Note that this plugin requires glue to be installed - see this page for instructions on installing glue.
In addition, this plugin requires the GDCM and pydicom packages to be installed. If you are using conda, you can easily install these with:
conda install -c conda-forge gdcm pydicom
To install the latest version of this plugin, you can do:
pip install glue-medical
This will auto-register the plugin with Glue.
At the moment, this plugin provides a reader for DICOM files. You can give glue either a DICOM file or a directory containing DICOM files. For example, you can start glue using:
glue mydata.dcm
or:
glue directory_with_dicom_files
and you can also load files from inside glue. It is not yet possible to load a directory from the 'Open Data Set' menu in glue.
At the moment, if all the shapes of the DICOM files match inside the directory, we combine the arrays into an array with a higher dimensionality (for example we combine 2d arrays into a single 3d array). In future, we will make it possible for users to control this behavior.
To run the tests, do:
pytest glue_medical
at the root of the repository. This requires the pytest module to be installed.