I'm trying to run a retinotopic analysis with the following commands:
mkanalysis-sess -analysis retino-lh -TR 2 -retinotopy 40 -paradigm rtopy.para -funcstem fmcpr.sm5.self -surface self lh -mcextreg -runlistfile retRuns -fwhm 0
selxavg3-sess -analysis retino-lh -s somesubject -df sessdir
and am getting the error:
>> >> >> >> /Applications/freesurfer/fsfast/toolbox/fast_selxavg3.m
>> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> $Id:
fast_selxavg3.m,v 1.88.2.2 2010/07/16 15:31:24 greve Exp $
outtop = /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data
Extension format = nii
ERROR: cannot determine format of /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self
ERROR: attempting to read /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self
------------------------------------------
ERROR: fast_selxavg3() failed\n
It looks like this might have something to do with analysis.info
... funcstem fmcpr.sm5.self ... RawSpace surface self lh ...
Should the funcstem have gotten '.lh' or should this be worked out by getana or selxavg3-sess?
Thanks,
~Jason
Does /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self.nii exist?
Jason Webster wrote:
I'm trying to run a retinotopic analysis with the following commands:
mkanalysis-sess -analysis retino-lh -TR 2 -retinotopy 40 -paradigm rtopy.para -funcstem fmcpr.sm5.self -surface self lh -mcextreg -runlistfile retRuns -fwhm 0 selxavg3-sess -analysis retino-lh -s somesubject -df sessdirand am getting the error:
>> >> >> >> >> >> >> /Applications/freesurfer/fsfast/toolbox/fast_selxavg3.m >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> $Id: fast_selxavg3.m,v 1.88.2.2 2010/07/16 15:31:24 greve Exp $ outtop = /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data Extension format = nii ERROR: cannot determine format of /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self ERROR: attempting to read /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self ------------------------------------------ ERROR: fast_selxavg3() failed\nIt looks like this might have something to do with analysis.info http://analysis.info
... funcstem fmcpr.sm5.self ... RawSpace surface self lh ...Should the funcstem have gotten '.lh' or should this be worked out by getana or selxavg3-sess?
Thanks,
~Jason
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
This file does not exist. Each retinotopy run has the files: fmcpr.sm5.self.lh.nii and fmcpr.sm5.self.rh.nii I had the impression that mkanalysis-sess and selxavg-sess had to be ran separately on the files from each hemisphere for data that had been surface smoothed in preprocessing. Is this not the case?
~Jason
On Tue, Nov 9, 2010 at 9:30 AM, Douglas N Greve greve@nmr.mgh.harvard.eduwrote:
Does
/Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self.nii exist?
Jason Webster wrote:
I'm trying to run a retinotopic analysis with the following commands:
mkanalysis-sess -analysis retino-lh -TR 2 -retinotopy 40 -paradigm rtopy.para -funcstem fmcpr.sm5.self -surface self lh -mcextreg -runlistfile retRuns -fwhm 0 selxavg3-sess -analysis retino-lh -s somesubject -df sessdirand am getting the error:
>> >> >> >> >> >> >> /Applications/freesurfer/fsfast/toolbox/fast_selxavg3.m >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> $Id: fast_selxavg3.m,v 1.88.2.2 2010/07/16 15:31:24 greve Exp $ outtop = /Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data Extension format = nii ERROR: cannot determine format of/Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self
ERROR: attempting to read/Users/jwebst/UW/Psych/VisCog/techAdmin/anatV1LGN/pilotData/RET/data/nsLGHa/bold/001/fmcpr.sm5.self
------------------------------------------ ERROR: fast_selxavg3() failed\nIt looks like this might have something to do with analysis.info http://analysis.info
... funcstem fmcpr.sm5.self ... RawSpace surface self lh ...Should the funcstem have gotten '.lh' or should this be worked out by getana or selxavg3-sess?
Thanks,
~Jason
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