0.469 0.000% neg 0 invalid 762 tFOTS 16.4380 tGradient 4.3790 tsec 21.9060 #GCAMreg# pass 0 level1 4 level2 1 tsec 54.776 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 0.469071 #GCMRL# 583 dt 103.680000 rms 0.469 0.095% neg 0 invalid 762 tFOTS 15.5510 tGradient 4.3760 tsec 20.9890 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.468351) vs oldopt=(dt=25.92,rms=0.468406) #GCMRL# 584 dt 36.288000 rms 0.468 0.000% neg 0 invalid 762 tFOTS 16.4060 tGradient 4.3790 tsec 21.8810 #GCMRL# 585 dt 36.288000 rms 0.468 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3830 tsec 5.4430 #GCMRL# 586 dt 36.288000 rms 0.468 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3770 tsec 5.4390 #GCMRL# 587 dt 36.288000 rms 0.468 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3780 tsec 5.4370 #GCMRL# 588 dt 36.288000 rms 0.468 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.3790 tsec 5.4390 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 0.468414 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.467606) vs oldopt=(dt=8,rms=0.467751) #GCMRL# 590 dt 11.200000 rms 0.468 0.173% neg 0 invalid 762 tFOTS 16.4390 tGradient 3.6430 tsec 21.1400 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.467304) vs oldopt=(dt=8,rms=0.467348) #GCMRL# 591 dt 11.200000 rms 0.467 0.000% neg 0 invalid 762 tFOTS 16.4320 tGradient 3.6430 tsec 21.1610 #GCMRL# 592 dt 11.200000 rms 0.467 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6680 tsec 4.7270 iter 0, gcam->neg = 1 after 6 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 3 level2 1 tsec 61.232 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 0.467209 #FOTS# QuadFit found better minimum quadopt=(dt=44.2857,rms=0.4642) vs oldopt=(dt=32,rms=0.464353) #GCMRL# 594 dt 44.285714 rms 0.464 0.644% neg 0 invalid 762 tFOTS 16.4230 tGradient 3.6430 tsec 21.1270 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.462687) vs oldopt=(dt=32,rms=0.462795) #GCMRL# 595 dt 25.600000 rms 0.463 0.326% neg 0 invalid 762 tFOTS 16.4210 tGradient 3.6430 tsec 21.1240 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.461913) vs oldopt=(dt=32,rms=0.461939) #GCMRL# 596 dt 25.600000 rms 0.462 0.000% neg 0 invalid 762 tFOTS 16.4230 tGradient 3.6430 tsec 21.1540 #GCMRL# 597 dt 25.600000 rms 0.461 0.147% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6420 tsec 4.7000 iter 0, gcam->neg = 3 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 598 dt 25.600000 rms 0.460 0.209% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6420 tsec 5.9770 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 599 dt 25.600000 rms 0.459 0.236% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6390 tsec 5.9710 iter 0, gcam->neg = 5 after 4 iterations, nbhd size=0, neg = 0 #GCMRL# 600 dt 25.600000 rms 0.458 0.209% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6490 tsec 7.7950 iter 0, gcam->neg = 6 after 9 iterations, nbhd size=1, neg = 0 #GCMRL# 601 dt 25.600000 rms 0.457 0.202% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6460 tsec 10.0340 iter 0, gcam->neg = 4 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 602 dt 25.600000 rms 0.457 0.168% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6450 tsec 5.9810 iter 0, gcam->neg = 6 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 603 dt 25.600000 rms 0.456 0.115% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6430 tsec 10.9320 iter 0, gcam->neg = 4 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 604 dt 25.600000 rms 0.455 0.118% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6410 tsec 5.9810 iter 0, gcam->neg = 5 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 605 dt 25.600000 rms 0.455 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6450 tsec 6.8850 iter 0, gcam->neg = 5 after 3 iterations, nbhd size=0, neg = 0 #GCMRL# 606 dt 25.600000 rms 0.454 0.131% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6400 tsec 7.3380 iter 0, gcam->neg = 5 after 5 iterations, nbhd size=0, neg = 0 #GCMRL# 607 dt 25.600000 rms 0.454 0.111% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6420 tsec 8.2260 iter 0, gcam->neg = 3 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 608 dt 25.600000 rms 0.453 0.106% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6420 tsec 6.0070 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.453136) vs oldopt=(dt=32,rms=0.453139) iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 609 dt 38.400000 rms 0.453 0.000% neg 0 invalid 762 tFOTS 15.5330 tGradient 3.6440 tsec 21.5390 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 0.458218 #FOTS# QuadFit found better minimum quadopt=(dt=2.70968,rms=0.458036) vs oldopt=(dt=2.88,rms=0.458038) #GCMRL# 611 dt 2.709677 rms 0.458 0.040% neg 0 invalid 762 tFOTS 16.4720 tGradient 2.9820 tsec 20.5150 #GCAMreg# pass 0 level1 2 level2 1 tsec 45.672 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 0.458036 #FOTS# QuadFit found better minimum quadopt=(dt=4.032,rms=0.457797) vs oldopt=(dt=2.88,rms=0.45782) #GCMRL# 613 dt 4.032000 rms 0.458 0.052% neg 0 invalid 762 tFOTS 16.4620 tGradient 2.9820 tsec 20.5040 #FOTS# QuadFit found better minimum quadopt=(dt=4.032,rms=0.457672) vs oldopt=(dt=2.88,rms=0.457685) #GCMRL# 614 dt 4.032000 rms 0.458 0.000% neg 0 invalid 762 tFOTS 16.4490 tGradient 2.9790 tsec 20.5160 #GCMRL# 615 dt 4.032000 rms 0.458 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9830 tsec 4.0430 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 0.46558 #GCAMreg# pass 0 level1 1 level2 1 tsec 25.006 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 0.46558 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 0.452204 #FOTS# QuadFit found better minimum quadopt=(dt=1.17091,rms=0.439708) vs oldopt=(dt=1.28,rms=0.439778) iter 0, gcam->neg = 835 after 16 iterations, nbhd size=1, neg = 0 #GCMRL# 619 dt 1.170914 rms 0.441 2.547% neg 0 invalid 762 tFOTS 16.4750 tGradient 2.1600 tsec 28.2440 #FOTS# QuadFit found better minimum quadopt=(dt=1.5e-05,rms=0.440689) vs oldopt=(dt=1.25e-05,rms=0.440689) #GCMRL# 620 dt 0.000015 rms 0.441 0.000% neg 0 invalid 762 tFOTS 20.7700 tGradient 2.1600 tsec 24.0230 #GCAMreg# pass 0 level1 0 level2 1 tsec 61.016 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 0.440689 #FOTS# QuadFit found better minimum quadopt=(dt=0.192,rms=0.439658) vs oldopt=(dt=0.32,rms=0.439922) #GCMRL# 622 dt 0.192000 rms 0.440 0.234% neg 0 invalid 762 tFOTS 16.4750 tGradient 2.1600 tsec 19.6950 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.43889) vs oldopt=(dt=0.32,rms=0.438917) #GCMRL# 623 dt 0.256000 rms 0.439 0.000% neg 0 invalid 762 tFOTS 16.4690 tGradient 2.1720 tsec 19.7300 #GCMRL# 624 dt 0.256000 rms 0.438 0.281% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.1610 tsec 3.2200 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 625 dt 0.256000 rms 0.436 0.374% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.1610 tsec 4.5020 iter 0, gcam->neg = 51 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 626 dt 0.256000 rms 0.435 0.248% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.1640 tsec 5.4090 iter 0, gcam->neg = 15 after 8 iterations, nbhd size=1, neg = 0 #GCMRL# 627 dt 0.256000 rms 0.434 0.267% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.1590 tsec 8.1030 iter 0, gcam->neg = 31 after 15 iterations, nbhd size=1, neg = 0 #GCMRL# 628 dt 0.256000 rms 0.434 -0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.1600 tsec 12.2750 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.433649) vs oldopt=(dt=0.08,rms=0.433668) #GCMRL# 629 dt 0.112000 rms 0.434 0.030% neg 0 invalid 762 tFOTS 16.4540 tGradient 2.1610 tsec 19.6740 #FOTS# QuadFit found better minimum quadopt=(dt=0.016,rms=0.433648) vs oldopt=(dt=0.02,rms=0.433648) GCAMregister done in 13.7212 min writing output transformation to transforms/talairach.m3z... GCAMwrite