This Python workflow is created for the gathering and standardisation of clinical case reports, producing BioC compliant articles including supplementary materials.
This workflow is executed by running the Workflow.py script with administrator privileges, due to the creation and deletion of many files & directories.
Developed and tested using Python version 3.10. All dependencies are listed in the requirements.txt file provided.
To attempt an older .doc file conversion to .docx format, additional requirements should be installed depending on the operating system:
Windows: Pywin32 python module AND a working installation of Microsoft Office.
Linux: A working installation of Open Office.