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 <gr...@nmr.mgh.harvard.edu>wrote: > 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 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 > > <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 > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail >
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