Recent Releases of hgvs
hgvs - 1.5.5
Bug Fixes
- Ensure hgvs seqrepo dir is unset during testing by @ccaitlingo in https://github.com/biocommons/hgvs/pull/669
- #652 - Fix for Error: AttributeError: 'UTApostgresql' object has no attribute 'pool' by @davmlaw in https://github.com/biocommons/hgvs/pull/666
- Fix typo in formatted string by @ecalifornica in https://github.com/biocommons/hgvs/pull/680
- #670 - Gene Symbol support dash and underscore by @davmlaw in https://github.com/biocommons/hgvs/pull/683
- Fix for issue 704 - pass on prevalidation_level by @davmlaw in https://github.com/biocommons/hgvs/pull/746
- fix: projection issue for stop retained insertion (#707) by @holtgrewe in https://github.com/biocommons/hgvs/pull/708
- fix(cicd): add cache-apt-pkgs-action to install zsh by @korikuzma in https://github.com/biocommons/hgvs/pull/754
- fix(test): add vcr_config for cassette management and re-run cassettes by @korikuzma in https://github.com/biocommons/hgvs/pull/755
- Fix exception in gtoc mapping by @b0d0nne11 in https://github.com/biocommons/hgvs/pull/765
- Fix variant region for ins and dup on intron-exon boundary by @b0d0nne11 in https://github.com/biocommons/hgvs/pull/748
- fix(#712): This fixes the broken make develop install by @andreasprlic in https://github.com/biocommons/hgvs/pull/713
- #730 - Fix single letter amino acid bug by @jPleyte in https://github.com/biocommons/hgvs/pull/731
- #722 Babelfish VCF bugs by @davmlaw in https://github.com/biocommons/hgvs/pull/723
New Features
- #447 - implement babelfish for VCF by @davmlaw in https://github.com/biocommons/hgvs/pull/660
- #661 - Improve Parser startup time by storing generated Python code by @davmlaw in https://github.com/biocommons/hgvs/pull/664
- feat: update default data version config by @jsstevenson in https://github.com/biocommons/hgvs/pull/734
- feat(#741): Pretty print by @andreasprlic in https://github.com/biocommons/hgvs/pull/742
- Add variant region condition for dups ending in UTR by @b0d0nne11 in https://github.com/biocommons/hgvs/pull/716
- #744 - babelfish vcf conversion accept contig accessions as chrom names by @davmlaw in https://github.com/biocommons/hgvs/pull/745
Other Changes
- Updated instructions for hgvs readme by @ccaitlingo in https://github.com/biocommons/hgvs/pull/656
Internal and Developer Changes
- Remove unused variables by @ecalifornica in https://github.com/biocommons/hgvs/pull/681
- Remove unused string format argument by @ecalifornica in https://github.com/biocommons/hgvs/pull/678
- Remove superfluous import by @ecalifornica in https://github.com/biocommons/hgvs/pull/677
- Add inline ignore for line too long errors by @ecalifornica in https://github.com/biocommons/hgvs/pull/674
- Remove unused imports by @ecalifornica in https://github.com/biocommons/hgvs/pull/675
- Add isort profile configuration to match black by @ecalifornica in https://github.com/biocommons/hgvs/pull/672
- Fix undefined names by @ecalifornica in https://github.com/biocommons/hgvs/pull/679
- Fix linter complaint about ambiguous variable name by @ecalifornica in https://github.com/biocommons/hgvs/pull/676
- Explicitly define test imports by @ecalifornica in https://github.com/biocommons/hgvs/pull/686
- Remove unused variables by @ecalifornica in https://github.com/biocommons/hgvs/pull/685
- #689 - undo circular import introduced from linting fix by @davmlaw in https://github.com/biocommons/hgvs/pull/690
- Remove top level code environment script by @ecalifornica in https://github.com/biocommons/hgvs/pull/696
- updates to documentation by @katiestahl in https://github.com/biocommons/hgvs/pull/694
- Remove unused imports by @ecalifornica in https://github.com/biocommons/hgvs/pull/684
- Remove test HTTP network calls by @ecalifornica in https://github.com/biocommons/hgvs/pull/697
- #688 - remove future usage by @davmlaw in https://github.com/biocommons/hgvs/pull/726
- #695 - Remove top level code environment scripts from modules by @davmlaw in https://github.com/biocommons/hgvs/pull/728
- #178 - use abc for Edit class to ensure method definition by @davmlaw in https://github.com/biocommons/hgvs/pull/729
- chore: remove trailing whitespace by @jsstevenson in https://github.com/biocommons/hgvs/pull/737
- refactor: use importlib instead of pkg_resources by @jsstevenson in https://github.com/biocommons/hgvs/pull/738
- build: require python >= 3.10 by @jsstevenson in https://github.com/biocommons/hgvs/pull/739
- Update authors for 2024 (last updated 4 years ago) by @davmlaw in https://github.com/biocommons/hgvs/pull/752
- Remove python2 legacy by @davmlaw in https://github.com/biocommons/hgvs/pull/753
- Update test cache by @reece in https://github.com/biocommons/hgvs/pull/756
- Resolve testing warnings by @reece in https://github.com/biocommons/hgvs/pull/763
- update project config to pyproject.toml and drop krufty config by @reece in https://github.com/biocommons/hgvs/pull/769
- fix typo. Sentence about g -> r stated g -> c by @brechtmann in https://github.com/biocommons/hgvs/pull/772
New Contributors
- @ccaitlingo made their first contribution in https://github.com/biocommons/hgvs/pull/656
- @ecalifornica made their first contribution in https://github.com/biocommons/hgvs/pull/681
- @davmlaw made their first contribution in https://github.com/biocommons/hgvs/pull/660
- @katiestahl made their first contribution in https://github.com/biocommons/hgvs/pull/694
- @jPleyte made their first contribution in https://github.com/biocommons/hgvs/pull/731
- @jsstevenson made their first contribution in https://github.com/biocommons/hgvs/pull/734
- @b0d0nne11 made their first contribution in https://github.com/biocommons/hgvs/pull/716
- @holtgrewe made their first contribution in https://github.com/biocommons/hgvs/pull/708
- @brechtmann made their first contribution in https://github.com/biocommons/hgvs/pull/772
Full Changelog: https://github.com/biocommons/hgvs/compare/1.5.4...1.5.5
- Python
Published by reece 8 months ago
