selxavg3-sess log file /usr/local/freesurfer/dev/fsfast/bin/selxavg3-sess -s sess01 -analysis workmem.sm05.rh $Id: selxavg3-sess,v 1.67 2015/12/10 22:51:30 zkaufman Exp $ uid=8481(zkaufman) gid=8481(zkaufman) groups=8481(zkaufman),160(fsdev),1046(recon),1538(lcnweb),1590(fsbuild),1601(b40atlas) /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional Linux transfer 2.6.32-573.18.1.el6.x86_64 #1 SMP Tue Feb 9 22:46:17 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux Sun Mar 27 22:39:37 EDT 2016 preproc-sess -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -a workmem.sm05.rh -nolog -------------------------------------------------------------- preproc-sess logfile is /dev/null -------------------------------------------------------------- $Id: preproc-sess,v 1.64 2015/12/10 22:51:30 zkaufman Exp $ zkaufman setenv FREESURFER_HOME /usr/local/freesurfer/dev setenv SUBJECTS_DIR /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects Linux transfer 2.6.32-573.18.1.el6.x86_64 #1 SMP Tue Feb 9 22:46:17 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional /usr/local/freesurfer/dev/fsfast/bin/preproc-sess -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -a workmem.sm05.rh -nolog Sun Mar 27 22:39:38 EDT 2016 instem f mc 1 f fmcpr stc 1 fmcpr fmcpr.up sm 0 mask 1 brain sess01 Template ----------------------------- mktemplate-sess -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -nolog -update Session: /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01 ---------------- Sun Mar 27 22:39:38 EDT 2016 Detected input format at nii.gz sess01 Update not needed Run: 001 ---------------- Sun Mar 27 22:39:38 EDT 2016 sess01 001 Update not needed Run: 002 ---------------- Sun Mar 27 22:39:38 EDT 2016 sess01 002 Update not needed Run: 003 ---------------- Sun Mar 27 22:39:38 EDT 2016 sess01 003 Update not needed Run: 004 ---------------- Sun Mar 27 22:39:38 EDT 2016 sess01 004 Update not needed Sun Mar 27 22:39:38 EDT 2016 mktemplate-sess completed sess01 Registration ----------------------------- register-sess -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -delete-dat -dof 6 -bold -per-run -nolog -update -init-coreg -------------------------------------------------------------- register-sess logfile is /dev/null -------------------------------------------------------------- Sun Mar 27 22:39:38 EDT 2016 setenv SUBJECTS_DIR /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects cd /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional /usr/local/freesurfer/dev/fsfast/bin/register-sess -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -delete-dat -dof 6 -bold -per-run -nolog -update -init-coreg freesurfer-Linux-centos6_x86_64-dev-20160325 Linux transfer 2.6.32-573.18.1.el6.x86_64 #1 SMP Tue Feb 9 22:46:17 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux Session: /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01 ---------------- Sun Mar 27 22:39:38 EDT 2016 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01 Run: 001 ---------------- Sun Mar 27 22:39:38 EDT 2016 Update not needed Run: 002 ---------------- Sun Mar 27 22:39:38 EDT 2016 Update not needed Run: 003 ---------------- Sun Mar 27 22:39:38 EDT 2016 Update not needed Run: 004 ---------------- Sun Mar 27 22:39:38 EDT 2016 Update not needed Sun Mar 27 22:39:38 EDT 2016 register-sess completed sess01 Mask ------------------------ mkbrainmask-sess -maskstem brain -fsd bold -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -per-run -nolog -update ------------------------------------------------ /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01 Sun Mar 27 22:39:38 EDT 2016 sess01 Update not needed for session-level mask sess01 Update not needed for run 001 mask sess01 Update not needed for run 002 mask sess01 Update not needed for run 003 mask sess01 Update not needed for run 004 mask sess01 Update not needed for run 001 meanval sess01 Update not needed for run 002 meanval sess01 Update not needed for run 003 meanval sess01 Update not needed for run 004 meanval Sun Mar 27 22:39:38 EDT 2016 mkbrainmask-sess done sess01 MC ----------------------------- mc-sess -fstem f -fmcstem fmcpr -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -per-run -nolog -update Logfile is /dev/null ------------------------------------------- /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01 RunList: 001 002 003 004 sess01 001 Update not needed sess01 002 Update not needed sess01 003 Update not needed sess01 004 Update not needed Sun Mar 27 22:39:38 EDT 2016 mc-sess completed SUCCESSFULLY sess01 STC ----------------------------- stc-sess -i fmcpr -o fmcpr.up -ngroups 1 -so up -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -nolog -update Sun Mar 27 22:39:38 EDT 2016 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional /usr/local/freesurfer/dev/fsfast/bin/stc-sess -i fmcpr -o fmcpr.up -ngroups 1 -so up -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -nolog -update $Id: stc-sess,v 1.13 2015/12/10 22:51:31 zkaufman Exp $ transfer sess01 ----------------- Sun Mar 27 22:39:38 EDT 2016 -rw-rw-r-- 1 zkaufman fsdev 62635864 Mar 27 21:55 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.nii.gz -rw-rw-r-- 1 zkaufman fsdev 61970438 Mar 27 21:53 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.nii.gz Update not needed -rw-rw-r-- 1 zkaufman fsdev 62605836 Mar 27 21:55 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.nii.gz -rw-rw-r-- 1 zkaufman fsdev 61849924 Mar 27 21:54 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.nii.gz Update not needed -rw-rw-r-- 1 zkaufman fsdev 62591453 Mar 27 21:56 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.nii.gz -rw-rw-r-- 1 zkaufman fsdev 61849878 Mar 27 