Calls to gcamLogLikelihoodEnergy 4713 tmin = 15.1496 Calls to gcamLabelEnergy 4116 tmin = 1.50825 Calls to gcamJacobianEnergy 4713 tmin = 17.9571 Calls to gcamSmoothnessEnergy 4713 tmin = 14.741 Calls to gcamLogLikelihoodTerm 631 tmin = 4.44668 Calls to gcamLabelTerm 572 tmin = 8.63708 Calls to gcamJacobianTerm 631 tmin = 12.2774 Calls to gcamSmoothnessTerm 631 tmin = 3.35202 Calls to gcamComputeGradient 631 tmin = 52.6739 Calls to gcamComputeMetricProperties 6775 tmin = 18.0442 mri_ca_register took 2 hours, 13 minutes and 13 seconds. #VMPC# mri_ca_register VmPeak 2093320 FSRUNTIME@ mri_ca_register 2.2204 hours 1 threads @#@FSTIME 2021:10:07:14:02:17 mri_ca_register N 9 e 7993.27 S 3.16 U 7971.14 P 99% M 1343588 F 0 R 3079543 W 0 c 27313 w 77 I 0 O 67256 L 17.97 18.04 18.33 @#@FSLOADPOST 2021:10:07:16:15:31 mri_ca_register N 9 12.00 12.36 13.22 #-------------------------------------- #@# SubCort Seg Thu Oct 7 16:15:31 BST 2021 mri_seg_diff --seg1 aseg.auto.mgz --seg2 aseg.presurf.mgz --diff aseg.manedit.mgz 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri cmdline mri_seg_diff --seg1 aseg.auto.mgz --seg2 aseg.presurf.mgz --diff aseg.manedit.mgz sysname Linux hostname cpu-e-1124 machine x86_64 user mp2011 Seg1 aseg.auto.mgz Seg2 aseg.presurf.mgz Diff aseg.manedit.mgz InDiff (null) Merged (null) ForceDiff 0 Computing difference between segmentations No difference found. mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/software/freesurfer/7.1.0/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz sysname Linux hostname cpu-e-1124 machine x86_64 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only cd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/software/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/software/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 7.43 Atlas used for the 3D morph was /usr/local/software/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 = 0.10742 (27) Left_Lateral_Ventricle (4): linear fit = 1.33 x + 0.0 (5825 voxels, overlap=0.567) Left_Lateral_Ventricle (4): linear fit = 1.33 x + 0.0 (5825 voxels, peak = 26), gca=26.5 gca peak = 0.20380 (13) mri peak = 0.10086 (27) Right_Lateral_Ventricle (43): linear fit = 1.88 x + 0.0 (3533 voxels, overlap=0.318) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (3533 voxels, peak = 25), gca=19.5 gca peak = 0.26283 (96) mri peak = 0.11181 (103) Right_Pallidum (52): linear fit = 1.08 x + 0.0 (794 voxels, overlap=0.857) Right_Pallidum (52): linear fit = 1.08 x + 0.0 (794 voxels, peak = 103), gca=103.2 gca peak = 0.15814 (97) mri peak = 0.11539 (102) Left_Pallidum (13): linear fit = 1.08 x + 0.0 (750 voxels, overlap=0.471) Left_Pallidum (13): linear fit = 1.08 x + 0.0 (750 voxels, peak = 104), gca=104.3 gca peak = 0.27624 (56) mri peak = 0.15552 (51) Right_Hippocampus: unreasonable value (49.6/51.0), not in range [50, 90] - rejecting gca peak = 0.28723 (59) mri peak = 0.13027 (50) Left_Hippocampus (17): linear fit = 0.88 x + 0.0 (761 voxels, overlap=0.885) Left_Hippocampus (17): linear fit = 0.88 x + 0.0 (761 voxels, peak = 52), gca=51.6 gca peak = 0.07623 (103) mri peak = 0.09491 (104) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (55588 voxels, overlap=0.743) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (55588 voxels, peak = 103), gca=103.0 gca peak = 0.07837 (105) mri peak = 0.09290 (101) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (53971 voxels, overlap=0.759) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (53971 voxels, peak = 104), gca=104.5 gca peak = 0.10165 (58) mri peak = 0.04183 (51) Left_Cerebral_Cortex (3): linear fit = 0.92 x + 0.0 (14203 voxels, overlap=0.979) Left_Cerebral_Cortex (3): linear fit = 0.92 x + 0.0 (14203 voxels, peak = 53), gca=53.1 gca peak = 0.11113 (58) mri peak = 0.04660 (56) Right_Cerebral_Cortex (42): linear fit = 0.96 x + 0.0 (11544 voxels, overlap=0.981) Right_Cerebral_Cortex (42): linear fit = 0.96 x + 0.0 (11544 voxels, peak = 56), gca=56.0 gca peak = 0.27796 (67) mri peak = 0.06495 (63) Right_Caudate (50): linear fit = 0.95 x + 0.0 (1126 voxels, overlap=1.015) Right_Caudate (50): linear fit = 0.95 x + 0.0 (1126 voxels, peak = 64), gca=64.0 gca peak = 0.14473 (69) mri peak = 0.10021 (72) Left_Caudate (11): linear fit = 0.96 x + 0.0 (1188 voxels, overlap=1.003) Left_Caudate (11): linear fit = 0.96 x + 0.0 (1188 voxels, peak = 67), gca=66.6 gca peak = 0.14301 (56) mri peak = 0.04870 (45) Left_Cerebellum_Cortex (8): linear fit = 0.79 x + 0.0 (2990 voxels, overlap=0.144) Left_Cerebellum_Cortex (8): linear fit = 0.79 x + 0.0 (2990 voxels, peak = 44), gca=44.0 gca peak = 0.14610 (55) mri peak = 0.04405 (42) Right_Cerebellum_Cortex (47): linear fit = 0.80 x + 0.0 (3194 voxels, overlap=0.051) Right_Cerebellum_Cortex (47): linear fit = 0.80 x + 0.0 (3194 voxels, peak = 44), gca=43.7 gca peak = 0.16309 (85) mri peak = 0.07791 (77) Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (853 voxels, overlap=0.879) Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (853 voxels, peak = 81), gca=81.2 gca peak = 0.15172 (84) mri peak = 0.06395 (80) Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (988 voxels, overlap=0.991) Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (988 voxels, peak = 82), gca=81.9 gca peak = 0.30461 (58) mri peak = 0.09590 (56) Left_Amygdala (18): linear fit = 0.94 x + 0.0 (462 voxels, overlap=1.024) Left_Amygdala (18): linear fit = 0.94 x + 0.0 (462 voxels, peak = 55), gca=54.8 gca peak = 0.32293 (57) mri peak = 0.13746 (51) Right_Amygdala (54): linear fit = 0.89 x + 0.0 (412 voxels, overlap=1.018) Right_Amygdala (54): linear fit = 0.89 x + 0.0 (412 voxels, peak = 51), gca=51.0 gca peak = 0.11083 (90) mri peak = 0.06851 (88) Left_Thalamus (10): linear fit = 1.00 x + 0.0 (3420 voxels, overlap=0.973) Left_Thalamus (10): linear fit = 1.00 x + 0.0 (3420 voxels, peak = 90), gca=89.6 gca peak = 0.11393 (83) mri peak = 0.07088 (91) Right_Thalamus (49): linear fit = 1.09 x + 0.0 (3456 voxels, overlap=0.696) Right_Thalamus (49): linear fit = 1.09 x + 0.0 (3456 voxels, peak = 90), gca=90.1 gca peak = 0.08575 (81) mri peak = 0.07593 (74) Left_Putamen (12): linear fit = 0.93 x + 0.0 (1284 voxels, overlap=0.933) Left_Putamen (12): linear fit = 0.93 x + 0.0 (1284 voxels, peak = 75), gca=74.9 gca peak = 0.08618 (78) mri peak = 0.06312 (74) Right_Putamen (51): linear fit = 0.94 x + 0.0 (1603 voxels, overlap=0.811) Right_Putamen (51): linear fit = 0.94 x + 0.0 (1603 voxels, peak = 73), gca=72.9 gca peak = 0.08005 (78) mri peak = 0.07014 (86) Brain_Stem (16): linear fit = 1.12 x + 0.0 (5506 voxels, overlap=0.492) Brain_Stem (16): linear fit = 1.12 x + 0.0 (5506 voxels, peak = 88), gca=87.8 gca peak = 0.12854 (88) mri peak = 0.08280 (97) Right_VentralDC (60): linear fit = 1.13 x + 0.0 (1293 voxels, overlap=0.425) Right_VentralDC (60): linear fit = 1.13 x + 0.0 (1293 voxels, peak = 100), gca=99.9 gca peak = 0.15703 (87) mri peak = 0.07268 (98) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (1130 voxels, overlap=0.405) Left_VentralDC (28): linear fit = 1.12 x + 0.0 (1130 voxels, peak = 97), gca=97.0 gca peak = 0.17522 (25) mri peak = 0.11408 (27) Third_Ventricle (14): linear fit = 1.05 x + 0.0 (187 voxels, overlap=0.855) Third_Ventricle (14): linear fit = 1.05 x + 0.0 (187 voxels, peak = 26), gca=26.4 gca peak = 0.17113 (14) mri peak = 0.10178 (22) Fourth_Ventricle (15): linear fit = 1.40 x + 0.0 (421 voxels, overlap=0.915) Fourth_Ventricle (15): linear fit = 1.40 x + 0.0 (421 voxels, peak = 20), gca=19.7 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_Hippocampus = 0.27624 (56) 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 setting label Right_Hippocampus based on Left_Hippocampus = 0.88 x + 0: 52 estimating mean gm scale to be 0.91 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.32 