refactor: rename obikpartitionner crate to obikpartition

Update Cargo manifests, dependency paths, and Rust imports across the workspace to reflect the `obikpartitionner` to `obikpartition` rename. Synchronize architecture and implementation documentation with the new module structure. Fix minor syntax issues in test assertions to ensure compilation compatibility. No behavioral or API changes are introduced.

src/obikindex/Cargo.toml

@@ -5,7 +5,7 @@ edition = "2024"
 
 [dependencies]
 obikseq          = { path = "../obikseq" }
-obikpartitionner = { path = "../obikpartitionner" }
+obikpartition = { path = "../obikpartition" }
 obitaxonomy      = { path = "../obitaxonomy" }
 obiskio          = { path = "../obiskio" }
 obisys           = { path = "../obisys" }

src/obikindex/src/dump.rs

@@ -5,7 +5,7 @@ use rayon::prelude::*;
 
 use crate::error::{OKIError, OKIResult};
 use crate::index::KmerIndex;
-use obikpartitionner::KmerFilter;
+use obikpartition::KmerFilter;
 
 impl KmerIndex {
     /// Write a CSV table of all indexed kmers to `out`.

src/obikindex/src/index.rs

@@ -2,7 +2,7 @@ use std::collections::BTreeMap;
 use std::fs;
 use std::path::{Path, PathBuf};
 
-use obikpartitionner::{KmerPartitions, KmerSpectrum, PARTITIONS_SUBDIR};
+use obikpartition::{KmerPartitions, KmerSpectrum, PARTITIONS_SUBDIR};
 use obisys::{Reporter, Stage, progress_bar};
 use rayon::prelude::*;
 use tracing::info;

src/obikindex/src/merge.rs

@@ -13,7 +13,7 @@ use crate::index::KmerIndex;
 use crate::meta::{GenomeInfo, IndexMeta};
 use crate::state::{IndexState, SENTINEL_INDEXED};
 
-pub use obikpartitionner::MergeMode;
+pub use obikpartition::MergeMode;
 
 // ── per-partition diagnostic record ──────────────────────────────────────────
 
@@ -193,7 +193,7 @@ impl KmerIndex {
             let block_bits = dst.meta.config.block_bits;
 
             // Pre-build source list once (avoid rebuilding per partition)
-            let srcs: Vec<(&obikpartitionner::KmerPartitions, usize)> = remaining_sources
+            let srcs: Vec<(&obikpartition::KmerPartitions, usize)> = remaining_sources
                 .iter()
                 .map(|s| (&s.partition, s.meta.genomes.len()))
                 .collect();

src/obikindex/src/predicate.rs

@@ -1,6 +1,6 @@
 use std::collections::HashMap;
 
-use obikpartitionner::GroupQuorumFilter;
+use obikpartition::GroupQuorumFilter;
 use obitaxonomy::{TaxPath, TaxPattern};
 
 use crate::meta::{GenomeInfo, IndexMeta};

src/obikindex/src/rebuild.rs

@@ -1,6 +1,6 @@
 use std::path::Path;
 
-use obikpartitionner::{KmerFilter, MergeMode};
+use obikpartition::{KmerFilter, MergeMode};
 use obisys::{Reporter, Stage, progress_bar};
 use tracing::info;
 

src/obikindex/src/reindex.rs

@@ -1,4 +1,4 @@
-use obikpartitionner::KmerPartitions;
+use obikpartition::KmerPartitions;
 use obilayeredmap::{IndexMode, layer::Layer};
 use obisys::{Reporter, Stage, progress_bar};
 use std::fs;
@@ -71,11 +71,11 @@ impl KmerIndex {
 
 /// Process all layers of one partition's index directory.
 fn reindex_partition(
-    partition: &KmerPartitions
-   , i: usize
-   , target: &IndexMode
-   , block_bits: u,
-8) -> OKIResult<()> {
+    partition: &KmerPartitions,
+    i: usize,
+    target: &IndexMode,
+    block_bits: u8,
+) -> OKIResult<()> {
     if !partition.index_dir(i).exists() {
         return Ok(());
     }

src/obikindex/src/select.rs

@@ -1,6 +1,6 @@
 use std::path::Path;
 
-use obikpartitionner::{KmerPartitions, OutputCol};
+use obikpartition::{KmerPartitions, OutputCol};
 use obisys::{Reporter, Stage, progress_bar};
 use tracing::info;