rawfunc2tal-sess log file $Id: rawfunc2tal-sess,v 1.28 2015/12/10 22:51:30 zkaufman Exp $ 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 Wed Apr 27 14:13:56 EDT 2016 /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional /usr/local/freesurfer/dev/fsfast/bin/rawfunc2tal-sess -fwhm 5 -s sess01 -d /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional -fsd bold -stc up -update -subcort-mask -per-run UpdateOnly 1 ------------------------------ 1/1 sess01 fsf01anat 1/1 sess01 001 ---------------- Wed Apr 27 14:13:56 EDT 2016 mri_vol2vol --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 --tal --talres 2 --talxfm talairach.xfm --nearest --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.pr.nii.gz regio_read_register: loading lta Matrix from regfile: 1.00000 -0.00030 -0.00116 0.63847; 0.00106 -0.23893 0.97104 -40.48508; 0.00057 0.97104 0.23893 -1.35980; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.pr.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp nearest (0) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1462262303 Compute R for talairach space matrix from regfile ---------------------- 1.00000 -0.00030 -0.00116 0.63847; 0.00106 -0.23893 0.97104 -40.48508; 0.00057 0.97104 0.23893 -1.35980; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94156 0.07618 0.04011 1.89057; -0.05512 0.00421 0.97652 -16.76491; -0.01347 1.10227 -0.03105 0.56324; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54782 0.02334 -0.04432 11.80719; -0.00784 -0.01807 -0.64132 62.64177; 0.02205 -0.39061 0.00168 25.57401; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.pr.nii.gz /usr/local/freesurfer/dev/subjects/fsaverage/mri.2mm/subcort.mask.mgz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.pr.nii.gz DoAbs = 0 Writing masked volume to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.pr.nii.gz...done. 1/1 sess01 002 ---------------- Wed Apr 27 14:13:57 EDT 2016 mri_vol2vol --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 --tal --talres 2 --talxfm talairach.xfm --nearest --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.pr.nii.gz regio_read_register: loading lta Matrix from regfile: 0.99997 -0.00328 0.00685 0.17505; -0.00746 -0.25525 0.96685 -40.60712; 0.00143 0.96687 0.25527 -1.84499; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.pr.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp nearest (0) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1462274919 Compute R for talairach space matrix from regfile ---------------------- 0.99997 -0.00328 0.00685 0.17505; -0.00746 -0.25525 0.96685 -40.60712; 0.00143 0.96687 0.25527 -1.84499; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94107 0.07513 0.04844 1.62673; -0.06290 -0.01502 0.97653 -16.93426; -0.01361 1.10225 -0.01454 0.47889; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54753 0.02818 -0.04371 11.68228; -0.00792 -0.00846 -0.64131 62.30377; 0.02516 -0.39061 -0.00601 25.77977; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.pr.nii.gz /usr/local/freesurfer/dev/subjects/fsaverage/mri.2mm/subcort.mask.mgz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.pr.nii.gz DoAbs = 0 Writing masked volume to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.pr.nii.gz...done. 1/1 sess01 003 ---------------- Wed Apr 27 14:13:57 EDT 2016 mri_vol2vol --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 --tal --talres 2 --talxfm talairach.xfm --nearest --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.pr.nii.gz regio_read_register: loading lta Matrix from regfile: 0.99985 -0.01758 -0.00046 -0.36206; -0.00410 -0.25832 0.96605 -41.03094; 0.01710 0.96590 0.25835 -2.00327; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.pr.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp nearest (0) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1462609181 Compute R for talairach space matrix from regfile ---------------------- 0.99985 -0.01758 -0.00046 -0.36206; -0.00410 -0.25832 0.96605 -41.03094; 0.01710 0.96590 0.25835 -2.00327; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94138 0.05788 0.04532 0.97205; -0.05968 -0.01825 0.97673 -17.36080; 0.00098 1.10324 -0.01075 0.41667; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54771 0.02637 -0.03367 11.46799; 0.00057 -0.00625 -0.64188 61.94233; 0.02387 -0.39069 -0.00730 25.80642; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.pr.nii.gz /usr/local/freesurfer/dev/subjects/fsaverage/mri.2mm/subcort.mask.mgz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.pr.nii.gz DoAbs = 0 Writing masked volume to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.pr.nii.gz...done. 1/1 sess01 004 ---------------- Wed Apr 27 14:13:58 EDT 2016 mri_vol2vol --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 --tal --talres 2 --talxfm talairach.xfm --nearest --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.pr.nii.gz regio_read_register: loading lta Matrix from regfile: 0.99970 -0.02411 -0.00452 -0.54004; -0.00156 -0.24660 0.96912 -41.10435; 0.02448 0.96882 0.24656 -1.89989; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.pr.