External Email - Use Caution Hello Experts,
Hope you are well! I am trying to extract ROIs from the aparc+aseg file after running recon all however, I am getting the following result for all my images: ciddrg@CIDDRGs-MacBook-Air C961060 % cd /Volumes/Akila/Cambridge/C961022 ciddrg@CIDDRGs-MacBook-Air C961022 % isolate_labels.csh --vol aparc+aseg.nii --outprefix aparc+aseg_labels --L $label 7 Input file: aparc+aseg.nii Output prefix: aparc+aseg_labels mri_convert aparc+aseg.nii aparc+aseg.nii.gz reading from aparc+aseg.nii... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) writing to aparc+aseg.nii.gz... Label of interest: 7 Number of voxels and volume for label 7 is = (0, 0.000000mm^3) mri_binarize --i aparc+aseg.nii.gz --match 7 --o aparc+aseg_labels_label7.mgz 7.1.1 cwd /Volumes/Akila/Cambridge/C961022 cmdline mri_binarize --i aparc+aseg.nii.gz --match 7 --o aparc+aseg_labels_label7.mgz sysname Darwin hostname CIDDRGs-MacBook-Air.local machine x86_64 user ciddrg input aparc+aseg.nii.gz frame 0 nErode3d 0 nErode2d 0 output aparc+aseg_labels_label7.mgz Binarizing based on matching values nMatch 1 0 7 binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 0 values in range Counting number of voxels in first frame Found -1 voxels in final mask Count: -1 -1.000000 16777216 -0.000006 mri_binarize done ciddrg@CIDDRGs-MacBook-Air C961022 % Could you help me with where the error might be? I would really appreciate your help, thank you! Regards, Akila
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