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:
jdien07@mac.comCell Phone: 202-297-8117
http://joedien.com_______________________________________________
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