mirror of
https://github.com/metabarcoding/obitools4.git
synced 2026-04-30 12:00:39 +00:00
Eric Coissac
8c7017a99d
- Update obioptions.Version from "Release 4.4.29" to "/v/ Release v5" - Update version.txt from 4.29 → .30 (automated by Makefile)
1.3 KiB
1.3 KiB
Semantic Description of IMergeSequenceBatch and MergePipe
This code defines two related functions in the obiiter package for batch-wise merging of biological sequences during iteration.
-
IMergeSequenceBatch(na, statsOn, sizes...) IBioSequence → IBioSequence- Consumes an input sequence iterator (
IBioSequence) and returns a new one. - Groups incoming sequences into batches (default size:
100, configurable via variadic argument). - For each batch:
- Collects up to
batchsizesequences via the input iterator. - Applies
.Merge(na, statsOn)on each sequence group (presumably merging reads based onna, e.g., nucleotide alignment or overlap). - Wraps merged results into a
BioSequenceBatchwith ordering metadata.
- Collects up to
- Emits batches asynchronously via goroutines; the output iterator is closed when input finishes.
- Consumes an input sequence iterator (
-
MergePipe(na, statsOn, sizes...) Pipeable → func(IBioSequence) IBioSequence- A pipeline combinator (higher-order function), enabling functional composition.
- Returns a
Pipeable— i.e., a transformation function compatible with iterator pipelines.
Semantic Purpose:
Enables efficient, memory-smoothed merging of biological sequence reads (e.g., paired-end merges) in streaming fashion, with optional statistics tracking (statsOn) and configurable batching.