x + 0.0 Left_Pallidum too bright - rescaling by 0.965 (from 1.075) to 100.6 (was 104.3) Right_Pallidum too bright - rescaling by 0.975 (from 1.075) to 100.6 (was 103.2) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.11251 (28) mri peak = 0.10742 (27) Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (5825 voxels, overlap=0.882) Left_Lateral_Ventricle (4): linear fit = 0.99 x + 0.0 (5825 voxels, peak = 28), gca=27.6 gca peak = 0.17043 (19) mri peak = 0.10086 (27) Right_Lateral_Ventricle (43): linear fit = 1.29 x + 0.0 (3533 voxels, overlap=0.599) Right_Lateral_Ventricle (43): linear fit = 1.29 x + 0.0 (3533 voxels, peak = 25), gca=24.6 gca peak = 0.20748 (99) mri peak = 0.11181 (103) Right_Pallidum (52): linear fit = 1.01 x + 0.0 (794 voxels, overlap=1.006) Right_Pallidum (52): linear fit = 1.01 x + 0.0 (794 voxels, peak = 100), gca=100.5 gca peak = 0.18255 (98) mri peak = 0.11539 (102) Left_Pallidum (13): linear fit = 1.04 x + 0.0 (750 voxels, overlap=0.866) Left_Pallidum (13): linear fit = 1.04 x + 0.0 (750 voxels, peak = 102), gca=102.4 gca peak = 0.32109 (49) mri peak = 0.15552 (51) Right_Hippocampus: unreasonable value (49.7/51.0), not in range [50, 90] - rejecting gca peak = 0.32106 (52) mri peak = 0.13027 (50) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (761 voxels, overlap=1.005) Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (761 voxels, peak = 52), gca=52.0 gca peak = 0.07622 (103) mri peak = 0.09491 (104) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (55588 voxels, overlap=0.744) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (55588 voxels, peak = 103), gca=103.0 gca peak = 0.08124 (104) mri peak = 0.09290 (101) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (53971 voxels, overlap=0.737) Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (53971 voxels, peak = 106), gca=105.6 gca peak = 0.10933 (53) mri peak = 0.04183 (51) Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (14203 voxels, overlap=1.000) Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (14203 voxels, peak = 55), gca=55.4 gca peak = 0.11552 (56) mri peak = 0.04660 (56) Right_Cerebral_Cortex (42): linear fit = 1.04 x + 0.0 (11544 voxels, overlap=0.985) Right_Cerebral_Cortex (42): linear fit = 1.04 x + 0.0 (11544 voxels, peak = 59), gca=58.5 gca peak = 0.27994 (64) mri peak = 0.06495 (63) Right_Caudate (50): linear fit = 1.05 x + 0.0 (1126 voxels, overlap=1.013) Right_Caudate (50): linear fit = 1.05 x + 0.0 (1126 voxels, peak = 68), gca=67.5 gca peak = 0.15630 (75) mri peak = 0.10021 (72) Left_Caudate (11): linear fit = 0.99 x + 0.0 (1188 voxels, overlap=1.002) Left_Caudate (11): linear fit = 0.99 x + 0.0 (1188 voxels, peak = 74), gca=73.9 gca peak = 0.17674 (44) mri peak = 0.04870 (45) Left_Cerebellum_Cortex (8): linear fit = 1.03 x + 0.0 (2990 voxels, overlap=0.999) Left_Cerebellum_Cortex (8): linear fit = 1.03 x + 0.0 (2990 voxels, peak = 46), gca=45.5 gca peak = 0.18429 (44) mri peak = 0.04405 (42) Right_Cerebellum_Cortex (47): linear fit = 1.03 x + 0.0 (3194 voxels, overlap=0.995) Right_Cerebellum_Cortex (47): linear fit = 1.03 x + 0.0 (3194 voxels, peak = 46), gca=45.5 gca peak = 0.16679 (81) mri peak = 0.07791 (77) Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (853 voxels, overlap=0.985) Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (853 voxels, peak = 80), gca=79.8 gca peak = 0.15217 (82) mri peak = 0.06395 (80) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (988 voxels, overlap=0.972) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (988 voxels, peak = 82), gca=82.0 gca peak = 0.33758 (55) mri peak = 0.09590 (56) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (462 voxels, overlap=1.024) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (462 voxels, peak = 55), gca=55.0 gca peak = 0.38088 (51) mri peak = 0.13746 (51) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (412 voxels, overlap=1.008) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (412 voxels, peak = 51), gca=51.0 gca peak = 0.10572 (90) mri peak = 0.06851 (88) Left_Thalamus (10): linear fit = 1.01 x + 0.0 (3420 voxels, overlap=0.967) Left_Thalamus (10): linear fit = 1.01 x + 0.0 (3420 voxels, peak = 91), gca=91.3 gca peak = 0.10486 (90) mri peak = 0.07088 (91) Right_Thalamus (49): linear fit = 0.98 x + 0.0 (3456 voxels, overlap=0.901) Right_Thalamus (49): linear fit = 0.98 x + 0.0 (3456 voxels, peak = 88), gca=87.8 gca peak = 0.08513 (75) mri peak = 0.07593 (74) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1284 voxels, overlap=0.958) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1284 voxels, peak = 76), gca=76.1 gca peak = 0.08432 (75) mri peak = 0.06312 (74) Right_Putamen (51): linear fit = 1.00 x + 0.0 (1603 voxels, overlap=1.002) Right_Putamen (51): linear fit = 1.00 x + 0.0 (1603 voxels, peak = 75), gca=75.0 gca peak = 0.07169 (88) mri peak = 0.07014 (86) Brain_Stem (16): linear fit = 1.00 x + 0.0 (5506 voxels, overlap=0.844) Brain_Stem (16): linear fit = 1.00 x + 0.0 (5506 voxels, peak = 88), gca=87.6 gca peak = 0.10681 (102) mri peak = 0.08280 (97) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1293 voxels, overlap=0.868) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1293 voxels, peak = 103), gca=102.5 gca peak = 0.13685 (95) mri peak = 0.07268 (98) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1130 voxels, overlap=0.901) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1130 voxels, peak = 95), gca=95.5 gca peak = 0.16628 (27) mri peak = 0.11408 (27) Third_Ventricle (14): linear fit = 0.99 x + 0.0 (187 voxels, overlap=0.946) Third_Ventricle (14): linear fit = 0.99 x + 0.0 (187 voxels, peak = 27), gca=26.6 gca peak = 0.15172 (20) mri peak = 0.10178 (22) Fourth_Ventricle (15): linear fit = 0.94 x + 0.0 (421 voxels, overlap=0.742) Fourth_Ventricle (15): linear fit = 0.94 x + 0.0 (421 voxels, peak = 19), gca=18.7 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.20983 (24) gca peak CSF = 0.18239 (48) gca peak Left_Accumbens_area = 0.80259 (60) gca peak Left_undetermined = 0.99358 (31) gca peak Left_vessel = 0.88707 (53) gca peak Left_choroid_plexus = 0.11176 (35) gca peak Right_Inf_Lat_Vent = 0.24220 (20) gca peak Right_Hippocampus = 0.32109 (49) gca peak Right_Accumbens_area = 0.31650 (62) gca peak Right_vessel = 0.77074 (52) gca peak Right_choroid_plexus = 0.13289 (38) gca peak Fifth_Ventricle = 0.77755 (42) gca peak WM_hypointensities = 0.11344 (76) gca peak non_WM_hypointensities = 0.10953 (41) gca peak Optic_Chiasm = 0.60492 (76) not using caudate to estimate GM means setting label Right_Hippocampus based on Left_Hippocampus = 1.00 x + 0: 52 estimating mean gm scale to be 1.01 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 0.988 (from 1.045) to 101.2 (was 102.4) Right_Pallidum too bright - rescaling by 1.007 (from 1.015) to 101.2 (was 100.5) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 116974 voxels changed in iteration 0 of unlikely voxel relabeling 324 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 39296 gm and wm labels changed (%29 to gray, %71 to white out of all changed labels) 714 hippocampal voxels changed. 1 amygdala voxels changed. Reclassifying using Gibbs Priors pass 1: 102205 changed. image ll: -2.202, PF=0.500 pass 2: 33785 changed. image ll: -2.202, PF=0.500 pass 3: 11105 changed. pass 4: 4349 changed. 