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp nearest (0) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1461955234 Compute R for talairach space matrix from regfile ---------------------- 0.99970 -0.02411 -0.00452 -0.54004; -0.00156 -0.24660 0.96912 -41.10435; 0.02448 0.96882 0.24656 -1.89989; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94148 0.04980 0.04321 0.72316; -0.05747 -0.00471 0.97663 -17.40350; 0.00860 1.10377 -0.02230 0.24151; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54777 0.02514 -0.02898 11.36645; 0.00501 -0.01297 -0.64219 62.09464; 0.02299 -0.39065 -0.00188 25.57804; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.pr.nii.gz /usr/local/freesurfer/dev/subjects/fsaverage/mri.2mm/subcort.mask.mgz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.pr.nii.gz DoAbs = 0 Writing masked volume to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.pr.nii.gz...done. mri_concat --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.mni305.2mm.nii.gz --mean /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.pr.nii.gz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.pr.nii.gz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.pr.nii.gz /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.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.mni305.2mm.nii.gz mri_binarize --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.mni305.2mm.nii.gz --min 10e-10 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.mni305.2mm.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.mni305.2mm.nii.gz --min 10e-10 --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.mni305.2mm.nii.gz sysname Linux hostname transfer machine x86_64 user zkaufman input /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.mni305.2mm.nii.gz frame 0 nErode3d 0 nErode2d 0 output /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/masks/brain.mni305.2mm.nii.gz Binarizing based on threshold min 1e-09 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 52666 values in range Counting number of voxels in first frame Found 52666 voxels in final mask Count: 52666 421328.000000 537168 9.804381 mri_binarize done 1/1 sess01 001 ---------------- Wed Apr 27 14:13:59 EDT 2016 mri_vol2vol --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 --tal --talres 2 --talxfm talairach.xfm --interp trilin --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.mni305.2mm.nii.gz regio_read_register: loading lta Matrix from regfile: 1.00000 -0.00030 -0.00116 0.63847; 0.00106 -0.23893 0.97104 -40.48508; 0.00057 0.97104 0.23893 -1.35980; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.mni305.2mm.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp trilin (1) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1462458777 Compute R for talairach space matrix from regfile ---------------------- 1.00000 -0.00030 -0.00116 0.63847; 0.00106 -0.23893 0.97104 -40.48508; 0.00057 0.97104 0.23893 -1.35980; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94156 0.07618 0.04011 1.89057; -0.05512 0.00421 0.97652 -16.76491; -0.01347 1.10227 -0.03105 0.56324; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54782 0.02334 -0.04432 11.80719; -0.00784 -0.01807 -0.64132 62.64177; 0.02205 -0.39061 0.00168 25.57401; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_fwhm --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.mni305.2mm.nii.gz --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.mni305.2mm.nii.gz --smooth-only --fwhm 5 --mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.nii.gz voxelvolume 8 mm3 Loading mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/masks/brain.mni305.2mm.nii.gz Search region is 52666 voxels = 421328.000000 mm3 Smoothing input by fwhm=5.000000, gstd=2.123305 Saving to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/001/fmcpr.up.sm5.mni305.2mm.nii.gz SmoothOnly requested, so exiting now 1/1 sess01 002 ---------------- Wed Apr 27 14:15:31 EDT 2016 mri_vol2vol --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 --tal --talres 2 --talxfm talairach.xfm --interp trilin --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.sm5.mni305.2mm.nii.gz regio_read_register: loading lta Matrix from regfile: 0.99997 -0.00328 0.00685 0.17505; -0.00746 -0.25525 0.96685 -40.60712; 0.00143 0.96687 0.25527 -1.84499; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.sm5.mni305.2mm.