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refactor: centralize k-mer filtering logic and add validation

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Refactor shared `FilterArgs` and `build_group_filter` to return a `Result` with explicit validation for fraction bounds, min/max ordering, and count constraints. Update conditional defaults for `--min-frac` and `--max-outgroup-count` to depend on explicit quorum flags, preventing silent configuration conflicts. Update documentation and MkDocs navigation to reflect the new centralized k-mer filtering system across `rebuild`, `dump`, and `unitig` commands.
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Eric Coissac
2026-06-09 09:57:38 +02:00
parent 2465cfbc4b
commit ce45e2fbe1
4 changed files with 98 additions and 34 deletions
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mkdocs.yml
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@@ -49,7 +49,7 @@ nav:
- PersistentCompactIntVec: implementation/persistent_compact_int_vec.md
- PersistentBitVec: implementation/persistent_bit_vec.md
- Merge command: implementation/merge.md
- Kmer filtering (rebuild/dump/unitig): implementation/rebuild_filter.md
- Kmer filtering: implementation/filtering.md
- Architecture:
- Sequences: architecture/sequences/invariant.md
- Kmer index: architecture/index_architecture.md