0.3.36

Added

• Added missing licence files.

Removed

• Removed Python 3.9 and macOS 10.15 support since they're EOL.

0.3.35

Added

• Python 3.14 support

Removed

• Removed sphinx-style python docstrings references
• Removed most documentation as part of migration to https://software-docs.nanoporetech.com/pod5

Changed

• Moved filter + subset implementation into C++ for improved performance.
• Performance improvements to pod5 view especially when reading read ids from large files.
• Updated polars version from "=1.20,<1.32" to "= 1.30"
• Switch to uv for managing CI python environments
• Updated to pyarrow 22.0.0

0.3.34

Added

• open_pore_level to pod5 inspect read

Changed

• Fixed migration behaviour on nfs systems, where migrated tables could be left orphaned on disk.
• Limited polars install version to "~=1.20,<1.32" following breaking changes
• Tidied up how tmp files are named, used a larger set of numbers for naming.

0.3.33

[0.3.33]

Added

• Added new field open_pore_level, containing the level of the open pore as tracked by MinKNOW for this channel/well.
• Option to allow users of C++ API to not keep file handles open if required.
• Added Conan 2 CI

Changed

• Reduced virtual memory usage when opening POD5 files by 75%.
• Python API now memory maps inner tables using the mmap.mmap offset and length arguments directly instead of taking a slice of the whole file.
• Order of pod5 view is backwards compatible with 0.3.30, new open_pore_level field is at the end of the list.
• Build with sanitization on GCC13

Removed

• Deprecated support for unused read scaling values "tracked_scaling_scale", "tracked_scaling_shift", "predicted_scaling_scale", "predicted_scaling_shift", "num_reads_since_mux_change" and "time_since_mux_change". These will be removed from stored data and writer API in 0.4.0, with accessing API remaining in place until 0.5.0.
• Dropped incorrect sanitized conan jobs.
• Dropped support for macOS x86

0.3.28

0.3.28

Changed

• Additional testing for Linux file access.

0.3.27

Fixed

• Fixed some crashes when parsing corrupt POD5 files.
• Fixed missing error handling when the C API is called incorrectly.
• Fixed and clarified C API thread safety.
• Fall back to regular IO if direct IO is requested, but file opening fails.
• Flush pod5 view header to prevent issue on Windows systems where header would not be on top.

Changed

• Bumped polars to next major version (~= 1.20).
• The read end reason now includes paused - for reads that ended because acquisition was paused.
• Python 3.8 wheels are no longer built for Windows or macOS (Python 3.8 is end-of-life).
• Better error messages and testing of file recovery.
• Update to arrow 18 for the cpp library.

Removed

• Dropped automated ARM+GCC8 builds.

Added

• Conan pod5 builds with address, thread and undefined behaviour sanitizer support.
• Added fuzz testing.
• New option cleanup temporary files after file recovery.

0.3.23

Added

• ArrowTableHandle stream member to store the BatchFileReader backend
• ArrowTableHandle options argument to pass in IpcReadOptions
• pod5::default_memory_pool function which selects an appropriate memory pool even on large page systems.

Changed

• Refactored Multi-threading in DatasetReader to prevent too many open files errors
• Updated dependency to pyarrow~=18.0.0 for python>=3.9
• Relaxed h5py python dependency
• Removed use of python build when building wheel in cmake.

0.3.21

[0.3.21]

Added

• Support for python 3.13.
• New end reason for reads terminated due to an analysis configuration change.
• Ability to disable flushing on batch complete
• Use new LinuxOutputStream to cache allocations and reduce memory when writing many files.
• svb16 headers packaged with pod5

Changed

• Removed use of Boost. This does not affect the C interface, but may require changes to
  consumers of the C++ headers.
• Refactored directio writing engine to open up async io support.
• Fixed Boost version compatibility checking in Conan packages.
• Reduced allocations when compressing signal.
• Directio output now writes on batch complete without flushing explicitly.

Fixed

• Crash when searching empty file for reads.

0.3.15

Added

• Added new end reasons "api_request" and "device_data_error" to allow for new read end reasons future minknow versions will generate.
• Allow directio to specify the chunk size directly.
• gcc8 builds

Fixed

• Instability when creating a pod5 writer fails.
• Issue with directio mode where space is over reserved.

0.3.12

Fixed

• Fixed issues reading signal from uncompressed pod5 files.