feat: add streaming sequence reader and superkmer iterator

Introduce the `obiread` crate with a streaming byte normalizer that processes FASTA, FASTQ, and GenBank files using a 64 KiB ring buffer for O(1) memory usage. Integrate this crate into `obiskbuilder` to provide `SuperKmerStreamIter`, enabling memory-efficient superkmer traversal with rolling entropy and minimizer-based cut conditions.
2026-05-27 00:09:12 +02:00
parent 0d9be53d1f
commit a4b57a96de
8 changed files with 671 additions and 1 deletions
@@ -6,6 +6,7 @@ edition = "2024"
 [dependencies]
 obikseq = { path = "../obikseq" }
 obikrope = { path = "../obikrope" }
+obiread = { path = "../obiread" }
 lazy_static = "1.5.0"

 [dev-dependencies]