Releases: krishnanlab/PyGenePlexus
Releases · krishnanlab/PyGenePlexus
v2.0.4
Full Changelog: v2.0.3...v2.0.4
Changed from last version due to README.md pointing to wrong data
v2.0.3
What's Changed
- Bump statsmodels from 0.14.2 to 0.14.4 by @dependabot in #357
- Bump pytest-order from 1.1.0 to 1.3.0 by @dependabot in #356
- Bump pytest from 7.4.2 to 8.3.4 by @dependabot in #355
- Bump requests-mock from 1.11.0 to 1.12.1 by @dependabot in #354
- Fixes for changing bug in scaling by @ChristopherMancuso in #368
- Bump pyyaml from 6.0.1 to 6.0.2 by @dependabot in #360
- Bump pytest-cov from 4.1.0 to 6.0.0 by @dependabot in #361
- Bump setuptools from 75.5.0 to 75.8.0 by @dependabot in #362
- Bump requests from 2.31.0 to 2.32.3 by @dependabot in #363
- changes to Zenodo downloader by @ChristopherMancuso in #372
- Bump pystow from 0.6.1 to 0.7.0 by @dependabot in #369
- Bump tox from 4.23.2 to 4.24.1 by @dependabot in #370
- Bump scikit-learn from 1.6.0 to 1.6.1 by @dependabot in #371
Full Changelog: v2.0.2...v2.0.3
Contributors
dependabot and ChristopherMancuso
Assets 2
v2.0.2
What's Changed
- updated package version in places by @ChristopherMancuso in #353
- update v2.0.1 to v2.0.2 by @ChristopherMancuso in #358
Full Changelog: v2.0.1...v2.0.2
Contributors
ChristopherMancuso
Assets 2
v2.0.1
Full Changelog: v2.0.0...v2.0.1
Update for PYPI project description from README.md. Major release changes in v2.0.0
v2.0.0
What's Changed
- Add sp_trn and sp_tst options by @ChristopherMancuso in #301
- change making sim dfs only from GSC by @ChristopherMancuso in #307
- basic api runs with all parameters by @ChristopherMancuso in #309
- added check if Entrez might not be correct species by @ChristopherMancuso in #311
- Mondo and prop by @ChristopherMancuso in #313
- Api functionality updates by @ChristopherMancuso in #325
- Zenodo and downloads by @ChristopherMancuso in #328
- Fixes to setters and custom by @ChristopherMancuso in #330
- multiple updates to CLI by @ChristopherMancuso in #331
- updated tst to res and code comments by @ChristopherMancuso in #332
- Fix the pytests by @ChristopherMancuso in #333
- updated the example directory by @ChristopherMancuso in #337
- remove custom from read the docs by @ChristopherMancuso in #338
- Pytests, package builds and documentation by @ChristopherMancuso in #339
- added parameter availablity tables by @ChristopherMancuso in #342
- Fix how parameters are set by @ChristopherMancuso in #343
- min positives for training by @ChristopherMancuso in #345
- Added FAQs section by @ChristopherMancuso in #346
- updated the faqs by @ChristopherMancuso in #347
- Bump pystow from 0.5.0 to 0.6.1 by @dependabot in #348
- Bump pytest-mock from 3.11.1 to 3.14.0 by @dependabot in #310
- Bump scikit-learn from 1.3.0 to 1.6.0 by @dependabot in #349
- Bump tqdm from 4.65.0 to 4.67.1 by @dependabot in #350
Full Changelog: v1.0.1...v2.0.0
Contributors
dependabot and ChristopherMancuso
Assets 2
v2.0.0.dev
What's Changed
- Add sp_trn and sp_tst options by @ChristopherMancuso in #301
- change making sim dfs only from GSC by @ChristopherMancuso in #307
- basic api runs with all parameters by @ChristopherMancuso in #309
- added check if Entrez might not be correct species by @ChristopherMancuso in #311
- Mondo and prop by @ChristopherMancuso in #313
- Api functionality updates by @ChristopherMancuso in #325
- Zenodo and downloads by @ChristopherMancuso in #328
- Fixes to setters and custom by @ChristopherMancuso in #330
- multiple updates to CLI by @ChristopherMancuso in #331
- updated tst to res and code comments by @ChristopherMancuso in #332
- Fix the pytests by @ChristopherMancuso in #333
- updated the example directory by @ChristopherMancuso in #337
- remove custom from read the docs by @ChristopherMancuso in #338
- Pytests, package builds and documentation by @ChristopherMancuso in #339
- added parameter availablity tables by @ChristopherMancuso in #342
- Fix how parameters are set by @ChristopherMancuso in #343
- min positives for training by @ChristopherMancuso in #345
- Added FAQs section by @ChristopherMancuso in #346
- updated the faqs by @ChristopherMancuso in #347
- Bump pystow from 0.5.0 to 0.6.1 by @dependabot in #348
- Bump pytest-mock from 3.11.1 to 3.14.0 by @dependabot in #310
- Bump scikit-learn from 1.3.0 to 1.6.0 by @dependabot in #349
- Bump tqdm from 4.65.0 to 4.67.1 by @dependabot in #350
Full Changelog: v1.0.1...v2.0.0.dev
Contributors
dependabot and ChristopherMancuso
Assets 2
v1.0.1
What's Changed
