Mercurial > repos > althonos > gecco
comparison CHANGELOG.md @ 17:e28ffe93dc69 draft
Release v0.9.4
| author | althonos |
|---|---|
| date | Tue, 31 May 2022 10:52:39 +0000 |
| parents | 042a23379d2d |
| children | 3dd71eaa2909 |
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| 16:042a23379d2d | 17:e28ffe93dc69 |
|---|---|
| 3 | 3 |
| 4 The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/) | 4 The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/) |
| 5 and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.html). | 5 and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.html). |
| 6 | 6 |
| 7 ## [Unreleased] | 7 ## [Unreleased] |
| 8 [Unreleased]: https://git.embl.de/grp-zeller/GECCO/compare/v0.9.3...master | 8 [Unreleased]: https://git.embl.de/grp-zeller/GECCO/compare/v0.9.4...master |
| 9 | |
| 10 | |
| 11 ## [v0.9.4] - 2022-05-31 | |
| 12 [v0.9.4]: https://git.embl.de/grp-zeller/GECCO/compare/v0.9.3...v0.9.4 | |
| 13 | |
| 14 ### Added | |
| 15 - `classes_` property to `TypeClassifier` to access the `classes_` attribute of the `TypeBinarizer`. | |
| 16 - Alternative ORF finder `CDSFinder` which simply extracts CDS features from input sequences ([#8](https://github.com/zellerlab/GECCO/issues/8)). | |
| 17 - Support for annotating domains with "exclusive" HMMs to annotate genes with *at most* one HMM from the library. | |
| 18 | |
| 19 ### Changed | |
| 20 - `ProductType` is not restricted to MIBiG types anymore and can support any string as a base type identifier. | |
| 21 - `PyrodigalFinder` now uses `multiprocessing.pool.ThreadPool` instead of custom thread code thanks to `OrfFinder.find_genes` reentrancy introduced in Pyrodigal `v1.0`. | |
| 22 - `PyrodigalFinder` can now be used in single / non-meta mode from the API. | |
| 23 - BUmped minimum `rich` version to `12.3` to use `None` total in progress bars when the size of an HMM library is unknown. | |
| 24 | |
| 25 ### Fixed | |
| 26 - Broken MyPy type annotations in the `gecco.model` and `gecco.cli` modules. | |
| 9 | 27 |
| 10 | 28 |
| 11 ## [v0.9.3] - 2022-05-13 | 29 ## [v0.9.3] - 2022-05-13 |
| 12 [v0.9.3]: https://git.embl.de/grp-zeller/GECCO/compare/v0.9.2...v0.9.3 | 30 [v0.9.3]: https://git.embl.de/grp-zeller/GECCO/compare/v0.9.2...v0.9.3 |
| 13 | 31 |