Repository navigation
Release 2.36.1: preserve shared TRA/TRD alleles and resolve aliases before chain selection - #147
Merged
Merged
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
Shared TRA/TRD V alleles were collapsed to one locus label, hiding 15 human and 42 mouse TRA memberships. Preserve all declared memberships in
Anchor.loci, use them in candidate selection, and retain the existing singular label for compatibility.Resolve accepted shared-gene aliases before choosing the chain in junction markup, scenario construction and D calling. A shared V with TRDJ now stays TRD, including aliases such as TRAV38-2 and DV8.
Prepare 2.36.1 with Nextflow pins, release notes, regression coverage across all five reference organisms, and explicit sdist exclusions for private instructions and local reports. Reference sequences and coordinates are unchanged.
Validation: focused regressions, source lint, zero-warning Sphinx build, isolated sdist/wheel build, fresh-wheel human/mouse checks, and sdist exclusion checks pass. Full release CI runs on this PR; the PyPI environment approval remains the author's gate.