From 7f639a8d7e12981da572b9db74bb578f809dfc89 Mon Sep 17 00:00:00 2001 From: Luis Pedro Coelho Date: Mon, 10 Jun 2024 13:49:09 +1000 Subject: [PATCH] RLS Version 0.4.0 Major changes: - Bundle a specific version of ARO with the package instead of downloading it from the internet (ensures reproducibility) - Add missing ARO mappings to manual curation. - Command line tool accept database/tool names in case-independent way (by @sebastianLedzianowski) - `lib.map_to_aro` returns `None` if there is no mapping (raises an exception if the name is missing) --- CHANGELOG.md | 8 +++++--- docs/whatsnew.md | 11 +++++++++++ setup.py | 2 +- 3 files changed, 17 insertions(+), 4 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 05351d2..efee95f 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,9 +1,9 @@ # Changelog -## Unreleased +## 0.4.0 - 10 June - Bundle a specific version of ARO with the package instead of downloading it from the internet (ensures reproducibility) -- Add ADD missing ARO mappings to manual curation. A few ARO mappings were missing in the manual curation and they have been added. +- Add missing ARO mappings to manual curation. Additions: - argannot_curation: (Phe)cpt_strepv:U09991:AAB36569:1412-1948:537 -> ARO: 3000249 @@ -11,7 +11,9 @@ - sarg_curation: AM180355.1.gene2260.p01 -> ARO: 3000250 - resfinder_curation: dldHA2X_1_AL939117 -> ARO:3003970, grdA_1_QJX10702 -> ARO:3007382, EstDL136_1_JN242251 -> ARO:3000387 - resfinderfg_curation: UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase|KF629588.1|pediatric_fecal_sample|CYC -> ARO:3003970 -- Accept inputs in case-independent way on command-line (by @sebastianLedzianowski) +- Command line tool accept database/tool names in case-independent way (by @sebastianLedzianowski) +- `lib.map_to_aro` returns `None` if there is no mapping (raises an exception if the name is missing) + ## 0.3.0 - 27 April 2024 diff --git a/docs/whatsnew.md b/docs/whatsnew.md index d6365ab..cb383b5 100644 --- a/docs/whatsnew.md +++ b/docs/whatsnew.md @@ -1,5 +1,16 @@ ## What's New +## 0.4.0 - 10 June + +### User-facing changes +- Command line tool accept database/tool names in case-independent way (by @sebastianLedzianowski) +- A few ARO mappings were missing in the manual curation and they have been added. See the [CHANGELOG](https://github.com/BigDataBiology/argNorm/blob/main/CHANGELOG.md) for more details. +- `lib.map_to_aro` returns `None` if there is no mapping (raises an exception if the name is missing) + +### Internal changes + +- Bundle a specific version of ARO with the package instead of downloading it from the internet (ensures reproducibility) + ## 0.3.0 - 27 April 2024 ### User-facing changes diff --git a/setup.py b/setup.py index 65d55a3..a64b7c8 100644 --- a/setup.py +++ b/setup.py @@ -7,7 +7,7 @@ setup( name='argnorm', - version="0.3.0", + version="0.4.0", author='ArgNorm Developers', author_email='luispedro@big-data-biology.org', url="https://github.com/BigDataBiology/argNorm",