75756 voxels changed in iteration 0 of unlikely voxel relabeling 319 voxels changed in iteration 1 of unlikely voxel relabeling 6 voxels changed in iteration 2 of unlikely voxel relabeling 3 voxels changed in iteration 3 of unlikely voxel relabeling 4 voxels changed in iteration 4 of unlikely voxel relabeling 9503 voxels changed in iteration 0 of unlikely voxel relabeling 89 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 8386 voxels changed in iteration 0 of unlikely voxel relabeling 70 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 6294 voxels changed in iteration 0 of unlikely voxel relabeling 30 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 0 with volume 17174 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 340 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 3 with volume 443 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 4 with volume 12257 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 887 above threshold 100 - not erasing !!!!!!!!!! writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 2641.842684 mri_ca_label stimesec 2.036154 mri_ca_label ru_maxrss 2144052 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 1805872 mri_ca_label ru_majflt 0 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 3272 mri_ca_label ru_oublock 760 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 174 mri_ca_label ru_nivcsw 15834 auto-labeling took 44 minutes and 10 seconds. @#@FSTIME 2021:10:07:16:15:34 mri_ca_label N 10 e 2650.50 S 2.04 U 2641.84 P 99% M 2144052 F 0 R 1805892 W 0 c 15834 w 175 I 3272 O 760 L 11.92 12.34 13.21 @#@FSLOADPOST 2021:10:07:16:59:44 mri_ca_label N 10 12.00 12.01 12.08 #-------------------------------------- #@# CC Seg Thu Oct 7 16:59:44 BST 2021 mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/cc_up.lta 32004 will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/transforms/cc_up.lta reading aseg from /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/aseg.auto_noCCseg.mgz reading norm from /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/norm.mgz 128800 voxels in left wm, 81046 in right wm, xrange [117, 139] searching rotation angles z=[-3 11], y=[-2 12] searching scale 1 Z rot -3.5 searching scale 1 Z rot -3.2 searching scale 1 Z rot -3.0 searching scale 1 Z rot -2.7 searching scale 1 Z rot -2.5 searching scale 1 Z rot -2.2 searching scale 1 Z rot -2.0 searching scale 1 Z rot -1.7 searching scale 1 Z rot -1.5 searching scale 1 Z rot -1.2 searching scale 1 Z rot -1.0 searching scale 1 Z rot -0.7 searching scale 1 Z rot -0.5 searching scale 1 Z rot -0.2 searching scale 1 Z rot 0.0 searching scale 1 Z rot 0.3 searching scale 1 Z rot 0.5 searching scale 1 Z rot 0.8 searching scale 1 Z rot 1.0 searching scale 1 Z rot 1.3 searching scale 1 Z rot 1.5 searching scale 1 Z rot 1.8 searching scale 1 Z rot 2.0 searching scale 1 Z rot 2.3 searching scale 1 Z rot 2.5 searching scale 1 Z rot 2.8 searching scale 1 Z rot 3.0 searching scale 1 Z rot 3.3 searching scale 1 Z rot 3.5 searching scale 1 Z rot 3.8 searching scale 1 Z rot 4.0 searching scale 1 Z rot 4.3 searching scale 1 Z rot 4.5 searching scale 1 Z rot 4.8 searching scale 1 Z rot 5.0 searching scale 1 Z rot 5.3 searching scale 1 Z rot 5.5 searching scale 1 Z rot 5.8 searching scale 1 Z rot 6.0 searching scale 1 Z rot 6.3 searching scale 1 Z rot 6.5 searching scale 1 Z rot 6.8 searching scale 1 Z rot 7.0 searching scale 1 Z rot 7.3 searching scale 1 Z rot 7.5 searching scale 1 Z rot 7.8 searching scale 1 Z rot 8.0 searching scale 1 Z rot 8.3 searching scale 1 Z rot 8.5 searching scale 1 Z rot 8.8 searching scale 1 Z rot 9.0 searching scale 1 Z rot 9.3 searching scale 1 Z rot 9.5 global minimum found at slice 126.0, rotations (5.19, 2.76) final transformation (x=126.0, yr=5.192, zr=2.762): 0.99474 -0.04818 0.09038 -1.85872; 0.04799 0.99884 0.00436 16.61357; -0.09049 -0.00000 0.99590 33.83642; 0.00000 0.00000 0.00000 1.00000; updating x range to be [125, 130] in xformed coordinates best xformed slice 126 cc center is found at 126 105 106 eigenvectors: 0.00099 -0.00083 1.00000; -0.12180 -0.99255 -0.00070; 0.99255 -0.12180 -0.00108; error in mid anterior detected - correcting... writing aseg with callosum to /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri/aseg.auto.mgz... corpus callosum segmentation took 2.2 minutes @#@FSTIME 2021:10:07:16:59:45 mri_cc N 7 e 134.76 S 0.19 U 134.23 P 99% M 340352 F 0 R 20391 W 0 c 493 w 74 I 0 O 744 L 12.00 12.01 12.08 @#@FSLOADPOST 2021:10:07:17:01:59 mri_cc N 7 12.00 12.01 12.07 #-------------------------------------- #@# Merge ASeg Thu Oct 7 17:01:59 BST 2021 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Thu Oct 7 17:01:59 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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... 1812 control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... Smoothing with sigma 8 Applying bias correction building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 55 (55), valley at 37 (37) csf peak at 28, setting threshold to 46 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 60 (60), valley at 38 (38) csf peak at 26, setting threshold to 48 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 2 minutes and 24 seconds. @#@FSTIME 2021:10:07:17:01:59 mri_normalize N 9 e 145.33 S 0.87 U 144.02 P 99% M 1234716 F 0 R 349824 W 0 c 954 w 91 I 2960 O 2880 L 12.08 12.03 12.07 @#@FSLOADPOST 2021:10:07:17:04:25 mri_normalize N 9 12.02 12.03 12.06 #-------------------------------------------- #@# Mask BFS Thu Oct 7 17:04:25 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz threshold mask volume at 5 DoAbs = 0 Found 1686159 voxels in mask (pct= 10.05) MRImask(): AllowDiffGeom = 1 Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2021:10:07:17:04:25 mri_mask N 5 e 1.01 S 0.02 U 0.97 P 98% M 70580 F 0 R 3448 W 0 c 5 w 62 I 0 O 2816 L 12.02 12.03 12.06 @#@FSLOADPOST 2021:10:07:17:04:26 mri_mask N 5 12.02 12.03 12.06 #-------------------------------------------- #@# WM Segmentation Thu Oct 7 17:04:26 BST 2021 mri_binarize --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri cmdline mri_binarize --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt sysname Linux hostname cpu-e-1124 machine x86_64 user mp2011 input wm.mgz frame 0 nErode3d 0 nErode2d 0 output wm255.mgz Binarizing based on threshold min 255 max 255 binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 25 values in range Counting number of voxels in first frame Found 24 voxels in final mask Count: 24 24.000000 16777216 0.000143 mri_binarize done mri_binarize --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt 7.1.0 cwd /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/mri cmdline mri_binarize --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt sysname Linux hostname cpu-e-1124 machine x86_64 user mp2011 input wm.mgz frame 0 nErode3d 0 nErode2d 0 output wm1.mgz Binarizing based on threshold min 1 max 1 binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 226 values in range Counting number of voxels in first frame Found 225 voxels in final mask Count: 225 225.000000 16777216 0.001341 mri_binarize done rm wm1.mgz wm255.mgz Found wm edits: 225 deletes, 24 fills cp wm.mgz wm.seg.mgz AntsDenoiseImageFs -i brain.mgz -o antsdn.brain.mgz @#@FSTIME 2021:10:07:17:04:32 AntsDenoiseImageFs N 4 e 49.96 S 0.06 U 49.66 P 99% M 347528 F 1 R 7421 W 0 c 279 w 49 I 6680 O 2880 L 11.94 12.02 12.06 @#@FSLOADPOST 2021:10:07:17:05:22 AntsDenoiseImageFs N 4 11.97 12.01 12.05 mri_segment -wsizemm 13 -keep -mprage antsdn.brain.mgz wm.seg.mgz preserving editing changes in output volume... 