Make atlas version being available, pointed and downloaded consistent

[jhlegarreta]

The ORG atlases in the ORG-Atlases repository have received a few updates over time, e g.
SlicerDMRI/ORG-Atlases@fb19973

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 its README file, we can download the atlas files manually or automatically using WMA tools (i.e. this repository)

On the one hand, for some reason, the ZIP files (e.g. ORG-Tracts-MRB.zip, ORG-800FiberClusters.zip, ORG-800FC-100HCP.zip) pointed by the README do not correspond to the latest version of the atlas.

On the other hand, the version of the files that the WMA tool downloads is hard-coded:

whitematteranalysis/bin/wm_download_anatomically_curated_atlas.py

Line 81 in ddb59de

version = 'v1.2'

And it does not correspond to the most recent version available.

Additionally, the documentation for the tractography parcellation step points to the 1.1.1 version of the atlas, e.g.:

whitematteranalysis/doc/subject-specific-tractography-parcellation.md

Line 23 in 6d93b64

- The O'Donnell Research Group (ORG) white matter atlas (“_ORG-Atlases-1.1.1_”)

Finally, the atlas bundle dictionary is hard-coded here:

whitematteranalysis/bin/wm_append_clusters_to_anatomical_tracts.py

Line 99 in 6d93b64

hemispheric_tracts = ["T_AF", "T_CB", "T_CPC", "T_MdLF", "T_PLIC", "T_SLF-I", "T_SLF-II", "T_SLF-III", "T_EC", "T_EmC", "T_ICP", "T_ILF", "T_IOFF", "T_UF",

And it has not been updated to the changes in the commit pointed above.

So it is highly likely that the files downloaded manually or using the WMA tool become inconsistent, which may be a problem.

So the files being available, those pointed in the README, and those downloaded by the script should correspond exactly to the same versions to avoid problems.

[ljod]

Thanks for looking at this! Fan can you let us know what version we should all be using? @zhangfanmark

[jhlegarreta]

PRs #132 and #133 address some of these points.