- changed to using sphinx.ext.napoleon not sphinxcontrib.napoleon by @ChristopherMancuso in #288
- update rtd config by @RemyLau in #296
Dependencies
- [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #279
- Bump pyyaml from 6.0 to 6.0.1 by @dependabot in #276
- Bump pytest from 7.2.0 to 7.4.2 by @dependabot in #291
- Bump tox from 4.6.4 to 4.11.4 by @dependabot in #295
Full Changelog: v1.0.0...v1.0.1
Contributors
dependabot, ChristopherMancuso, and 2 other contributors
Assets 2
v1.0.0
What's Changed
- Update data v1.2, download zip files instead by @RemyLau in #64
- Test custom module by @RemyLau in #65
- Hotfix doc by @RemyLau in #66
- Multithreaded GET with persistent HTTP sessions by @RemyLau in #67
- References and license by @RemyLau in #68
- Fix typo and add LICENSE by @RemyLau in #70
- Patch CLI by @RemyLau in #91
- Patch data directories by @RemyLau in #92
- Check param via property by @RemyLau in #93
- Use zip instead of tar gz for windows users by @RemyLau in #94
- Download debug log by @RemyLau in #95
- Warn overwriting files by @RemyLau in #96
- Dump config by @RemyLau in #97
- Test dump config by @RemyLau in #98
- Create dependabot.yml by @RemyLau in #99
- Custom network validation by @RemyLau in #104
- Patch cross validation by @RemyLau in #110
- Overwrite option by @RemyLau in #112
- CLI skip model similarity analysis, save run log by @RemyLau in #114
- Max download retry by @RemyLau in #115
- Add more support by @RemyLau in #118
- Doc overview by @RemyLau in #116
- Minor doc fixes by @RemyLau in #126
- Update API examples and defaults by @RemyLau in #128
- Download log by @RemyLau in #133
- Add explicit links to doc by @RemyLau in #137
- Add option for skipping cross validation by @RemyLau in #145
- Improve custom network and gsc checks by @RemyLau in #148
- Bump numpy from 1.22.3 to 1.22.4 by @dependabot in #147
- Update docs by @RemyLau in #156
- Update docs (consistent notation + reorganize) by @RemyLau in #160
- Updated overview figure and product list by @ChristopherMancuso in #174
- Custom check by @ChristopherMancuso in #179
- Download tests by @ChristopherMancuso in #189
- fix typo by @RemyLau in #202
- fix file handler not closed issue on windows machines by @RemyLau in #203
- change software license to BSD3 by @RemyLau in #211
- added eval info to docs by @ChristopherMancuso in #212
New Contributors
- @dependabot made their first contribution in #100
- @pre-commit-ci made their first contribution in #108
- @ChristopherMancuso made their first contribution in #174
Full Changelog: v0.4...v1.0.0
Contributors
dependabot, ChristopherMancuso, and 2 other contributors
Assets 2
v1.0.0-dev.5
What's Changed
- Updated overview figure and product list by @ChristopherMancuso in #174
- Custom check by @ChristopherMancuso in #179
Dependencies version bumps
- Bump pystow from 0.4.4 to 0.4.5 by @dependabot in #163
- Bump pytest-mock from 3.7.0 to 3.8.1 by @dependabot in #159
- Bump tox from 3.25.0 to 3.25.1 by @dependabot in #161
- [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #164
- Bump requests from 2.28.0 to 2.28.1 by @dependabot in #162
- Bump pytest-mock from 3.8.1 to 3.8.2 by @dependabot in #165
- [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #166
- Bump sphinx from 5.0.2 to 5.1.1 by @dependabot in #171
- Bump pystow from 0.4.5 to 0.4.6 by @dependabot in #170
- Bump sphinx-autodoc-typehints from 1.18.3 to 1.19.2 by @dependabot in #178
- Bump scikit-learn from 1.1.1 to 1.1.2 by @dependabot in #177
- [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #169
New Contributors
- @ChristopherMancuso made their first contribution in #174
Full Changelog: v1.0.0-dev.4...v1.0.0-dev.5
Contributors
dependabot, ChristopherMancuso, and pre-commit-ci
Assets 2
v1.0.0-dev.4
What's Changed
- Bump scikit-learn from 1.0.2 to 1.1.1 by @dependabot in #144
- Add option for skipping cross validation by @RemyLau in #145
- Improve custom network and gsc checks by @RemyLau in #148
- Bump numpy from 1.22.3 to 1.22.4 by @dependabot in #147
- Update docs by @RemyLau in #156
- Bump sphinx from 4.5.0 to 5.0.2 by @dependabot in #157
- Bump sphinx-autodoc-typehints from 1.18.1 to 1.18.3 by @dependabot in #155
- Bump requests from 2.27.1 to 2.28.0 by @dependabot in #154
- [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #152
- Bump pystow from 0.4.3 to 0.4.4 by @dependabot in #153
- Update docs (consistent notation + reorganize) by @RemyLau in #160
Full Changelog: v1.0.0-dev.3...v1.0.0-dev.4
Contributors
dependabot, RemyLau, and pre-commit-ci