New script to compute similarity between mask and atlas (nii)

[frheault]

Quick description

This is similar to scil_bundle_pairwise_comparison.py, but for mask and atlas (as nifiti). This is an easy way to quantify the similarity between wmparc of bundle label maps or BET mask in scan-rescan or across subjects for example.

This is generating a JSON file that contains four measures: dice, adjacency_voxels, overlap and overreach.

Everything has to be in uint8 or uint16, coregistered nifti.

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Type of change

Check the relevant options.

• [ ] Bug fix (non-breaking change which fixes an issue)
• [x] New feature (non-breaking change which adds functionality)
• [ ] Breaking change (fix or feature that would cause existing functionality to not work as expected)
• [ ] This change requires a documentation update

Provide data, screenshots, command line to test (if relevant)

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Checklist

• [x] My code follows the style guidelines of this project (run autopep8)
• [x] I added relevant citations to scripts, modules and functions docstrings and descriptions
• [x] I have performed a self-review of my code
• [ ] I have commented my code, particularly in hard-to-understand areas
• [ ] I have made corresponding changes to the documentation
• [x] My changes generate no new warnings
• [ ] I moved all functions from the script file (except the argparser and main) to scilpy modules
• [ ] I have added tests that prove my fix is effective or that my feature works
• [ ] New and existing unit tests pass locally with my changes

[codecov[bot]]

Codecov Report

Attention: Patch coverage is 1.92308% with 102 lines in your changes are missing coverage. Please review.

Project coverage is 67.65%. Comparing base (11f218b) to head (9a56930).

Additional details and impacted files

```diff @@ Coverage Diff @@ ## master #994 +/- ## ========================================== - Coverage 67.97% 67.65% -0.32% ========================================== Files 419 420 +1 Lines 21615 21717 +102 Branches 3251 3270 +19 ========================================== Hits 14693 14693 - Misses 5633 5735 +102 Partials 1289 1289 ``` | [Components](https://app.codecov.io/gh/scilus/scilpy/pull/994/components?src=pr&el=components&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=scilus) | Coverage Δ | | |---|---|---| | [Scripts](https://app.codecov.io/gh/scilus/scilpy/pull/994/components?src=pr&el=component&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=scilus) | `68.42% <1.92%> (-0.54%)` | :arrow_down: | | [Library](https://app.codecov.io/gh/scilus/scilpy/pull/994/components?src=pr&el=component&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=scilus) | `66.49% <ø> (ø)` | |