24363640121
74%

Ran 13 Apr 2026 07:52PM UTC

Jobs 1

Files 30

Run time 1min

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Committed 13 Apr 2026 07:51PM UTC coverage: 29.365% (-1.6%) from 30.938%

Build # 24363640121

Build Type

push

github

Committed by

iskandr

Commit Message

v0.5.0: hitlist-indexed queries, topiary scoring, personalize + hits CLIs

- Drop hla_only/human_only; single mhc_species filter routed through
  hitlist.curation.classify_mhc_species (mhcgnomes)
- Fix export.py TypeError against current hitlist.scanner.scan
- Filter is_binding_assay wherever MS aggregates are built
- tsarina/datasources.py: resolve IEDB/CEDAR from hitlist registry with
  actionable register-hint on miss
- tsarina/indexing.py: ensure_index_built + load_ms_evidence over the
  hitlist observations parquet; auto-builds on first use
- tsarina data build [--force] CLI to pre-warm the index
- tsarina personalize CLI matching personalize() API (renamed from perseus)
- tsarina hits CLI: gene/UniProt → ProteomeIndex peptides → filtered
  evidence query (allele / species / serotype / resolution / class)
- Swap scoring.py to topiary + mhctools (predictor: mhcflurry default,
  netmhcpan, netmhcpan_el). Deprecate score_netmhcpan subprocess shim
- perseus.py renamed to personalize.py; update all importers
- 133 tests passing, 0 skipped

Coverage Stats

550 of 1873 relevant lines covered (29.36%)

0.29 hits per line

Coverage Regressions

Lines	Coverage	∆	File
50	23.12	-0.19%	iedb.py
50	20.27	6.32%	scoring.py
41	0.0	0.0%	cli.py
24	0.0	0.0%	export.py
18	13.79	-0.24%	evidence.py
16	26.25	0.0%	targets.py
3	28.1	0.0%	viral.py

Jobs

ID	Job ID	Ran	Files	Coverage
1	24363640121.1	13 Apr 2026 07:52PM UTC	30	29.36	GitHub Action Run

pirl-unc / tsarina / 24363640121
74%

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pirl-unc / tsarina / 24363640121 74%

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Textile

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pirl-unc / tsarina / 24363640121
74%

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