I’ve been trying to run FEAT in FSL (version 4.1) and two things are happening.
1. The progress watcher stops after making the first directory for files (unwarp folder)
2. After this it does make a couple files (up to the erode file from the fslmaths -ero option), but these are not recorded in the log (nor shown in the progress watcher)
Note that the 1st step I'm trying to run is B0 unwarping - not doing any motion correction at this step.
FEAT never gives me an error and I can let it run up to 4 hours, then the only thing that happens is a time out (because that is the longest session I've submitted and our server stops a script after this time limit). Normally the entire process takes 15-20 minutes. My MRI data was acquired the same way as previous subjects that have run successfully, so I’m not expecting it to take any longer. I’ve tried a couple of different submissions, just to test permission issues, and that doesn’t make a difference. I've checked my scripts and and path files and they look OK, so without any error messages from FSL I'm lost.
Any thoughts on what might be going wrong?
Thank you
Ben
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