Commit a7d97832 authored by Martin Larralde's avatar Martin Larralde
Browse files

Release v0.4.6

parent b5b8b2a1
Pipeline #25244 passed with stage
in 4 minutes and 14 seconds
......@@ -6,7 +6,33 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
## [Unreleased]
[Unreleased]: https://github.com/althonos/pyhmmer/compare/v0.4.5...HEAD
[Unreleased]: https://github.com/althonos/pyhmmer/compare/v0.4.6...HEAD
## [v0.4.6] - 2021-09-10
[v0.4.6]: https://github.com/althonos/pyhmmer/compare/v0.4.5...v0.4.6
### Added
- `pickle` protocol for `easel.Alphabet`, `easel.Bitfield`, `easel.KeyHash`, `easel.Vector`, `easel.Matrix` and `plan7.HMM`.
- `taxonomy_id` and `residue_markups` properties to `easel.Sequence`.
- `sum_score` property to `plan7.Hit`.
- `plan7.EvalueParameters` class to expose the e-value parameters of a `plan7.HMM` or a `plan7.Profile`.
- Equality checks and slicing for `easel.Matrix` and `easel.Vector`.
- Support for creating and manipulating zero-sized `easel` matrices and vectors.
- `plan7.Cutoffs` class to expose the Pfam score cutoffs of a `plan7.HMM` or a `plan7.Profile`.
- Keyword arguments to configure E-value thresholds when creating a `plan7.Pipeline` object.
- Support for using model-specific thresholding options in `plan7.Pipeline`.
### Changed
- Use the *replace* error handler when decoding error messages to skip potential decoding issues when already building an exception.
- Improve `pyhmmer.hmmer` to ensure background threads exit on a `KeyboardInterrupt`.
- `easel.VectorU8.__eq__` accepts any object implementing the buffer protocol.
- `plan7.HMM.creation_time` now takes and returns a `datetime.datetime` object, assuming the field is only ever set with `asctime`.
- Refactor `easel.Vector` and `easel.Matrix` and mark exposed memory as C-contiguous.
### Fixed
- `easel.Alphabet` not reporting potential allocation errors.
- Potential buffer overflow in `easel.Matrix` and `easel.Vector` when calling `__init__` more than once.
## [v0.4.5] - 2021-07-19
......
......@@ -25,7 +25,7 @@ from .hmmer import hmmsearch, hmmpress, nhmmer, phmmer
__author__ = "Martin Larralde <martin.larralde@embl.de>"
__license__ = "MIT"
__version__ = "0.4.5"
__version__ = "0.4.6"
__all__ = [
errors.__name__,
easel.__name__,
......
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