fix!: write MA-family tags as Ma/Aq/An (SAM local-use spelling) + legacy-tag hygiene - #124

Merged

mrvollger merged 13 commits into

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fix/legacy-tag-hygiene

Aug 13, 2026

Commits on Aug 13, 2026

feat: accept local-use Ma/Aq/An spellings when reading MA-family tags

Mitchell R. Vollger
and
claude
committed
a9f287d
fix: strip consumed legacy tags on MA write, with provenance checks

Mitchell R. Vollger
and
claude
committed
2dd0c66
Merge main (PR #123: FIRE-qual overlay fixes) into legacy-tag hygiene branch
Mitchell R. Vollger
committed
25765d9
feat!: write MA-family tags with the hts-specs spelling Ma/Aq/An

Mitchell R. Vollger
and
claude
committed
3d32fab
fix: sync MA python pysam layer to Ma/Aq/An spellings

Mitchell R. Vollger
and
claude
committed
e99fa32
chore: bump molecular-annotation python to 0.2.0 for the Ma spelling change

Mitchell R. Vollger
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claude
committed
b49e5b5
test: commit a Ma-spelled fixture pinning the on-disk tag format

Mitchell R. Vollger
and
claude
committed
17b9398
fix: resolve MA tag family atomically and strip legacy tags at pair level

Mitchell R. Vollger
and
claude
committed
fe387e1
fix: resolve MA tag family atomically in the python pysam layer too

Mitchell R. Vollger
and
claude
committed
8afc064
Merge main (PR #126: pyMA soft-clip liftover fix)
Mitchell R. Vollger
committed
1508810
chore: align python bindings crate version, fix to_record docstring spelling, ignore profiler artifact

Mitchell R. Vollger
and
claude
committed
f8db8db
fix: gate legacy-tag stripping on the full legacy parse succeeding

Mitchell R. Vollger
and
claude
committed
a67bc35
Merge main (PR #127: RTD build fix)

Mitchell R. Vollger
and
claude
committed
436be11