Hi all,
So this is a question about running FAST through matlab parallel desktop: I
know it is very funny (and inefficient) because I open up a bash in the matlab
to run a csh script that generates and runs a matlab code, but just I’m
familiar with matlab in doing many things including string manipulation, so
that’s how I’m doing now. If there are matlab scripts that does a similar thing
as csh scripts, it would be nice.
Anyway, I realized that I cannot run all the fitting with different parameters
and with the identical name of model (the GLM directory name) at the same time
because the code appears to refer to the directory at $SUBJECTS_DIR.
But I tried to run multiple subjects (with all different GLM names in their own
native spaces) through MATLAB on a server, it returns (seems just one of random
subject):
> ERROR: could not read /tmp/tmp354512.nii
> rm: cannot remove ‘/tmp/tmp354512.nii’: No such file or directory
> ERROR: loading ${filename}.nii.gz as analyze
So I traced back to the functions that return those errors (i.e., load_nifti.m
run in MRIread.m) and it seems to be something with the temporary directory
managed by matlab workers. The temporary file seems to be only necessary for
nii.gz file.
If so, I would rather just use .nii file format (or maybe .mgz?) format instead
of dealing with the void complexity. Then can it be done by just putting:
> setenv(‘FSF_OUTPUTFORMAT’,’.mgz’)
before I run "preproc-sess" and "selxavg3-sess” in my scripts?
Best regards,
--
Seung-Goo KIM
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