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dcm2niix supports file cropping using -x argument (crop Boolean input in nipype)
Actual behavior
the converted_files output does not include cropped files. dcm2niix interfaces intercepts filenames checking for lines starting with "Convert" in standard output, but cropping is not reported like that. This is an example:
$ dcm2niix -w 1 -b n -z y -x y -t n -m 2 y -f ref -o . -s n -v n ./
Found 368 DICOM file(s)
Image Decompression is new: please validate conversions
Resolved discrepancy between tags (0020,1002; 0021,104F; 0054,0081)
Warning: Overwriting existing file with the name ./ref
Convert 368 DICOM as ./ref (512x512x368x1)
Cropping from slice 156 to 448 (of 512)
Conversion required 5.894715 seconds (5.894215 for core code)
Files generated by previous run are: ref.nii.gz and ref_Crop_1.nii.gz
Expected behavior
cropped files should be included in converted_files output or maybe in a separate cropped_files
The text was updated successfully, but these errors were encountered:
mauriliogenovese
changed the title
dcm2niix interfaces desn't list cropped files in output
dcm2niix interface desn't list cropped files in output
Apr 2, 2023
mauriliogenovese
changed the title
dcm2niix interface desn't list cropped files in output
dcm2niix interface doesn't list cropped files in output
Apr 2, 2023
Summary
dcm2niix supports file cropping using -x argument (crop Boolean input in nipype)
Actual behavior
the converted_files output does not include cropped files. dcm2niix interfaces intercepts filenames checking for lines starting with "Convert" in standard output, but cropping is not reported like that. This is an example:
Files generated by previous run are: ref.nii.gz and ref_Crop_1.nii.gz
Expected behavior
cropped files should be included in converted_files output or maybe in a separate cropped_files
The text was updated successfully, but these errors were encountered: