fulcrumgenomics/pybwa: 2.3.0

Zenodo (CERN European Organization for Nuclear Research)

Abstract

Bug Fixes Correct typo in htslib configuration path (7176a535) Add sam_hdr_destroy declaration to prevent double-free (81dd65d9) Add error checking and safe pointer initialization in BwaIndex (67399f07) Add type annotations and update stub files for mypy compliance (6263aa0b) Pre-compile bwa into static library to eliminate parallel build race condition (3d4a5b8e) Documentation Revamp README with quick start examples (dda1484f) Improve docstrings across public API (30a4bb28) Reorganize api.rst with task-oriented examples (7af210ce) Add comment explaining QEMU usage in wheel builds (7c84d45a) Add thread-safety warning to set_bwa_verbosity (2136eb7e) Features Drop Python 3.9 support, add Python 3.13 and 3.14 (#120) (42b60dc5) Comprehensive code quality and performance improvements (2e7b496b) Improve type hints for better IDE support (886ff637) Performance Add caching for htslib build artifacts (895e6e4f) Refactor Consolidate error checking with shared utility functions (7e9cf6d3) Styling Fix import formatting in stub files (5ac9d25d) Fix formatting in test_resource_management.py (c730f211) Testing Add comprehensive error handling and resource management tests (1c00c4b7)

Authors 2

1. Nils Homer

   Fulcrum Genomics (United States)

   Affiliation as printed

   @fulcrumgenomics

2. Martin Larralde Aachen LUMC (ex EMBL) @zellerlab

   Leiden University Medical Center

   Affiliation as printed

   LUMC (ex EMBL) @zellerlab