Hello,
I'm experiencing an error with topup when the phase encoding has been done along the z-axis (F>>H and H>>F). The error is:
Exception thrown with message: Topup: msg=TopupScan::TopupScan: third element of pevec must be zero
I have several subjects whose scans were done with this phase encoding. Can I simply fslswapdim my DTI images for topup and eddy, rewrite my acquisitionParameter.txt file accordingly, and then swap back afterwards?
Thanks,
Kelly
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