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.
Centralize k-mer and minimizer configuration using a thread-safe global module, and replace manual bit-packing with a memory-efficient `PackedSeq` type. Refactor core sequence and k-mer types to use compile-time length enforcement and centralized hashing. Introduce a new De Bruijn graph implementation with compact node encoding and traversal iterators. Update I/O, partitioning, and builder modules to align with the new architecture, and add the `xxhash-rust` dependency.
- Introduce lazy_static dependency
- Refactor encoding: rename encode_base →encode_nuc and make it pub(crate)
- Add from_raw_right/raw Right methods to Kmer for right-aligned handling
- Improve error message formatting and code readability in kmod.rs tests
- Replace inline entropy computation with precomputed tables (entropy_table module)—using LazyLock for static lookup arrays
- Simplify EntropyFilter by removing redundant tables and delegating to new entropy_table API
- Add RollingStat module for real-time kmer statistics and minimizer tracking
- Reorganize modules: move iter, encoding to pub(crate), add entropy_table and rolling_stat
- Update imports across obiskbuilder crate accordingly
Eric Coissac