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openvax / topiary / 25923192409
90%

Build:
DEFAULT BRANCH: master
Ran 15 May 2026 02:34PM UTC
Jobs 3
Files 35
Run time 1min
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15 May 2026 02:26PM UTC coverage: 89.827% (-0.04%) from 89.87%
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Use pirlygenes 5.1 expression accessor; min-version gate (#171)

* Use pirlygenes 5.1 expression accessor; min-version gate

`tissue_expressed_gene_ids` and `available_tissues` switch from
`load_all_dataframes_dict()["pan-cancer-expression.csv"]` to the typed
`pirlygenes.pan_cancer_expression()` accessor introduced in pirlygenes
5.1.0. The 5.0.x data-strip had broken the dict-lookup path with a
KeyError; 5.1.0 restores the CSVs alongside the curated gene lists, and
the named accessor is the canonical handle.

`_check_pirlygenes` now also enforces pirlygenes>=5.1.0 so a stale
install surfaces a clear upgrade message rather than a downstream
AttributeError. pirlygenes remains optional — only CTA / tissue paths
require it.

* Test _check_pirlygenes rejects pre-5.1.0 versions

* Fix pirlygenes version gate tests and bump release

16 of 24 new or added lines in 2 files covered. (66.67%)

1 existing line in 1 file now uncovered.

4565 of 5082 relevant lines covered (89.83%)

2.69 hits per line

Uncovered Changes

Lines Coverage ∆ File
8
62.91
2.01% topiary/sources.py

Coverage Regressions

Lines Coverage ∆ File
1
62.91
2.01% topiary/sources.py
Jobs
ID Job ID Ran Files Coverage
1 python-3.11 - 25923192409.1 15 May 2026 02:34PM UTC 35
89.83
GitHub Action Run
2 python-3.10 - 25923192409.2 15 May 2026 02:34PM UTC 35
89.83
GitHub Action Run
3 python-3.12 - 25923192409.3 15 May 2026 02:35PM UTC 35
89.83
GitHub Action Run
Source Files on build 25923192409
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  • Coverage Changed 1
Coverage ∆ File Lines Relevant Covered Missed Hits/Line
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