Eric Coissac
5c1584967f
The command now supports reopening existing indexes instead of failing when the output file exists. Control flow branches between opening an existing index and constructing a new one, moving configuration setup exclusively to the creation path. Directory existence is enforced upfront with proper I/O error propagation. The --force flag retains its original semantics by removing the target directory before proceeding with a fresh build.
20 lines
1.0 KiB
Markdown
20 lines
1.0 KiB
Markdown
<!-- coverage sidecar — ne pas ajouter au nav mkdocs -->
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# Coverage: implementation/pipeline.md
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## Code couvert
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- `obikindex/src/partition/partition.rs` — estimation des paramètres (phase 0)
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- `obiskbuilder/src/iter.rs` — scatter : filtre entropie, extraction superkmers, routage partition (phase 1)
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- `obikindex/src/partition/filter.rs` — déduplication bucket-sort (phase 2)
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- `obikindex/src/partition/kmer_sort.rs` — tri externe + agrégation de comptages (phase 3)
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- `obidebruinj/src/debruijn.rs` — graphe De Bruijn, extraction des unitigs (phase 5)
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- `obikindex/src/partition/index_layer.rs` — construction MPHF + évidence (phase 6), paramètre `block_bits`
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- `obikindex/src/index.rs` — `build_layers()`, `dereplicate_and_count()`
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## Notes
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RISQUE DE DÉRIVE modéré. Vérifier :
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- Phase 6 : la doc mentionne-t-elle le filtre d'abondance (`min_ab`, `max_ab`) ?
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- Phase 6 : `block_bits` passé à `build_index_layer` depuis `IndexConfig`
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- Phase 6 : dispatch exact/approx selon `EvidenceKind` dans `build_index_layer`
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