feat: output the HN tag and optionally add the MD to the XA tag #25
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This requires us to patch bwa, which we store in the patches sub-directory. They are applied before we build, and reverted after the build completes (regardless of success). They can be removed when the bwa PRs are merged and submodule updated.
See: lh3/bwa#438
See: lh3/bwa#439
Fixes #17
Fixes #20
📚 Documentation preview 📚: https://pybwa--25.org.readthedocs.build/en/25/