Hi all,
I am using epi_reg to apply field maps to my EPI data, but keep getting errors when I run the script. Here is the command I am running:
epi_reg --epi=ra2061_MB_run1CoregSource.nii.gz --t1=m2061_MPRAGEreorient.nii \
--t1brain=2061_MPRAGEreorient_brain_4.nii.gz --wmseg=c22061_MPRAGEreorient_.nii \
--fmap=2061smoothfieldmapinRad.nii.gz --fmapmag=2061unwarped4DSEmean.nii.gz --fmapmagbrain=2061unwarpedSEbrain.nii.gz \
--echospacing=0.0007 --pedir=y --out=2061_MB_run1CoregSource.nii.gz
Of note, the T1 (bias-corrected) and WM segmentation are from SPM.
The error I keep getting is:
Cannot open volume 2061_MB_run1CoregSource_fast_wmseg for reading!
which is then followed by a whole set of errors about not being able to open matrix files:
Could not open matrix file 2061_MB_run1CoregSource.mat.
Cannot read input-matrix
Could not open matrix file 2061_MB_run1CoregSource_inv.mat
Cannot read concat-matrix
Could not open matrix file 2061_MB_run1CoregSource_fieldmaprads2epi.mat
I assume all the errors are stemming from the first.
Any help or advice would be greatly appreciated!
Thanks
Karen
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