Oops, never mind. User error. I’m too embarrassed to even explain what I did. :)
Joe > On Feb 29, 2016, at 21:38, Joseph Dien <jdie...@mac.com> wrote: > > Hi, > I’m having an fsgd error that has totally stumped me. I’m trying to run > the following command to compute the second level statistics: > > mri_glmfit --surf fsaverage lh --y ces.nii.gz --wls cesvar.nii.gz --nii.gz > --fsgd RPA-accGT.fsgd --glmdir conVinc_normAcc.wls --C main.mtx --C > normAcc.mtx > > I get the error message: > > Reading source surface /Volumes/Data2/RP1/freesurfer/fsaverage/surf/lh.white > gdfReadHeader: reading RPA-accGT.fsgd > FSGDF Format Error: file = RPA-accGT.fsgd, tag=Title > > I used the utility flip to make sure the file was in UNIX format (with > linefeeds). > I then double-checked by reading in the binary codes with Matlab’s fread and > directly checking the ASCII numbers, which are indeed ASCII 10 (linefeed). > > Here is the contents of the fsgd file. > > GroupDescriptorFile 1 > Title RP1 > Class Main > Variables LogoAcc NormAcc OrthAcc PhonAcc > Input RPA903 Main 0.75 0.79 0.77 0.62 > Input RPA906 Main 0.81 0.81 0.83 0.74 > Input RPA907 Main 0.87 1 0.84 0.83 > Input RPA908 Main 0.91 0.93 0.95 0.89 > Input RPA909 Main 0.74 0.95 0.72 0.72 > Input RPA910 Main 0.85 0.96 0.81 0.79 > Input RPA912 Main 0.75 0.78 0.73 0.73 > Input RPA914 Main 0.7 0.85 0.83 0.81 > Input RPA915 Main 0.85 0.89 0.75 0.83 > Input RPA916 Main 0.84 0.92 0.87 0.72 > Input RPA917 Main 0.83 0.93 0.92 0.83 > Input RPA918 Main 0.87 0.91 0.79 0.85 > Input RPA919 Main 0.86 0.96 0.91 0.88 > Input RPA920 Main 0.84 0.92 0.87 0.84 > Input RPA921 Main 0.87 0.92 0.88 0.85 > Input RPA922 Main 0.8 0.9 0.9 0.72 > > What’s really driving me to distraction is that a previous version of this > file (with a different set of participants) works fine. I’m attaching both. > RPA-accGT.fsgd does not work and RPA-acc.fsgd does work. Using Matlab’s > fread, the first 85 characters (first four lines) of both files are identical. > > I’m running on OS X 10.11.3. I’m using FSFAST 5.20. Matlab 2015b. > > Any help would be greatly appreciated! > > Joe > > <RPA-accGT.fsgd><RPA-acc.fsgd> > -------------------------------------------------------------------------------- > > Joseph Dien, PhD > Senior Research Scientist > Maryland Neuroimaging Center > University of Maryland, College Park > E-mail: jdie...@mac.com > Cell Phone: 202-297-8117 > http://joedien.com > > _______________________________________________ > 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. -------------------------------------------------------------------------------- Joseph Dien, PhD Senior Research Scientist Maryland Neuroimaging Center University of Maryland, College Park E-mail: jdie...@mac.com Cell Phone: 202-297-8117 http://joedien.com
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