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docs(claude): document the report section-mixin structure test #48: Commit b506ccd pushed by druvus
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test(gtdb): derive small genus from live family query, not a hardcode… test #47: Commit 1ae47b5 pushed by druvus
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test test #46: by druvus
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refactor(report): split ReportGenerator god-class into section modules test #45: Commit 146ea24 pushed by druvus
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refactor(report): decompose the four D-grade ReportGenerator methods test #44: Commit bde0572 pushed by druvus
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fix(calibrate): clip isotonic predictions to avoid NaN entropy knots test #43: Commit 301c7a4 pushed by druvus
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refactor(score): extract config precedence into testable build_classi… test #42: Commit fdd21e1 pushed by druvus
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fix(ci): cap numpy below 2.5 to keep mypy parseable on py3.12+ test #41: Commit 43e5267 pushed by druvus
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chore(deps): refresh uv.lock to latest compatible versions test #40: Commit baf06ee pushed by druvus
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types: ratchet remaining mypy codes; only 2 idiomatic codes left disa… test #39: Commit d5ef8c5 pushed by druvus
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types: re-enable mypy arg-type + assignment (ratchet 59 errors to zero) test #38: Commit 8245fe7 pushed by druvus
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types: re-enable mypy operator + dict-item (ratchet 171 errors to zero) test #37: Commit d3c7a4a pushed by druvus
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fix(streaming): apply alignment-quality filters in streaming mode too test #36: Commit 9a53dd4 pushed by druvus
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perf(streaming): O(rows) incremental parquet append (was O(partitions… test #35: Commit d0628d2 pushed by druvus
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test(e2e): de-flake blast-vs-mmseqs2 top-hit agreement floor test #34: Commit a5823b5 pushed by druvus
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feat(doctor): install hints for missing tools + database/cache checks test #33: Commit 4a38bf2 pushed by druvus
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fix(ci): force TERM=dumb so help output has zero ANSI in tests test #32: Commit a44fd1c pushed by druvus
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fix(ci): green test job + bioconda channels for tool-integration test #31: Commit 1972817 pushed by druvus
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docs: document mdm run, CI hardening, and deferred mypy codes test #30: Commit 6e7e7b9 pushed by druvus
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docs: statistics audit and cross-family validation gate test #29: Commit d81bb3d pushed by druvus
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docs: sweep --target-family wording for v0.2.0 auto-inference test #28: Commit bf7f034 pushed by druvus
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docs: update CLAUDE.md for v0.2.0 test #27: Commit caf7db3 pushed by druvus
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docs: case study - Chesapeake Bay Francisellaceae CB52 (SRR25038281) test #26: Commit 4ae0c8b pushed by druvus
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docs(README): clarify quickstart from end-to-end verification test #25: Commit 11cf3ea pushed by druvus
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chore: release v0.2.0 test #24: Commit 5e2dd24 pushed by druvus
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