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp trilin (1) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1462671157 Compute R for talairach space matrix from regfile ---------------------- 0.99997 -0.00328 0.00685 0.17505; -0.00746 -0.25525 0.96685 -40.60712; 0.00143 0.96687 0.25527 -1.84499; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94107 0.07513 0.04844 1.62673; -0.06290 -0.01502 0.97653 -16.93426; -0.01361 1.10225 -0.01454 0.47889; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54753 0.02818 -0.04371 11.68228; -0.00792 -0.00846 -0.64131 62.30377; 0.02516 -0.39061 -0.00601 25.77977; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_fwhm --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.sm5.mni305.2mm.nii.gz --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.sm5.mni305.2mm.nii.gz --smooth-only --fwhm 5 --mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.nii.gz voxelvolume 8 mm3 Loading mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/masks/brain.mni305.2mm.nii.gz Search region is 52666 voxels = 421328.000000 mm3 Smoothing input by fwhm=5.000000, gstd=2.123305 Saving to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/002/fmcpr.up.sm5.mni305.2mm.nii.gz SmoothOnly requested, so exiting now 1/1 sess01 003 ---------------- Wed Apr 27 14:17:03 EDT 2016 mri_vol2vol --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/register.dof6.lta --tal --talres 2 --talxfm talairach.xfm --interp trilin --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.sm5.mni305.2mm.nii.gz regio_read_register: loading lta Matrix from regfile: 0.99985 -0.01758 -0.00046 -0.36206; -0.00410 -0.25832 0.96605 -41.03094; 0.01710 0.96590 0.25835 -2.00327; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.sm5.mni305.2mm.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp trilin (1) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1462119979 Compute R for talairach space matrix from regfile ---------------------- 0.99985 -0.01758 -0.00046 -0.36206; -0.00410 -0.25832 0.96605 -41.03094; 0.01710 0.96590 0.25835 -2.00327; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94138 0.05788 0.04532 0.97205; -0.05968 -0.01825 0.97673 -17.36080; 0.00098 1.10324 -0.01075 0.41667; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54771 0.02637 -0.03367 11.46799; 0.00057 -0.00625 -0.64188 61.94233; 0.02387 -0.39069 -0.00730 25.80642; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_fwhm --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.sm5.mni305.2mm.nii.gz --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.sm5.mni305.2mm.nii.gz --smooth-only --fwhm 5 --mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.nii.gz voxelvolume 8 mm3 Loading mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/masks/brain.mni305.2mm.nii.gz Search region is 52666 voxels = 421328.000000 mm3 Smoothing input by fwhm=5.000000, gstd=2.123305 Saving to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/003/fmcpr.up.sm5.mni305.2mm.nii.gz SmoothOnly requested, so exiting now 1/1 sess01 004 ---------------- Wed Apr 27 14:18:40 EDT 2016 mri_vol2vol --mov /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.nii.gz --reg /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/register.dof6.lta --tal --talres 2 --talxfm talairach.xfm --interp trilin --no-save-reg --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.sm5.mni305.2mm.nii.gz regio_read_register: loading lta Matrix from regfile: 0.99970 -0.02411 -0.00452 -0.54004; -0.00156 -0.24660 0.96912 -41.10435; 0.02448 0.96882 0.24656 -1.89989; 0.00000 0.00000 0.00000 1.00000; movvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.nii.gz targvol /usr/local/freesurfer/dev/average/mni305.cor.subfov2.mgz outvol /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.sm5.mni305.2mm.nii.gz regfile /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/register.dof6.lta invert 0 tal 1 talres 2 regheader 0 noresample 0 interp trilin (1) precision float (3) Gdiag_no -1 Synth 0 SynthSeed 1462311729 Compute R for talairach space matrix from regfile ---------------------- 0.99970 -0.02411 -0.00452 -0.54004; -0.00156 -0.24660 0.96912 -41.10435; 0.02448 0.96882 0.24656 -1.89989; 0.00000 0.00000 0.00000 1.00000; Xtal ---------------------- 1.05825 -0.06023 -0.06313 -2.09852; 0.01516 0.87311 0.24387 -18.42995; 0.06075 -0.25184 0.98977 -15.28559; 0.00000 0.00000 0.00000 1.00000; Rtal ---------------------- 1.00000 0.00000 0.00000 2.00000; 0.00000 1.00000 0.00000 16.00000; 0.00000 0.00000 1.00000 -9.00000; 0.00000 0.00000 0.00000 1.00000; Final tkRAS-to-tkRAS Matrix is: 0.94148 0.04980 0.04321 0.72316; -0.05747 -0.00471 0.97663 -17.40350; 0.00860 1.10377 -0.02230 0.24151; 0.00000 0.00000 0.00000 1.00000; Vox2Vox Matrix is: 0.54777 0.02514 -0.02898 11.36645; 0.00501 -0.01297 -0.64219 62.09464; 0.02299 -0.39065 -0.00188 25.57804; 0.00000 0.00000 0.00000 1.00000; Resampling mri_vol2vol done mri_fwhm --i /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.sm5.mni305.2mm.nii.gz --o /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.sm5.mni305.2mm.nii.gz --smooth-only --fwhm 5 --mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.nii.gz voxelvolume 8 mm3 Loading mask /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/masks/brain.mni305.2mm.nii.gz Search region is 52666 voxels = 421328.000000 mm3 Smoothing input by fwhm=5.000000, gstd=2.123305 Saving to /autofs/cluster/pubftp/data/tutorial_data/fsfast-functional/sess01/bold/004/fmcpr.up.sm5.mni305.2mm.nii.gz SmoothOnly requested, so exiting now Wed Apr 27 14:20:17 EDT 2016 rawfunc2tal-sess completed