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 (105.0): 105.1 +- 4.7 [79.0 --> 125.0] CCS GM (67.0) : 64.3 +- 12.8 [30.0 --> 95.0] white_mean 105.148 white_sigma 4.68919 gray_mean 64.2744 gray_sigma 12.815 setting bottom of white matter range wm_low to 77.1 setting top of gray matter range gray_hi to 89.9 wm_low 77.0894 wm_hi 125 gray_low 30 gray_hi 89.9044 Redoing initial intensity segmentation... Recomputing local statistics to label ambiguous voxels... wm_low 77.0894 wm_hi 125 gray_low 30 gray_hi 89.9044 using local geometry to label remaining ambiguous voxels... polvwsize = 5, polvlen = 3, gray_hi = 89.9044, wm_low = 77.0894 MRIcpolvMedianCurveSegment(): wsize=5, len=3, gmhi=89.9044, wmlow=77.0894 136705 voxels processed (0.81%) 62585 voxels white (0.37%) 74120 voxels non-white (0.44%) Reclassifying voxels using Gaussian border classifier niter=1 MRIreclassify(): wm_low=72.0894, gray_hi=89.9044, wsize=13 202054 voxels tested (1.20%) 64220 voxels changed (0.38%) 41522 multi-scale searches (0.25%) Recovering bright white MRIrecoverBrightWhite() wm_low 77.0894 wm_hi 125 slack 4.68919 pct_thresh 0.33 intensity_thresh 129.689 nvox_thresh 8.58 480 voxels tested (0.00%) 304 voxels changed (0.00%) removing voxels with positive offset direction... MRIremoveWrongDirection() wsize=3, lowthr=72.0894, hithr=89.9044 smoothing input volume with sigma = 0.250 100786 voxels tested (0.60%) 20887 voxels changed (0.12%) thicken = 1 removing 1-dimensional structures... MRIremove1dStructures(): max_iter=10000, thresh=2, WM_MIN_VAL=5 7499 sparsely connected voxels removed in 1 iterations thickening thin strands.... thickness 4 nsegments 20 wm_hi 125 4509 diagonally connected voxels added... MRIthickenThinWMStrands(): thickness=4, nsegments=20 20 segments, 6016 filled MRIfindBrightNonWM(): 1211 bright non-wm voxels segmented. MRIfilterMorphology() WM_MIN_VAL=5, DIAGONAL_FILL=230 white matter segmentation took 1.3 minutes writing output to wm.seg.mgz... @#@FSTIME 2021:10:07:17:05:22 mri_segment N 6 e 79.54 S 0.18 U 79.16 P 99% M 151832 F 0 R 53012 W 0 c 240 w 68 I 0 O 1016 L 11.97 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:06:41 mri_segment N 6 11.99 12.01 12.05 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 0.45 minutes reading wm segmentation from wm.seg.mgz... 0 voxels added to wm to prevent paths from MTL structures to cortex 3596 additional wm voxels added 0 additional wm voxels added SEG EDIT: 74893 voxels turned on, 14827 voxels turned off. propagating editing to output volume from wm.seg.mgz 115,126,128 old 97 new 97 115,126,128 old 97 new 97 writing edited volume to wm.asegedit.mgz.... @#@FSTIME 2021:10:07:17:06:42 mri_edit_wm_with_aseg N 5 e 26.97 S 0.15 U 26.74 P 99% M 473356 F 0 R 24385 W 0 c 129 w 95 I 0 O 984 L 11.99 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:07:09 mri_edit_wm_with_aseg N 5 12.00 12.01 12.05 mri_pretess -keep wm.asegedit.mgz wm norm.mgz wm.mgz Iteration Number : 1 pass 1 (xy+): 24 found - 24 modified | TOTAL: 24 pass 2 (xy+): 0 found - 24 modified | TOTAL: 24 pass 1 (xy-): 54 found - 54 modified | TOTAL: 78 pass 2 (xy-): 0 found - 54 modified | TOTAL: 78 pass 1 (yz+): 36 found - 36 modified | TOTAL: 114 pass 2 (yz+): 0 found - 36 modified | TOTAL: 114 pass 1 (yz-): 32 found - 32 modified | TOTAL: 146 pass 2 (yz-): 0 found - 32 modified | TOTAL: 146 pass 1 (xz+): 35 found - 35 modified | TOTAL: 181 pass 2 (xz+): 0 found - 35 modified | TOTAL: 181 pass 1 (xz-): 31 found - 31 modified | TOTAL: 212 pass 2 (xz-): 0 found - 31 modified | TOTAL: 212 Iteration Number : 1 pass 1 (+++): 41 found - 41 modified | TOTAL: 41 pass 2 (+++): 0 found - 41 modified | TOTAL: 41 pass 1 (+++): 30 found - 30 modified | TOTAL: 71 pass 2 (+++): 0 found - 30 modified | TOTAL: 71 pass 1 (+++): 37 found - 37 modified | TOTAL: 108 pass 2 (+++): 0 found - 37 modified | TOTAL: 108 pass 1 (+++): 31 found - 31 modified | TOTAL: 139 pass 2 (+++): 0 found - 31 modified | TOTAL: 139 Iteration Number : 1 pass 1 (++): 179 found - 179 modified | TOTAL: 179 pass 2 (++): 0 found - 179 modified | TOTAL: 179 pass 1 (+-): 239 found - 239 modified | TOTAL: 418 pass 2 (+-): 1 found - 240 modified | TOTAL: 419 pass 3 (+-): 0 found - 240 modified | TOTAL: 419 pass 1 (--): 192 found - 192 modified | TOTAL: 611 pass 2 (--): 0 found - 192 modified | TOTAL: 611 pass 1 (-+): 160 found - 160 modified | TOTAL: 771 pass 2 (-+): 0 found - 160 modified | TOTAL: 771 Iteration Number : 2 pass 1 (xy+): 15 found - 15 modified | TOTAL: 15 pass 2 (xy+): 0 found - 15 modified | TOTAL: 15 pass 1 (xy-): 4 found - 4 modified | TOTAL: 19 pass 2 (xy-): 0 found - 4 modified | TOTAL: 19 pass 1 (yz+): 9 found - 9 modified | TOTAL: 28 pass 2 (yz+): 0 found - 9 modified | TOTAL: 28 pass 1 (yz-): 6 found - 6 modified | TOTAL: 34 pass 2 (yz-): 0 found - 6 modified | TOTAL: 34 pass 1 (xz+): 9 found - 9 modified | TOTAL: 43 pass 2 (xz+): 0 found - 9 modified | TOTAL: 43 pass 1 (xz-): 5 found - 5 modified | TOTAL: 48 pass 2 (xz-): 0 found - 5 modified | TOTAL: 48 Iteration Number : 2 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 2 found - 2 modified | TOTAL: 4 pass 2 (+++): 0 found - 2 modified | TOTAL: 4 pass 1 (+++): 2 found - 2 modified | TOTAL: 6 pass 2 (+++): 0 found - 2 modified | TOTAL: 6 pass 1 (+++): 2 found - 2 modified | TOTAL: 8 pass 2 (+++): 0 found - 2 modified | TOTAL: 8 Iteration Number : 2 pass 1 (++): 4 found - 4 modified | TOTAL: 4 pass 2 (++): 0 found - 4 modified | TOTAL: 4 pass 1 (+-): 8 found - 8 modified | TOTAL: 12 pass 2 (+-): 0 found - 8 modified | TOTAL: 12 pass 1 (--): 7 found - 7 modified | TOTAL: 19 pass 2 (--): 0 found - 7 modified | TOTAL: 19 pass 1 (-+): 7 found - 7 modified | TOTAL: 26 pass 2 (-+): 0 found - 7 modified | TOTAL: 26 Iteration Number : 3 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 1 found - 1 modified | TOTAL: 2 pass 2 (xy-): 0 found - 1 modified | TOTAL: 2 pass 1 (yz+): 1 found - 1 modified | TOTAL: 3 pass 2 (yz+): 0 found - 1 modified | TOTAL: 3 pass 1 (yz-): 1 found - 1 modified | TOTAL: 4 pass 2 (yz-): 0 found - 1 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 : 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 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 4 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 1210 (out of 647280: 0.186936) keeping edits binarizing input wm segmentation... Ambiguous edge configurations... Searching for edits to keep ... kept 25 WM ON voxels kept 226 WM OFF voxels mri_pretess done @#@FSTIME 2021:10:07:17:07:09 mri_pretess N 5 e 3.45 S 0.02 U 3.29 P 96% M 53672 F 1 R 5267 W 0 c 22 w 79 I 5768 O 992 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:07:12 mri_pretess N 5 12.00 12.01 12.05 #-------------------------------------------- #@# Fill Thu Oct 7 17:07:12 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70732; -0.07698 -0.21577 0.91559 36.19342; 0.00000 0.00000 0.00000 1.00000; voxel to talairach voxel transform 1.00600 -0.06253 0.08647 -3.21329; 0.04110 1.09730 0.25905 -50.70732; -0.07698 -0.21577 0.91559 36.19342; 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] = 1519 (min = 350, max = 1400), aspect = 0.51 (min = 0.10, max = 0.75) need search nearby using seed (124, 113, 92), TAL = (4.0, -36.0, 15.0) talairach voxel to voxel transform 0.98468 0.03583 -0.10314 8.71378; -0.05345 0.86136 -0.23866 52.14314; 0.07019 0.20600 1.02728 -26.50952; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (124, 113, 92) --> (4.0, -36.0, 15.0) done. writing output to filled.mgz... filling took 1.1 minutes talairach cc position changed to (4.00, -36.00, 15.00) Erasing brainstem...done. MRImask(): AllowDiffGeom = 1 seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(22.00, -36.00, 15.00) SRC: (107.65, 121.85, 98.72) search lh wm seed point around talairach space (-14.00, -36.00, 15.00), SRC: (143.10, 119.93, 101.24) 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 2021:10:07:17:07:12 mri_fill N 8 e 66.49 S 0.88 U 65.40 P 99% M 991744 F 0 R 490652 W 0 c 383 w 79 I 8 O 304 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:19 mri_fill N 8 12.00 12.01 12.05 #-------------------------------------------- #@# Tessellate lh Thu Oct 7 17:08:19 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz Iteration Number : 1 pass 1 (xy+): 3 found - 3 modified | TOTAL: 3 pass 2 (xy+): 0 found - 3 modified | TOTAL: 3 pass 1 (xy-): 3 found - 3 modified | TOTAL: 6 pass 2 (xy-): 0 found - 3 modified | TOTAL: 6 pass 1 (yz+): 11 found - 11 