21:54 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.nii.gz Update not needed -rw-rw-r-- 1 zkaufman fsdev 62604299 Mar 27 21:56 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.nii.gz -rw-rw-r-- 1 zkaufman fsdev 61838735 Mar 27 21:55 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.nii.gz Update not needed Started at Sun Mar 27 22:39:38 EDT 2016 Ended at Sun Mar 27 22:39:39 EDT 2016 stc-sess Done sess01 To Surface ----------------------------- rawfunc2surf-sess -fwhm 5 -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -hemi rh -trgsubject fsaverage -stc up -nolog -update -per-run instem fmcpr.up outstem fmcpr.up.sm5.fsaverage.hemi ------------------------------ 1/1 sess01 1/1 sess01 001 rh --------- Sun Mar 27 22:39:39 EDT 2016 mri_vol2surf --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/register.dof6.lta --trgsubject fsaverage --interp nearest --projfrac 0.5 --hemi rh --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz --noreshape --cortex --surfreg sphere.reg srcvol = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.nii.gz srcreg = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/register.dof6.lta srcregold = 0 srcwarp unspecified surf = white hemi = rh trgsubject = fsaverage surfreg = sphere.reg ProjFrac = 0.5 thickness = thickness reshape = 0 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Input reg is LTA -------- original matrix ----------- 1.00000 -0.00030 -0.00116 0.63848; 0.00106 -0.23893 0.97104 -40.48508; 0.00057 0.97104 0.23893 -1.35978; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Reading surface /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.white Done reading source surface Reading thickness /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.5 0.5 0.5 using old Done mapping volume to surface Number of source voxels hit = 8959 Reading source surface registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.sphere.reg Done loading source registration surface Reading target registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/surf/rh.sphere.reg Done loading target registration surface Mapping Surfaces (fsf01anat -> fsaverage) surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (160613) Reverse Loop had 36910 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 Done mapping surfaces nSrc121 = 129300, nSrcLost = 0, nSrcMulti = 31313, MnSrcMultiHits = 2.28186 nTrg121 = 135396, nTrgMulti = 28446, MnTrgMultiHits = 2.29755 Masking with /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Writing to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz Dim: 163842 1 1 mri_binarize --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz $Id: mri_binarize.c,v 1.42 2016/01/07 22:23:57 greve Exp $ cwd /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional cmdline mri_binarize.bin --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz sysname Linux hostname transfer machine x86_64 user zkaufman input /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz frame 0 nErode3d 0 nErode2d 0 output /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz Binarizing based on threshold min 1e-05 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 149926 values in range Counting number of voxels in first frame Found 149926 voxels in final mask Count: 149926 149926.000000 163842 91.506451 mri_binarize done 1/1 sess01 002 rh --------- Sun Mar 27 22:39:51 EDT 2016 mri_vol2surf --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/register.dof6.lta --trgsubject fsaverage --interp nearest --projfrac 0.5 --hemi rh --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz --noreshape --cortex --surfreg sphere.reg srcvol = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.nii.gz srcreg = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/register.dof6.lta srcregold = 0 srcwarp unspecified surf = white hemi = rh trgsubject = fsaverage surfreg = sphere.reg ProjFrac = 0.5 thickness = thickness reshape = 0 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Input reg is LTA -------- original matrix ----------- 0.99997 -0.00328 0.00685 0.17505; -0.00746 -0.25525 0.96685 -40.60712; 0.00143 0.96687 0.25527 -1.84501; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Reading surface /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.white Done reading source surface Reading thickness /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.5 0.5 0.5 using old Done mapping volume to surface Number of source voxels hit = 8911 Reading source surface registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.sphere.reg Done loading source registration surface Reading target registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/surf/rh.sphere.reg Done loading target registration surface Mapping Surfaces (fsf01anat -> fsaverage) surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (160613) Reverse Loop had 36910 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 Done mapping surfaces nSrc121 = 129300, nSrcLost = 0, nSrcMulti = 31313, MnSrcMultiHits = 2.28186 nTrg121 = 135396, nTrgMulti = 28446, MnTrgMultiHits = 2.29755 Masking with /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Writing to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz Dim: 163842 1 1 mri_binarize --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz $Id: mri_binarize.c,v 1.42 2016/01/07 22:23:57 greve Exp $ cwd /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional cmdline mri_binarize.bin --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz sysname Linux hostname transfer machine x86_64 user zkaufman input /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz frame 0 nErode3d 0 nErode2d 0 output /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz Binarizing based on threshold min 1e-05 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 149926 values in range Counting number of voxels in first frame Found 149926 voxels in final mask Count: 149926 149926.000000 163842 91.506451 mri_binarize done 1/1 sess01 003 rh --------- Sun Mar 27 22:40:02 EDT 2016 mri_vol2surf --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/register.dof6.lta --trgsubject fsaverage --interp nearest --projfrac 0.5 --hemi rh --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz --noreshape --cortex --surfreg sphere.reg srcvol = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.nii.gz srcreg = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/register.dof6.lta srcregold = 0 srcwarp unspecified surf = white hemi = rh trgsubject = fsaverage surfreg = sphere.reg ProjFrac = 0.5 thickness = thickness reshape = 0 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Input reg is LTA -------- original matrix ----------- 0.99985 -0.01758 -0.00046 -0.36206; -0.00410 -0.25832 0.96605 -41.03092; 0.01710 0.96590 0.25835 -2.00325; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Reading surface /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.white Done reading source surface Reading thickness /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.5 0.5 0.5 using old Done mapping volume to surface Number of source voxels hit = 8968 Reading source surface registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.sphere.reg Done loading source registration surface Reading target registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/surf/rh.sphere.reg Done loading target registration surface Mapping Surfaces (fsf01anat -> fsaverage) surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (160613) Reverse Loop had 36910 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 Done mapping surfaces nSrc121 = 129300, nSrcLost = 0, nSrcMulti = 31313, MnSrcMultiHits = 2.28186 nTrg121 = 135396, nTrgMulti = 28446, MnTrgMultiHits = 2.29755 Masking with /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Writing to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz Dim: 163842 1 1 mri_binarize --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz $Id: mri_binarize.c,v 1.42 2016/01/07 22:23:57 greve Exp $ cwd /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional cmdline mri_binarize.bin --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz sysname Linux hostname transfer machine x86_64 user zkaufman input /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz frame 0 nErode3d 0 nErode2d 0 output /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz Binarizing based on threshold min 1e-05 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 149926 values in range Counting number of voxels in first frame Found 149926 voxels in final mask Count: 149926 149926.000000 163842 91.506451 mri_binarize done 1/1 sess01 004 rh --------- Sun Mar 27 22:40:14 EDT 2016 mri_vol2surf --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/register.dof6.lta --trgsubject fsaverage --interp nearest --projfrac 0.5 --hemi rh --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz --noreshape --cortex --surfreg sphere.reg srcvol = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.nii.gz srcreg = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/register.dof6.lta srcregold = 0 srcwarp unspecified surf = white hemi = rh trgsubject = fsaverage surfreg = sphere.reg ProjFrac = 0.5 thickness = thickness reshape = 0 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Input reg is LTA -------- original matrix ----------- 0.99970 -0.02411 -0.00452 -0.54002; -0.00156 -0.24660 0.96912 -41.10436; 0.02448 0.96882 0.24656 -1.89992; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Reading surface /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.white Done reading source surface Reading thickness /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.5 0.5 0.5 using old Done mapping volume to surface Number of source voxels hit = 8932 Reading source surface registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.sphere.reg Done loading source registration surface Reading target registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/surf/rh.sphere.reg Done loading target registration surface Mapping Surfaces (fsf01anat -> fsaverage) surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (160613) Reverse Loop had 36910 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 Done mapping surfaces nSrc121 = 129300, nSrcLost = 0, nSrcMulti = 31313, MnSrcMultiHits = 2.28186 nTrg121 = 135396, nTrgMulti = 28446, MnTrgMultiHits = 2.29755 Masking with /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Writing to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz Dim: 163842 1 1 mri_binarize --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz $Id: mri_binarize.c,v 1.42 2016/01/07 22:23:57 greve Exp $ cwd /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional cmdline mri_binarize.bin --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz --min .00001 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz sysname Linux hostname transfer machine x86_64 user zkaufman input /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz frame 0 nErode3d 0 nErode2d 0 output /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz Binarizing based on threshold min 1e-05 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 149926 values in range Counting number of voxels in first frame Found 149926 voxels in final mask Count: 149926 149926.000000 163842 91.506451 mri_binarize done mri_concat --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz --mean /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.pr.nii.gz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.fsaverage.rh.pr.nii.gz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.fsaverage.rh.pr.nii.gz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.fsaverage.rh.pr.nii.gz ninputs = 4 Checking inputs nframestot = 4 Allocing output Done allocing nframes = 4 Computing mean across frames Writing to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz mri_binarize --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz --min 10e-10 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz $Id: mri_binarize.c,v 1.42 2016/01/07 22:23:57 greve Exp $ cwd /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional cmdline mri_binarize.bin --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz --min 10e-10 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz sysname Linux hostname transfer machine x86_64 user zkaufman input /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz frame 0 nErode3d 0 nErode2d 0 output /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.fsaverage.rh.pr.nii.gz Binarizing based on threshold min 1e-09 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 149926 values in range Counting number of voxels in first frame Found 149926 voxels in final mask Count: 149926 149926.000000 163842 91.506451 mri_binarize done 1/1 sess01 001 rh --------- Sun Mar 27 22:40:26 EDT 2016 mri_vol2surf --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/register.dof6.lta --trgsubject fsaverage --interp trilin --projfrac 0.5 --hemi rh --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.fsaverage.rh.nii.gz --noreshape --cortex --surfreg sphere.reg srcvol = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.nii.gz srcreg = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/register.dof6.lta srcregold = 0 srcwarp unspecified surf = white hemi = rh trgsubject = fsaverage surfreg = sphere.reg ProjFrac = 0.5 thickness = thickness reshape = 0 interp = trilin float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Input reg is LTA -------- original matrix ----------- 1.00000 -0.00030 -0.00116 0.63848; 0.00106 -0.23893 0.97104 -40.48508; 0.00057 0.97104 0.23893 -1.35978; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Reading surface /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.white Done reading source surface Reading thickness /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.5 0.5 0.5 using old Done mapping volume to surface Number of source voxels hit = 8959 Reading source surface registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.sphere.reg Done loading source registration surface Reading target registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/surf/rh.sphere.reg Done loading target registration surface Mapping Surfaces (fsf01anat -> fsaverage) surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (160613) Reverse Loop had 36910 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 Done mapping surfaces nSrc121 = 129300, nSrcLost = 0, nSrcMulti = 31313, MnSrcMultiHits = 2.28186 nTrg121 = 135396, nTrgMulti = 28446, MnTrgMultiHits = 2.29755 Masking with /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Writing to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.fsaverage.rh.nii.gz Dim: 163842 1 1 mris_fwhm --s fsaverage --hemi rh --smooth-only --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.fsaverage.rh.nii.gz --fwhm 5 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.fsaverage.rh.nii.gz --mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.nii.gz --no-detrend fsaverage rh white Number of vertices 163842 Number of faces 327680 Total area 65020.839844 GroupSurface 82167.578125 AvgVtxArea 0.396851 AvgVtxDist 0.717994 StdVtxDist 0.193566 Loading mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.fsaverage.rh.nii.gz Found 149926 voxels in mask Not Polynomial detrending Smoothing input by fwhm=5.000000, gstd=2.123305, niters=18 Only smoothing, so saving and exiting now 1/1 sess01 002 rh --------- Sun Mar 27 22:41:21 EDT 2016 mri_vol2surf --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/register.dof6.lta --trgsubject fsaverage --interp trilin --projfrac 0.5 --hemi rh --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.sm5.fsaverage.rh.nii.gz --noreshape --cortex --surfreg sphere.reg srcvol = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.nii.gz srcreg = /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/register.dof6.lta srcregold = 0 srcwarp unspecified surf = white hemi = rh trgsubject = fsaverage surfreg = sphere.reg ProjFrac = 0.5 thickness = thickness reshape = 0 interp = trilin float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Input reg is LTA -------- original matrix ----------- 0.99997 -0.00328 0.00685 0.17505; -0.00746 -0.25525 0.96685 -40.60712; 0.00143 0.96687 0.25527 -1.84501; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/label/rh.cortex.label Reading surface /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.white Done reading source surface Reading thickness /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.5 0.5 0.5 using old Done mapping volume to surface Number of source voxels hit = 8911 Reading source surface registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsf01anat/surf/rh.sphere.reg Done loading source registration surface Reading target registration /cluster/pubftp/data/tutorial_data/fsfast-tutorial.subjects/fsaverage/surf/rh.sphere.reg Done loading target registration surface Mapping Surfaces (fsf01anat -> fsaverage) surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (160613) Reverse Loop had 36910 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 Done mapping surfaces