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@dependabot dependabot bot commented on behalf of github Jun 26, 2023

Bumps pyroe from 0.9.0 to 0.9.3.

Release notes

Sourced from pyroe's releases.

pyroe v0.9.3

Fixes #39, which caused id-to-name to fail for files with multiple suffixes.

pyroe v0.9.2

fix: There was another bug upstream in pyranges (issue here) that breaks GTF/GFF parsing. This is a "hot fix" release that simply pins pyranges to 0.0.120 until the bug is fixed upstream in pyranges, or until a more reliable replacement can be found for GTF parsing and interval arithmetic for reference building.

pyroe v0.9.1

fix: There is a bug upstream in pyranges that precludes using pandas >= 2.0. However, that restriction isn't in place for the pyranges dependencies. This release restricts pyroe to depend on a pandas < 2.0 until this is fixed upstream.

fix: The aliases for the make-spliced+intronic and make-spliced+unspliced subcommands were not working; this release fixes those aliases.

Commits
  • 7e69996 Merge pull request #40 from COMBINE-lab/develop
  • 8d4bb65 pin the versions of dependencies in github actions
  • fa48388 pin the versions of dependencies in github actions
  • 66227f7 make flake8 happy
  • 14a03a7 fix: fix bug in format detection for id-to-name
  • dc60cad Merge pull request #38 from COMBINE-lab/develop
  • dfc6769 Merge pull request #37 from DongzeHE/develop
  • 5a47d35 fix: fix pyranges version
  • edb2177 fix: fix pyranges version as the new version is broken
  • 9b81eae Merge pull request #36 from COMBINE-lab/develop
  • Additional commits viewable in compare view

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@dependabot dependabot bot added the dependencies Pull requests that update a dependency file label Jun 26, 2023
@dependabot dependabot bot force-pushed the dependabot/pip/pyroe-0.9.3 branch from a54dd9b to 9ea6a99 Compare July 3, 2023 19:12
Bumps [pyroe](https://github.com/COMBINE-lab/pyroe) from 0.9.0 to 0.9.3.
- [Release notes](https://github.com/COMBINE-lab/pyroe/releases)
- [Commits](COMBINE-lab/pyroe@v0.9.0...v0.9.3)

---
updated-dependencies:
- dependency-name: pyroe
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot dependabot bot force-pushed the dependabot/pip/pyroe-0.9.3 branch from 9ea6a99 to 8f57119 Compare July 11, 2023 17:31
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