I am trying to analyze DWI data without any means to correct susceptibility-induced distortion (no field map, no inverse phase-ecndoing). I hope "eddy" outperforms "eddy_correct", but the "eddy" does not run without "acquisition parameters" and "index".
I thought I could run it with just a [1x4] vector (for one phase-encoding) in the "acquisition parameter file" and all 1's (as many as the number of volumes) in the "index file", but it returnsI am guessing that you mean that your acqp file looks something like
0 1 0 0.05
in which case that should work. The error message below isn’t really much help, and also a bit surprising since I don’t think I throw any exceptions without a proper explanatory message.
Can you maybe try to run again, and this time include --very_verbose at the end of the command and cut and paste the screen output to an email to me?
$ eddy --imain=dwi.nii --mask=brain_mask.nii --bvecs=bvecs --bvals=bvals --out=data --acqp=acqp --index=index
terminate called after throwing an instance of 'EDDY::EddyException'what(): pǙ;Aborted
Could anyone please share a tip on this issue?