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Commit 9776a9e4 authored by Martin Larralde's avatar Martin Larralde
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Release v0.5.4

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......@@ -6,7 +6,22 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
## [Unreleased]
[Unreleased]: https://github.com/althonos/pyrodigal/compare/v0.5.3...HEAD
[Unreleased]: https://github.com/althonos/pyrodigal/compare/v0.5.4...HEAD
## [v0.5.4] - 2021-09-18
[v0.5.4]: https://github.com/althonos/pyrodigal/compare/v0.5.3...v0.5.4
### Added
- `Prediction.confidence` method to compute the confidence for a prediction like reported in Prodigal's GFF output.
- `Prediction.sequence` method get the nucleotide sequence of a predicted gene ([#4](https://github.com/althonos/pyrodigal/issues/4)).
### Changed
- Replaced internal storage of input sequences to use a byte array instead of a bitmap.
### Fixed
- Extract `Prediction.gc_cont` number directly from the start node instead of the text representation to get full accuracy.
- Prodigal bug causing nodes on the reverse strand to always receive a penalty instead of penalizing only small ORFs ([hyattpd/Prodigal#88](https://github.com/hyattpd/Prodigal/pull/88)).
## [v0.5.3] - 2021-09-12
......
from collections.abc import Sequence as _Sequence
from collections.abc import (
Sequence as _Sequence,
Sized as _Sized,
)
from . import _pyrodigal
from ._pyrodigal import (
......@@ -30,8 +33,9 @@ __all__ = [
__author__ = "Martin Larralde <martin.larralde@embl.de>"
__license__ = "GPLv3"
__version__ = "0.5.3"
__version__ = "0.5.4"
_Sized.register(Sequence)
_Sequence.register(Genes)
_Sequence.register(Nodes)
_Sequence.register(Predictions)
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