Dear FSL-Crew!
I have a problem with my VBM-Analysis - step 2: creation of the GM template.
The error occurs at step 2c (fslvbm2c.e5916327):
Cannot open volume WMHgr1_subj01_newor.nii.gz
_struc_GM_to_T for reading!
Cannot open volume template_4D_GM for reading!
ERROR: Could not open file
/usr/local/fsl/bin/fslswapdim: line 105: [: =: unary operator expected
ERROR: Could not open file
/usr/local/fsl/bin/fslswapdim: line 113: [: -gt: unary operator expected
ERROR: Could not open file
/usr/local/fsl/bin/fslswapdim: line 115: [: -gt: unary operator expected
Cannot open volume template_GM for reading!
Cannot open volume template_GM for reading!
The files created one step earlier in /struc are:
WMHgr1_subj01_newor_struc.nii.gz
WMHgr1_subj01_newor_struc_brain.nii.gz
WMHgr1_subj02_newor_struc.nii.gz
WMHgr1_subj02_newor_struc_brain.nii.gz
...
WMHgr2_subj01_newor_struc.nii.gz
WMHgr2_subj01_newor_struc_brain.nii.gz
WMHgr2_subj02_newor_struc.nii.gz
WMHgr2_subj02_newor_struc_brain.nii.gz
... etc.
My template_list:
WMHgr1_subj01_newor.nii.gz
WMHgr1_subj02_newor.nii.gz
...
WMHgr2_subj01_newor.nii.gz
WMHgr2_subj02_newor.nii.gz
... etc.
To me it looks as if there's an error when removing the extension of the file name, thus reading and merging is not possible? (Btw: The file WMHgr1_subj01_newor_struc_GM_to_T.nii.gz does exist)
If yes, how so and can I modify batch fslvbm2c and rerun the analyses from this step onwards or is it "safer" to clean up and start all over again?
Thank you!
Cheers, Patricia
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