Dear Chris and Michel,
I’m trying to run the Normalization tool but I’m getting the following error:
“Cannot open volume /home/edu_asus/Documentos/Grant/NIH/bcbtoolkit/Lesion/subj01AXT1.nii* for reading!”
I don’t know why it is looking for the file “subj01AXT1.nii” in the Lesion folder.
Running just with the T1 image it is ok. The problem is when I include the Lesion folder.
The lesion is in the the native space of the T1 image. I have also tried to change both images to the MNI space using:
flirt -interp nearestneighbour -in subj01lesion.nii.gz -ref $FSLDIR/data/standard/MNI152_T1_1mm_brain.nii.gz -out wsubj01lesion_lesion.nii -usesqform -applyxfm
flirt -interp nearestneighbour -in subj01AXT1.nii.gz -ref $FSLDIR/data/standard/MNI152_T1_1mm_brain.nii.gz -out wsubj01lesion_lesion.nii -usesqform -applyxfm
But I’ve got the same error. Please, how can I fix it?
I’m using Ubuntu 20.04. Follow attached my log file.
Sincerely,
Eduardo
logNormalisation.txt (3.0 KB)