Jon Haitz Legarreta Gorroño
Jon Haitz Legarreta Gorroño
Transfer the documentation in the `README` to proper Markdown documentation files. Fixes #142.
The [WMA website](https://dmri.slicer.org/whitematteranalysis/) is displaying a deprecated version of the `README` instructions. The website is being built from the `gh-pages` branch, https://github.com/SlicerDMRI/whitematteranalysis/tree/gh-pages, and the `HEAD` of this branch points to...
A number of scripts (e.g. `wm_compute_FA_from_DWIs.py`) and documentation contain macOS-specific 3D Slicer calls, e.g. `/Applications/Slicer.app/Contents/lib/Slicer-/cli-modules/`. These calls should be either removed or be adapted to other platforms (at least Linux)....
Increasing consistency in I/Os would be to the benefit of the package: some scripts require a single file at the input, whereas others assume a folder is given (`wm_append_clusters.py`, or...
Add utility methods to perform streamline union, difference, and intersection. Similar to PR #150. Add the associated script(s): all operations could maybe called from the same script that uses a...
Netlify, for example, could be used to preview the site when a PR modifying the`README` is opened so that changes can be inspected prior to merging the PR and to...
The ORG atlases in the [ORG-Atlases](https://github.com/SlicerDMRI/ORG-Atlases) repository have received a few updates over time, e g. https://github.com/SlicerDMRI/ORG-Atlases/commit/fb1997318c6e8c2ab727601be509e4a4377777cf Also, the file history in Zenodo shows a few versions: https://zenodo.org/search?page=1&size=20&q=conceptrecid:%222648283%22&sort=-version&all_versions=True According to...
The [tractography parcellation documentation](https://github.com/SlicerDMRI/whitematteranalysis/blob/6d93b6452b32ebedbee29674766abfe752dd1d04/doc/subject-specific-tractography-parcellation.md) should be refactored so that the appropriate way of calling the modules at least in Linux are also included. Related to PR #127.
The purpose of the script https://github.com/SlicerDMRI/whitematteranalysis/blob/6d93b6452b32ebedbee29674766abfe752dd1d04/slicer/installWMA.sh is not documented anywhere. Is it useful/relevant so that WMA can effectively call Slicer modules? Also, it contains hard-coded - The `INSTALLFOLDER` is certainly...
Add CLI entry point test. Add `argv` to `main()` for easier testing.