feat: integrate obikseq to configure global k-mer and minimizer sizes

This change adds the `obikseq` crate as a local dependency and inserts `set_k` and `set_m` calls across index creation and command modules. By synchronizing the runtime's global k-mer and minimizer dimensions with the loaded index parameters, downstream sequence processing and partitioning operations now consistently use the correct structural constraints.

src/obikindex/Cargo.toml

@@ -4,6 +4,7 @@ version = "0.1.0"
 edition = "2024"
 
 [dependencies]
+obikseq          = { path = "../obikseq" }
 obikpartitionner = { path = "../obikpartitionner" }
 obiskio          = { path = "../obiskio" }
 obisys           = { path = "../obisys" }

src/obikindex/src/index.rs

@@ -11,6 +11,8 @@ use obisys::{Reporter, Stage};
 use rayon::prelude::*;
 use tracing::info;
 
+use obikseq::{set_k, set_m};
+
 use crate::error::{OKIError, OKIResult};
 use crate::meta::{GenomeInfo, IndexConfig, IndexMeta};
 use crate::state::{IndexState, SENTINEL_COUNTED, SENTINEL_INDEXED, SENTINEL_SCATTERED};
@@ -40,6 +42,8 @@ impl KmerIndex {
             config.minimizer_size,
             force,
         )?;
+        set_k(config.kmer_size);
+        set_m(config.minimizer_size);
         let mut meta = IndexMeta::new(config);
         if let Some(info) = genome_info {
             meta.genomes.push(info);
@@ -51,6 +55,8 @@ impl KmerIndex {
     pub fn open<P: AsRef<Path>>(path: P) -> OKIResult<Self> {
         let root_path = path.as_ref().to_owned();
         let meta = IndexMeta::read(&root_path).map_err(OKIError::Io)?;
+        set_k(meta.config.kmer_size);
+        set_m(meta.config.minimizer_size);
         let partition = KmerPartition::open_with_config(
             &root_path,
             meta.config.kmer_size,