chore(master): release MPRAsnakeflow 0.3.0 #141
Merged
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
![github-actions[bot]](https://avatars.githubusercontent.com/in/15368?s=60&v=4){kind=small}
|
🤖 Created releases: |
visze
added a commit
that referenced
this pull request
Nov 20, 2024
* chore: conventional commit action (#134) * chore: Update development (#128) * docs: enhancing documentation * docs: better quickstart * chore: ubdate github actions to setup-micromamba * docs: remove default channel from environment file * docs: improvements, like QC report (#125) * added .DS_Store to gitignore. * Fixed the overflow of the features section by using the table. * Fixed the broked report link. * fixed typo project * Typo fix controlled * Sample QC report HTML file * Added the link to the QC report in experiment. * Added the assignment QC report. * Add link to QC report in assignment documentation * Update documentation in quickstart.rst. Fixed typos and gramatical mistakes. * Update documentation in index.rst. Fix typos and grammatical mistakes. * Fix typo in installation documentation * Refactor documentation in config.rst --------- Co-authored-by: Max <visze@users.noreply.github.com> * docs: Fixed the link for the QC report in Experiment and Assignment (#126) * added .DS_Store to gitignore. * Fixed the overflow of the features section by using the table. * Fixed the broked report link. * fixed typo project * Typo fix controlled * Sample QC report HTML file * Added the link to the QC report in experiment. * Added the assignment QC report. * Add link to QC report in assignment documentation * Update documentation in quickstart.rst. Fixed typos and gramatical mistakes. * Update documentation in index.rst. Fix typos and grammatical mistakes. * Fix typo in installation documentation * Refactor documentation in config.rst * Update documentation links in assignment.rst and experiment.rst * Testing the iframe html file. * Update documentation links in assignment.rst and experiment.rst --------- Co-authored-by: Max <visze@users.noreply.github.com> * chore: delete not necessary files * docs: automatic versioning * style: automatic version printing of MPRAsnakeflow * fix: memory resources for bbmap (#123) * fix: add memory resources for bbmap * set lower memm in bbmap workflow profile * increasing memory for bmap --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> Co-authored-by: Max Schubach <max.schubach@bihealth.de> * fix: Detach from anaconda (#122) * fix: detach from anaconda. Remove defaults conda channels * fixing linting errors * update hashes in dockerfile from lining errors --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> * chore(master): release MPRAsnakeflow 0.1.1 (#124) * chore(master): release MPRAsnakeflow 0.1.1 * Update .release-please-manifest.json * Update version.txt * Update CHANGELOG.md --------- Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Max <visze@users.noreply.github.com> * forgot to upgrade two envs * docs: correct link in docs badge --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> Co-authored-by: Ali <69039717+bioinformaticsguy@users.noreply.github.com> Co-authored-by: Max Schubach <max.schubach@bihealth.de> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> * feat!: igvf outputs (#129) * refactor: removed statistics from final barcode to oligo map * refactor outputs * fix scripts due to renaming headers * fix assignment statistic due to new output * refactor!: moving files. not attched counts are not used as well as median for scaling * adding logs --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> * chore!: supporting only snakemake >=8.24.1 (#130) Co-authored-by: Max Schubach <max.schubach@bih-charite.de> * refactor!: No min max length for bbmap. default mapq is 30. (#131) Changes for bbmap * no min an max for sequence length and start. (like exact matching) * using default of 30 mapq instead of 35 * feat!: outlier removal (#132) * feat!: outlier detection Might break older config files * docs: update documentation for bbmap, apptainer and outlier removal * use abs for zscore * trying to fix outlier via zscore * mad code change * change outlier removal default to zscore --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> * edit config * Update conventional-prs.yml --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> Co-authored-by: Ali <69039717+bioinformaticsguy@users.noreply.github.com> Co-authored-by: Max Schubach <max.schubach@bihealth.de> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> * Update Dockerfile * chore(master): release MPRAsnakeflow 0.2.0 (#135) * chore(master): release MPRAsnakeflow 0.2.0 * Update CHANGELOG.md --------- Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Max <visze@users.noreply.github.com> * feat!: versioned config (#140) * no mad outlier detection, version controled config, global config removed * getting action linter to run * fix: update argument syntax for version retrieval in GitHub Actions workflow * fix: correct argument syntax for version retrieval in GitHub Actions workflow * fix: correct argument syntax for version retrieval in GitHub Actions workflow * fix: update argument syntax for version retrieval in GitHub Actions workflow * fix: add skip version check option in workflow configuration --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> * chore(master): release MPRAsnakeflow 0.3.0 (#141) * chore(master): release MPRAsnakeflow 0.3.0 * Update CHANGELOG.md --------- Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Max <visze@users.noreply.github.com> --------- Co-authored-by: Max Schubach <max.schubach@bih-charite.de> Co-authored-by: Ali <69039717+bioinformaticsguy@users.noreply.github.com> Co-authored-by: Max Schubach <max.schubach@bihealth.de> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
🤖 I have created a release beep boop
0.3.0 (2024-11-20)
⚠ BREAKING CHANGES
Features
This PR was generated with Release Please. See documentation.