25075450224
80%

Ran 28 Apr 2026 08:18PM UTC

Jobs 1

Files 25

Run time 1min

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Committed 28 Apr 2026 08:16PM UTC coverage: 69.279% (+0.3%) from 68.99%

Build # 25075450224

Build Type

push

github

Committed by

web-flow

Commit Message

v1.30.2: pmhc serotype expansion + best-guess 4-digit allele (#185)

Two complementary changes for handling MHC serotypes in pmhc query.

1. Input expansion. Querying ``--allele HLA-A2`` now also pulls in rows
   for HLA-A*02:01, HLA-A*02:02, …, the full IPD-IMGT/HLA serotype
   member list. Without this, the parquet pushdown only matched the
   literal serotype string (~0.8% of restriction values), missing the
   majority of A2 evidence stored at 4-digit resolution.

2. Best-guess column. Rows whose stored ``mhc_allele`` is itself a
   serotype get a new ``best_guess_allele`` column with the most-likely
   4-digit member. Heuristic: lowest-numbered (A2 → A*02:01, B7 →
   B*07:02, DR4 → DRB1*04:01); IPD's discovery-order numbering tracks
   population frequency closely enough to be useful as a default.
   Predictors run on this column instead of ``mhc_allele`` since they
   can't accept serotypes. The grouped-format header annotates
   serotype rows with the guess (e.g. ``HLA-A2  (best guess: HLA-A*02:01)``).

New helpers in ``hitlist.curation``: ``serotype_to_alleles`` (forward
map, inverse of ``allele_to_serotype``) and ``best_4digit_for_serotype``.

Coverage Stats

3315 of 4785 relevant lines covered (69.28%)

0.69 hits per line

Coverage Regressions

Lines	Coverage	∆	File
23	85.71	1.99%	pmhc_query.py
13	88.1	0.33%	curation.py

Jobs

ID	Job ID	Ran	Files	Coverage
1	25075450224.1	28 Apr 2026 08:18PM UTC	25	69.28	GitHub Action Run

pirl-unc / hitlist / 25075450224
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