itk_orient

Orient ITK image-label sample pairs to a specified orientation.

Usage

itk_orient <src_dir> <dst_dir> <orient> [options]

Parameters

• src_dir: Source directory containing .mha files (recursive scan)
• dst_dir: Destination directory (preserves relative directory structure; must differ from src_dir)
• orient: Target orientation string for SimpleITK.DICOMOrient (e.g., LPI, RAS)
• --mp: Use multiprocessing to convert files in parallel

Common Orientations

• LPI: Left-Posterior-Inferior (common in medical imaging)
• RAS: Right-Anterior-Superior (neuroimaging standard)
• LPS: Left-Posterior-Superior

Notes

• Skips files already present in dst_dir
• Preserves folder layout
• Writes converted .mha files to dst_dir

Examples

# Orient to LPI
itk_orient /data/source /data/oriented LPI --mp

# Orient to RAS (neuroimaging standard)
itk_orient /data/source /data/ras_oriented RAS