openvax / topiary / 24252536592

85%

master: 90%

Build Type

Pull #105

github

Committed by iskandr

Commit Message

Fix filter/ranking bugs and harden expression data loading

- Wrap ColumnFilter/ExprFilter in RankingStrategy (was crashing on bare
  column filters like --filter-by "gene_tpm >= 5")
- Fix --rank-by being ignored when --filter-by is present (early return
  was bypassing sort_by assembly)
- Auto-number default name prefixes when multiple expression files are
  given at the same level (prevents column name collisions on merge)
- Sum duplicate join keys in expression data at merge time instead of
  silently multiplying prediction rows
- Validate Column references against DataFrame columns upfront in
  apply_ranking_strategy, with "did you mean?" suggestions for typos
- Update README and tests

Pull Request Pull Request #105: Expression data as DSL fields: --gene-expression, --transcript-expression, --variant-expression

Coverage Stats

229 of 335 new or added lines in 6 files covered. (68.36%)

21 existing lines in 2 files now uncovered.

1946 of 2282 relevant lines covered (85.28%)

2.56 hits per line