sitk-cli 0.2.0

Wrap SimpleITK functions as command lines

Wrap SimpleITK functions as command lines

Create simple command line interface from functions that use SimpleITK images as arguments or return type.

Example:

import SimpleITK as sitk
import typer

def fill_holes_slice_by_slice(mask: sitk.Image) -> sitk.Image:
    mask = mask != 0
    output = sitk.Image(mask.GetSize(), mask.GetPixelID())
    output.CopyInformation(mask)
    for k in range(mask.GetSize()[2]):
        output[:, :, k] = sitk.BinaryFillhole(mask[:, :, k], fullyConnected=False)
    return output


if __name__ == "__main__":
    app = typer.Typer()

    register_command(fill_holes_slice_by_slice, app)

    app()

Install from PyPI:

pip install sitk-cli