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Merge pull request #74 from nf-core/dev
Initial release (1.0.0 - - White Silver Reebok)
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,27 @@ | ||
| { | ||
| "name": "nfcore", | ||
| "image": "nfcore/gitpod:latest", | ||
| "remoteUser": "gitpod", | ||
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| // Configure tool-specific properties. | ||
| "customizations": { | ||
| // Configure properties specific to VS Code. | ||
| "vscode": { | ||
| // Set *default* container specific settings.json values on container create. | ||
| "settings": { | ||
| "python.defaultInterpreterPath": "/opt/conda/bin/python", | ||
| "python.linting.enabled": true, | ||
| "python.linting.pylintEnabled": true, | ||
| "python.formatting.autopep8Path": "/opt/conda/bin/autopep8", | ||
| "python.formatting.yapfPath": "/opt/conda/bin/yapf", | ||
| "python.linting.flake8Path": "/opt/conda/bin/flake8", | ||
| "python.linting.pycodestylePath": "/opt/conda/bin/pycodestyle", | ||
| "python.linting.pydocstylePath": "/opt/conda/bin/pydocstyle", | ||
| "python.linting.pylintPath": "/opt/conda/bin/pylint" | ||
| }, | ||
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| // Add the IDs of extensions you want installed when the container is created. | ||
| "extensions": ["ms-python.python", "ms-python.vscode-pylance", "nf-core.nf-core-extensionpack"] | ||
| } | ||
| } | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,3 +1,4 @@ | ||
| *.config linguist-language=nextflow | ||
| *.nf.test linguist-language=nextflow | ||
| modules/nf-core/** linguist-generated | ||
| subworkflows/nf-core/** linguist-generated |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,55 @@ | ||
| name: Fix linting from a comment | ||
| on: | ||
| issue_comment: | ||
| types: [created] | ||
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| jobs: | ||
| deploy: | ||
| # Only run if comment is on a PR with the main repo, and if it contains the magic keywords | ||
| if: > | ||
| contains(github.event.comment.html_url, '/pull/') && | ||
| contains(github.event.comment.body, '@nf-core-bot fix linting') && | ||
| github.repository == 'nf-core/proteinfold' | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| # Use the @nf-core-bot token to check out so we can push later | ||
| - uses: actions/checkout@v3 | ||
| with: | ||
| token: ${{ secrets.nf_core_bot_auth_token }} | ||
|
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| # Action runs on the issue comment, so we don't get the PR by default | ||
| # Use the gh cli to check out the PR | ||
| - name: Checkout Pull Request | ||
| run: gh pr checkout ${{ github.event.issue.number }} | ||
| env: | ||
| GITHUB_TOKEN: ${{ secrets.nf_core_bot_auth_token }} | ||
|
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| - uses: actions/setup-node@v3 | ||
|
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| - name: Install Prettier | ||
| run: npm install -g prettier @prettier/plugin-php | ||
|
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| # Check that we actually need to fix something | ||
| - name: Run 'prettier --check' | ||
| id: prettier_status | ||
| run: | | ||
| if prettier --check ${GITHUB_WORKSPACE}; then | ||
| echo "result=pass" >> $GITHUB_OUTPUT | ||
| else | ||
| echo "result=fail" >> $GITHUB_OUTPUT | ||
| fi | ||
| - name: Run 'prettier --write' | ||
| if: steps.prettier_status.outputs.result == 'fail' | ||
| run: prettier --write ${GITHUB_WORKSPACE} | ||
|
|
||
| - name: Commit & push changes | ||
| if: steps.prettier_status.outputs.result == 'fail' | ||
| run: | | ||
| git config user.email "[email protected]" | ||
| git config user.name "nf-core-bot" | ||
| git config push.default upstream | ||
| git add . | ||
| git status | ||
| git commit -m "[automated] Fix linting with Prettier" | ||
| git push |
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