modified | TOTAL: 17 pass 2 (yz+): 0 found - 11 modified | TOTAL: 17 pass 1 (yz-): 3 found - 3 modified | TOTAL: 20 pass 2 (yz-): 0 found - 3 modified | TOTAL: 20 pass 1 (xz+): 2 found - 2 modified | TOTAL: 22 pass 2 (xz+): 0 found - 2 modified | TOTAL: 22 pass 1 (xz-): 3 found - 3 modified | TOTAL: 25 pass 2 (xz-): 0 found - 3 modified | TOTAL: 25 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 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 Iteration Number : 1 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 1 found - 1 modified | TOTAL: 2 pass 2 (+-): 0 found - 1 modified | TOTAL: 2 pass 1 (--): 0 found - 0 modified | TOTAL: 2 pass 1 (-+): 1 found - 1 modified | TOTAL: 3 pass 2 (-+): 0 found - 1 modified | TOTAL: 3 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-): 1 found - 1 modified | TOTAL: 1 pass 2 (xz-): 0 found - 1 modified | TOTAL: 1 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 32 (out of 320344: 0.009989) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2021:10:07:17:08:19 mri_pretess N 4 e 1.83 S 0.00 U 1.81 P 99% M 36928 F 0 R 2223 W 0 c 7 w 58 I 0 O 296 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:20 mri_pretess N 4 12.00 12.01 12.05 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix 7.1.0 7.1.0 slice 40: 1243 vertices, 1347 faces slice 50: 7751 vertices, 8042 faces slice 60: 18178 vertices, 18605 faces slice 70: 29744 vertices, 30222 faces slice 80: 41486 vertices, 41974 faces slice 90: 53689 vertices, 54188 faces slice 100: 65703 vertices, 66204 faces slice 110: 78998 vertices, 79569 faces slice 120: 92347 vertices, 92922 faces slice 130: 105087 vertices, 105654 faces slice 140: 117322 vertices, 117912 faces slice 150: 129794 vertices, 130346 faces slice 160: 140258 vertices, 140754 faces slice 170: 150374 vertices, 150910 faces slice 180: 159638 vertices, 160099 faces slice 190: 167052 vertices, 167437 faces slice 200: 172265 vertices, 172584 faces slice 210: 174498 vertices, 174666 faces slice 220: 174498 vertices, 174666 faces slice 230: 174498 vertices, 174666 faces slice 240: 174498 vertices, 174666 faces slice 250: 174498 vertices, 174666 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 2021:10:07:17:08:21 mri_tessellate N 3 e 1.28 S 0.01 U 1.22 P 97% M 42824 F 0 R 1638 W 0 c 11 w 43 I 0 O 8192 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:22 mri_tessellate N 3 12.00 12.01 12.05 rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix counting number of connected components... 174498 voxel in cpt #1: X=-168 [v=174498,e=523998,f=349332] located at (-29.487741, -11.745888, 13.022103) For the whole surface: X=-168 [v=174498,e=523998,f=349332] One single component has been found nothing to do done @#@FSTIME 2021:10:07:17:08:22 mris_extract_main_component N 2 e 1.30 S 0.13 U 1.04 P 90% M 343496 F 1 R 35130 W 0 c 11 w 36 I 6168 O 12280 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:23 mris_extract_main_component N 2 12.00 12.01 12.05 #-------------------------------------------- #@# Tessellate rh Thu Oct 7 17:08:23 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz Iteration Number : 1 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 5 found - 5 modified | TOTAL: 6 pass 2 (xy-): 0 found - 5 modified | TOTAL: 6 pass 1 (yz+): 8 found - 8 modified | TOTAL: 14 pass 2 (yz+): 0 found - 8 modified | TOTAL: 14 pass 1 (yz-): 9 found - 9 modified | TOTAL: 23 pass 2 (yz-): 0 found - 9 modified | TOTAL: 23 pass 1 (xz+): 4 found - 4 modified | TOTAL: 27 pass 2 (xz+): 0 found - 4 modified | TOTAL: 27 pass 1 (xz-): 4 found - 4 modified | TOTAL: 31 pass 2 (xz-): 0 found - 4 modified | TOTAL: 31 Iteration Number : 1 pass 1 (+++): 1 found - 1 modified | TOTAL: 1 pass 2 (+++): 0 found - 1 modified | TOTAL: 1 pass 1 (+++): 2 found - 2 modified | TOTAL: 3 pass 2 (+++): 0 found - 2 modified | TOTAL: 3 pass 1 (+++): 2 found - 2 modified | TOTAL: 5 pass 2 (+++): 0 found - 2 modified | TOTAL: 5 pass 1 (+++): 2 found - 2 modified | TOTAL: 7 pass 2 (+++): 0 found - 2 modified | TOTAL: 7 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 1 found - 1 modified | TOTAL: 1 pass 2 (+-): 0 found - 1 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 1 found - 1 modified | TOTAL: 1 pass 2 (yz-): 0 found - 1 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 1 found - 1 modified | TOTAL: 2 pass 2 (xz-): 0 found - 1 modified | TOTAL: 2 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 42 (out of 298003: 0.014094) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2021:10:07:17:08:23 mri_pretess N 4 e 1.82 S 0.00 U 1.79 P 99% M 36928 F 0 R 2223 W 0 c 9 w 54 I 0 O 296 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:25 mri_pretess N 4 12.00 12.01 12.05 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix 7.1.0 7.1.0 slice 40: 715 vertices, 817 faces slice 50: 6291 vertices, 6536 faces slice 60: 15309 vertices, 15653 faces slice 70: 26130 vertices, 26526 faces slice 80: 37394 vertices, 37753 faces slice 90: 48309 vertices, 48674 faces slice 100: 59508 vertices, 59895 faces slice 110: 70880 vertices, 71248 faces slice 120: 81479 vertices, 81841 faces slice 130: 91667 vertices, 92042 faces slice 140: 100729 vertices, 101044 faces slice 150: 108626 vertices, 108884 faces slice 160: 114721 vertices, 114950 faces slice 170: 121634 vertices, 121878 faces slice 180: 127494 vertices, 127716 faces slice 190: 132527 vertices, 132712 faces slice 200: 136620 vertices, 136769 faces slice 210: 138140 vertices, 138158 faces slice 220: 138140 vertices, 138158 faces slice 230: 138140 vertices, 138158 faces slice 240: 138140 vertices, 138158 faces slice 250: 138140 vertices, 138158 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 2021:10:07:17:08:25 mri_tessellate N 3 e 1.25 S 0.01 U 1.22 P 98% M 45796 F 0 R 1871 W 0 c 8 w 41 I 0 O 6480 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:26 mri_tessellate N 3 12.00 12.01 12.05 rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix counting number of connected components... 138140 voxel in cpt #1: X=-18 [v=138140,e=414474,f=276316] located at (29.795172, -16.664761, 12.594846) For the whole surface: X=-18 [v=138140,e=414474,f=276316] One single component has been found nothing to do done @#@FSTIME 2021:10:07:17:08:26 mris_extract_main_component N 2 e 0.92 S 0.10 U 0.80 P 98% M 272424 F 0 R 28767 W 0 c 11 w 30 I 0 O 9720 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:27 mris_extract_main_component N 2 12.00 12.01 12.05 #-------------------------------------------- #@# Smooth1 lh Thu Oct 7 17:08:27 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:10:07:17:08:27 mris_smooth N 5 e 3.72 S 0.13 U 3.45 P 96% M 273812 F 0 R 62279 W 0 c 26 w 39 I 0 O 12280 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:31 mris_smooth N 5 12.00 12.01 12.05 #-------------------------------------------- #@# Smooth1 rh Thu Oct 7 17:08:31 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 2021:10:07:17:08:31 mris_smooth N 5 e 2.92 S 0.10 U 2.75 P 97% M 217612 F 0 R 53208 W 0 c 20 w 36 I 0 O 9720 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:34 mris_smooth N 5 12.00 12.01 12.05 #-------------------------------------------- #@# Inflation1 lh Thu Oct 7 17:08:34 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 50.4 mm, total surface area = 92561 mm^2 step 000: RMS=0.160 (target=0.015) step 005: RMS=0.125 (target=0.015) step 010: RMS=0.097 (target=0.015) step 015: RMS=0.085 (target=0.015) step 020: RMS=0.079 (target=0.015) step 025: RMS=0.075 (target=0.015) step 030: RMS=0.072 (target=0.015) step 035: RMS=0.069 (target=0.015) step 040: RMS=0.068 (target=0.015) step 045: RMS=0.067 (target=0.015) step 050: RMS=0.066 (target=0.015) step 055: RMS=0.068 (target=0.015) step 060: RMS=0.068 (target=0.015) writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.4 