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openvax / topiary / 24513783283
88%
master: 90%

Build:
Build:
LAST BUILD BRANCH: v5.16.2
DEFAULT BRANCH: master
Ran 16 Apr 2026 01:52PM UTC
Jobs 3
Files 34
Run time 1min
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16 Apr 2026 01:45PM UTC coverage: 88.402% (+0.2%) from 88.201%
24513783283

Pull #138

github

iskandr
Address review: version string, module docstring, indel docs, combined test

- reference_version property: +scope- → +include- to match the
  renamed parameter.
- Module docstring rewritten: "Scopes" → "Include modes", added
  distance metrics and indels sections, updated deferred-features
  list to reflect what's now shipped vs queued.
- nearest() docstring: added explicit note that indel matching
  returns the first hit found (not the best), and that the upcoming
  self_nearest_candidates structured column will expose the full set.
- New test: test_indel_beats_distant_blosum_match verifies that a
  1-deletion at edit_distance=1 wins over a ≥2-sub same-length match
  even when metric="blosum62", and that blosum_distance is None for
  the indel row (can't score across different lengths positionally).
- Fixed version-string assertion in test_reference_version_embeds_*
  and test_from_ensembl_indexes_proteins_and_filters_cta.

39 self_proteome tests (up from 38), 1180 total, lint clean.
Pull Request #138: SelfProteome: include= rename, protected_tissues, BLOSUM62, indels (part B of #124)

109 of 112 new or added lines in 1 file covered. (97.32%)

3689 of 4173 relevant lines covered (88.4%)

2.65 hits per line

Uncovered Changes

Lines Coverage ∆ File
3
90.78
3.15% topiary/self_proteome.py
Jobs
ID Job ID Ran Files Coverage
1 python-3.10 - 24513783283.1 16 Apr 2026 01:53PM UTC 34
88.4
GitHub Action Run
2 python-3.11 - 24513783283.2 16 Apr 2026 01:52PM UTC 34
88.4
GitHub Action Run
3 python-3.12 - 24513783283.3 16 Apr 2026 01:53PM UTC 34
88.4
GitHub Action Run
Source Files on build 24513783283
  • Tree
  • List 34
  • Changed 1
  • Source Changed 1
  • Coverage Changed 1
Coverage ∆ File Lines Relevant Covered Missed Hits/Line
  • Back to Repo
  • Github Actions Build #24513783283
  • Pull Request #138
  • PR Base - master (#24488605628)
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