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Introduce obikalgorithm crate to unify pipeline algorithms

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Define a shared Algorithm trait with an associated Output type and a parameterless run(&mut self) method. Refactor PartitionRouter, Dereplicator, Counter, and LayerBuilder to implement the trait, standardizing receivers to &mut self and moving configuration and progress callbacks to dedicated builder setters. Decouple error handling using a generic boxed error type and update workspace dependencies accordingly.
This commit is contained in:
Eric Coissac
2026-08-21 22:03:08 +02:00
parent 8d6ba6546b
commit 00ba968628
15 changed files with 401 additions and 146 deletions
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src/Cargo.toml
+1 -1
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@@ -1,5 +1,5 @@
[workspace]
resolver = "3"
members = ["obikseq", "obiread", "obiskbuilder", "obifastwrite", "obikmer","obikrope","obipipeline", "obiskio","obidebruinj", "obicompactvec", "obisys", "obikindex", "obikindexer", "obitaxonomy", "obikentropy", "obikphylo"]
members = ["obikseq", "obiread", "obiskbuilder", "obifastwrite", "obikmer","obikrope","obipipeline", "obiskio","obidebruinj", "obicompactvec", "obisys", "obikindex", "obikindexer", "obitaxonomy", "obikentropy", "obikphylo", "obikalgorithm"]
[profile.release]
debug = 1