minutes inflation complete. Not saving sulc mris_inflate utimesec 23.922459 mris_inflate stimesec 0.242427 mris_inflate ru_maxrss 360624 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 210454 mris_inflate ru_majflt 1 mris_inflate ru_nswap 0 mris_inflate ru_inblock 6904 mris_inflate ru_oublock 12288 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 41 mris_inflate ru_nivcsw 98 @#@FSTIME 2021:10:07:17:08:34 mris_inflate N 3 e 24.38 S 0.25 U 23.92 P 99% M 360656 F 1 R 210475 W 0 c 98 w 42 I 6904 O 12288 L 12.00 12.01 12.05 @#@FSLOADPOST 2021:10:07:17:08:59 mris_inflate N 3 11.94 12.00 12.04 #-------------------------------------------- #@# Inflation1 rh Thu Oct 7 17:08:59 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 50.0 mm, total surface area = 74851 mm^2 step 000: RMS=0.147 (target=0.015) step 005: RMS=0.111 (target=0.015) step 010: RMS=0.082 (target=0.015) step 015: RMS=0.068 (target=0.015) step 020: RMS=0.059 (target=0.015) step 025: RMS=0.052 (target=0.015) step 030: RMS=0.047 (target=0.015) step 035: RMS=0.043 (target=0.015) step 040: RMS=0.040 (target=0.015) step 045: RMS=0.039 (target=0.015) step 050: RMS=0.038 (target=0.015) step 055: RMS=0.038 (target=0.015) step 060: RMS=0.038 (target=0.015) writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.3 minutes inflation complete. Not saving sulc mris_inflate utimesec 18.599205 mris_inflate stimesec 0.162634 mris_inflate ru_maxrss 286844 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 146018 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9720 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 36 mris_inflate ru_nivcsw 114 @#@FSTIME 2021:10:07:17:08:59 mris_inflate N 3 e 18.82 S 0.17 U 18.59 P 99% M 286876 F 0 R 146039 W 0 c 114 w 37 I 0 O 9720 L 11.94 12.00 12.04 @#@FSLOADPOST 2021:10:07:17:09:17 mris_inflate N 3 11.96 12.00 12.04 #-------------------------------------------- #@# QSphere lh Thu Oct 7 17:09:17 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 0.273... inflating... Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=177.554, avgs=0 005/300: dt: 0.9000, rms radial error=177.296, avgs=0 010/300: dt: 0.9000, rms radial error=176.740, avgs=0 015/300: dt: 0.9000, rms radial error=176.007, avgs=0 020/300: dt: 0.9000, rms radial error=175.177, avgs=0 025/300: dt: 0.9000, rms radial error=174.289, avgs=0 030/300: dt: 0.9000, rms radial error=173.369, avgs=0 035/300: dt: 0.9000, rms radial error=172.432, avgs=0 040/300: dt: 0.9000, rms radial error=171.486, avgs=0 045/300: dt: 0.9000, rms radial error=170.538, avgs=0 050/300: dt: 0.9000, rms radial error=169.590, avgs=0 055/300: dt: 0.9000, rms radial error=168.645, avgs=0 060/300: dt: 0.9000, rms radial error=167.703, avgs=0 065/300: dt: 0.9000, rms radial error=166.765, avgs=0 070/300: dt: 0.9000, rms radial error=165.831, avgs=0 075/300: dt: 0.9000, rms radial error=164.902, avgs=0 080/300: dt: 0.9000, rms radial error=163.978, avgs=0 085/300: dt: 0.9000, rms radial error=163.058, avgs=0 090/300: dt: 0.9000, rms radial error=162.144, avgs=0 095/300: dt: 0.9000, rms radial error=161.234, avgs=0 100/300: dt: 0.9000, rms radial error=160.329, avgs=0 105/300: dt: 0.9000, rms radial error=159.430, avgs=0 110/300: dt: 0.9000, rms radial error=158.534, avgs=0 115/300: dt: 0.9000, rms radial error=157.644, avgs=0 120/300: dt: 0.9000, rms radial error=156.758, avgs=0 125/300: dt: 0.9000, rms radial error=155.878, avgs=0 130/300: dt: 0.9000, rms radial error=155.002, avgs=0 135/300: dt: 0.9000, rms radial error=154.130, avgs=0 140/300: dt: 0.9000, rms radial error=153.264, avgs=0 145/300: dt: 0.9000, rms radial error=152.402, avgs=0 150/300: dt: 0.9000, rms radial error=151.545, avgs=0 155/300: dt: 0.9000, rms radial error=150.693, avgs=0 160/300: dt: 0.9000, rms radial error=149.845, avgs=0 165/300: dt: 0.9000, rms radial error=149.002, avgs=0 170/300: dt: 0.9000, rms radial error=148.164, avgs=0 175/300: dt: 0.9000, rms radial error=147.330, avgs=0 180/300: dt: 0.9000, rms radial error=146.500, avgs=0 185/300: dt: 0.9000, rms radial error=145.676, avgs=0 190/300: dt: 0.9000, rms radial error=144.856, avgs=0 195/300: dt: 0.9000, rms radial error=144.040, avgs=0 200/300: dt: 0.9000, rms radial error=143.229, avgs=0 205/300: dt: 0.9000, rms radial error=142.423, avgs=0 210/300: dt: 0.9000, rms radial error=141.621, avgs=0 215/300: dt: 0.9000, rms radial error=140.823, avgs=0 220/300: dt: 0.9000, rms radial error=140.030, avgs=0 225/300: dt: 0.9000, rms radial error=139.242, avgs=0 230/300: dt: 0.9000, rms radial error=138.457, avgs=0 235/300: dt: 0.9000, rms radial error=137.677, avgs=0 240/300: dt: 0.9000, rms radial error=136.902, avgs=0 245/300: dt: 0.9000, rms radial error=136.131, avgs=0 250/300: dt: 0.9000, rms radial error=135.364, avgs=0 255/300: dt: 0.9000, rms radial error=134.601, avgs=0 260/300: dt: 0.9000, rms radial error=133.843, avgs=0 265/300: dt: 0.9000, rms radial error=133.089, avgs=0 270/300: dt: 0.9000, rms radial error=132.339, avgs=0 275/300: dt: 0.9000, rms radial error=131.593, avgs=0 280/300: dt: 0.9000, rms radial error=130.852, avgs=0 285/300: dt: 0.9000, rms radial error=130.114, avgs=0 290/300: dt: 0.9000, rms radial error=129.381, avgs=0 295/300: dt: 0.9000, rms radial error=128.652, avgs=0 300/300: dt: 0.9000, rms radial error=127.927, avgs=0 spherical inflation complete. projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 0.90 +- 0.57 (0.00-->10.11) (max @ vno 103354 --> 103362) face area 0.02 +- 0.03 (-0.38-->0.61) epoch 1 (K=10.0), pass 1, starting sse = 21236.06 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/13 = 0.00019 epoch 2 (K=40.0), pass 1, starting sse = 3899.47 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/13 = 0.00007 epoch 3 (K=160.0), pass 1, starting sse = 560.60 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.02/13 = 0.00170 epoch 4 (K=640.0), pass 1, starting sse = 107.34 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.11/18 = 0.00632 final distance error %100000.00 writing spherical brain to ../surf/lh.qsphere.nofix mris_sphere utimesec 160.637534 mris_sphere stimesec 0.776132 mris_sphere ru_maxrss 1291772 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 646840 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 12288 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 49 mris_sphere ru_nivcsw 919 spherical transformation took 0.0450 hours FSRUNTIME@ mris_sphere 0.0450 hours 1 threads @#@FSTIME 2021:10:07:17:09:18 mris_sphere N 9 e 161.91 S 0.83 U 160.63 P 99% M 1291804 F 0 R 646859 W 0 c 919 w 50 I 0 O 12288 L 11.96 12.00 12.04 @#@FSLOADPOST 2021:10:07:17:11:59 mris_sphere N 9 12.00 12.00 12.04 #-------------------------------------------- #@# QSphere rh Thu Oct 7 17:11:59 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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 0.296... inflating... Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=176.653, avgs=0 005/300: dt: 0.9000, rms radial error=176.399, avgs=0 010/300: dt: 0.9000, rms radial error=175.853, avgs=0 015/300: dt: 0.9000, rms radial error=175.136, avgs=0 020/300: dt: 0.9000, rms radial error=174.311, avgs=0 025/300: dt: 0.9000, rms radial error=173.424, avgs=0 030/300: dt: 0.9000, rms radial error=172.504, avgs=0 035/300: dt: 0.9000, rms radial error=171.567, avgs=0 040/300: dt: 0.9000, rms radial error=170.622, avgs=0 045/300: dt: 0.9000, rms radial error=169.675, avgs=0 050/300: dt: 0.9000, rms radial error=168.729, avgs=0 055/300: dt: 0.9000, rms radial error=167.785, avgs=0 060/300: dt: 0.9000, rms radial error=166.845, avgs=0 065/300: dt: 0.9000, rms radial error=165.909, avgs=0 070/300: dt: 0.9000, rms radial error=164.977, avgs=0 075/300: dt: 0.9000, rms radial error=164.050, avgs=0 080/300: dt: 0.9000, rms radial error=163.127, avgs=0 085/300: dt: 0.9000, rms radial error=162.209, avgs=0 090/300: dt: 0.9000, rms radial error=161.296, avgs=0 095/300: dt: 0.9000, rms radial error=160.388, avgs=0 100/300: dt: 0.9000, rms radial error=159.485, avgs=0 105/300: dt: 0.9000, rms radial error=158.587, avgs=0 110/300: dt: 0.9000, rms radial error=157.693, avgs=0 115/300: dt: 0.9000, rms radial error=156.805, avgs=0 120/300: dt: 0.9000, rms radial error=155.921, avgs=0 125/300: dt: 0.9000, rms radial error=155.042, avgs=0 130/300: dt: 0.9000, rms radial error=154.167, avgs=0 135/300: dt: 0.9000, rms radial error=153.298, avgs=0 140/300: dt: 0.9000, rms radial error=152.433, avgs=0 145/300: dt: 0.9000, rms radial error=151.574, avgs=0 150/300: dt: 0.9000, rms radial error=150.719, avgs=0 155/300: dt: 0.9000, rms radial error=149.869, avgs=0 160/300: dt: 0.9000, rms radial error=149.024, avgs=0 165/300: dt: 0.9000, rms radial error=148.184, avgs=0 170/300: dt: 0.9000, rms radial error=147.349, avgs=0 175/300: dt: 0.9000, rms radial error=146.518, avgs=0 180/300: dt: 0.9000, rms radial error=145.692, avgs=0 185/300: dt: 0.9000, rms radial error=144.870, avgs=0 190/300: dt: 0.9000, rms radial error=144.053, avgs=0 195/300: dt: 0.9000, rms radial error=143.241, avgs=0 200/300: dt: 0.9000, rms radial error=142.433, avgs=0 205/300: dt: 0.9000, rms radial error=141.630, avgs=0 210/300: dt: 0.9000, rms radial error=140.831, avgs=0 215/300: dt: 0.9000, rms radial error=140.037, avgs=0 220/300: dt: 0.9000, rms radial error=139.247, avgs=0 225/300: dt: 0.9000, rms radial error=138.461, avgs=0 230/300: dt: 0.9000, rms radial error=137.680, avgs=0 235/300: dt: 0.9000, rms radial error=136.903, avgs=0 240/300: dt: 0.9000, rms radial error=136.130, avgs=0 245/300: dt: 0.9000, rms radial error=135.362, avgs=0 250/300: dt: 0.9000, rms radial error=134.598, avgs=0 255/300: dt: 0.9000, rms radial error=133.838, avgs=0 260/300: dt: 0.9000, rms radial error=133.082, avgs=0 265/300: dt: 0.9000, rms radial error=132.331, avgs=0 270/300: dt: 0.9000, rms radial error=131.584, avgs=0 275/300: dt: 0.9000, rms radial error=130.841, avgs=0 280/300: dt: 0.9000, rms radial error=130.102, avgs=0 285/300: dt: 0.9000, rms radial error=129.368, avgs=0 290/300: dt: 0.9000, rms radial error=128.637, avgs=0 295/300: dt: 0.9000, rms radial error=127.911, avgs=0 300/300: dt: 0.9000, rms radial error=127.188, avgs=0 spherical inflation complete. projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 0.97 +- 0.57 (0.00-->7.45) (max @ vno 65067 --> 66173) face area 0.02 +- 0.03 (-0.15-->0.63) epoch 1 (K=10.0), pass 1, starting sse = 16340.94 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 = 2722.45 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/13 = 0.00033 epoch 3 (K=160.0), pass 1, starting sse = 275.05 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.15/19 = 0.00775 epoch 4 (K=640.0), pass 1, starting sse = 13.81 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.10/20 = 0.00492 final distance error %100000.00 writing spherical brain to ../surf/rh.qsphere.nofix mris_sphere utimesec 137.788704 mris_sphere stimesec 0.700265 mris_sphere ru_maxrss 1101792 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 510881 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 9720 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 44 mris_sphere ru_nivcsw 955 spherical transformation took 0.0386 hours FSRUNTIME@ mris_sphere 0.0386 hours 1 threads @#@FSTIME 2021:10:07:17:12:00 mris_sphere N 9 e 138.92 S 0.75 U 137.78 P 99% M 1101824 F 0 R 510900 W 0 c 956 w 45 I 0 O 9720 L 12.00 12.00 12.04 @#@FSLOADPOST 2021:10:07:17:14:18 mris_sphere N 9 12.00 12.00 12.04 #@# Fix Topology lh Thu Oct 7 17:14:18 BST 2021 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 32004 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=-168 (nv=174498, nf=349332, ne=523998, g=85) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 10 iterations marking ambiguous vertices... 72975 ambiguous faces found in tessellation segmenting defects... 26 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 20 into 19 25 defects to be corrected 0 vertices coincident reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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: -9.5807 (-4.7903) -vertex loglikelihood: -6.9106 (-3.4553) -normal dot loglikelihood: -3.6032 (-3.6032) -quad curv loglikelihood: -5.8447 (-2.9223) Total Loglikelihood : -25.9392 CORRECTING DEFECT 0 (vertices=36170, convex hull=5005, v0=0) #New# invocation of recon-all Fri Oct 8 18:43:31 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 /usr/local/software/freesurfer/7.1.0/bin/recon-all -all -subjid 32004 subjid 32004 setenv SUBJECTS_DIR /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 Actual FREESURFER_HOME /usr/local/software/freesurfer/7.1.0 build-stamp.txt: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b Linux cpu-e-530 3.10.0-1160.36.2.el7.x86_64 #1 SMP Mon Jul 26 08:21:44 CDT 2021 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize unlimited coredumpsize 0 kbytes memoryuse 12247040 kbytes vmemoryuse unlimited descriptors 1024 memorylocked unlimited maxproc 4096 maxlocks unlimited maxsignal 1541452 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 376G 142G 135G 86M 98G 232G Swap: 15G 65M 15G ######################################## 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: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:31-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:32-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:33-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:34-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:35-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:36-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:37-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:37-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.el7.x86_64 CompilerName: GCC CompilerVersion: 4.8.5 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.1.0 TimeStamp: 2021/10/08-17:43:37-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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: 2021/10/08-17:43:37-GMT BuildTime: May 11 2020 12:09:35 BuildStamp: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297b User: mp2011 Machine: cpu-e-530 Platform: Linux PlatformVersion: 3.10.0-1160.36.2.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/software/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/software/freesurfer/7.1.0/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### Tue Oct 12 11:27:17 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 /usr/local/software/freesurfer/7.1.0/bin/recon-all -s /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 -hemi lh -fix Tue Oct 12 17:24:11 BST 2021 /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 /usr/local/software/freesurfer/7.1.0/bin/recon-all -s /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004 -hemi lh -fix #@# Fix Topology lh Tue Oct 12 17:24:11 BST 2021 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 32004 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=-168 (nv=174498, nf=349332, ne=523998, g=85) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 10 iterations marking ambiguous vertices... 72975 ambiguous faces found in tessellation segmenting defects... 26 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 20 into 19 25 defects to be corrected 0 vertices coincident reading input surface /rds/user/mp2011/hpc-work/wbic/Segmentation/Freesurfer/T1only/32004/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: -9.5807 (-4.7903) -vertex loglikelihood: -6.9106 (-3.4553) -normal dot loglikelihood: -3.6032 (-3.6032) -quad curv loglikelihood: -5.8447 (-2.9223) Total Loglikelihood : -25.9392 CORRECTING DEFECT 0 (vertices=36170, convex hull=5005, v0=0)