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Merge pull request #3589 from nf-core/dev
dev > main for 3.3.0 release
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‎.editorconfig‎

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‎.github/actions/create-lint-wf/action.yml‎

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# Remove TODO statements
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- name: remove TODO
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shell: bash
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run: find nf-core-testpipeline -type f -exec sed -i '/TODO nf-core:/d' {} \;
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run: find nf-core-testpipeline -type f -exec sed -i 's#TODO nf-core:##g' {} \;
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working-directory: create-lint-wf
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# Uncomment includeConfig statement
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run: find nf-core-testpipeline -type f -exec sed -i 's/zenodo.XXXXXX/zenodo.123456/g' {} \;
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working-directory: create-lint-wf
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# Add empty ro-crate file
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- name: add empty ro-crate file
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shell: bash
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run: touch nf-core-testpipeline/ro-crate-metadata.json
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working-directory: create-lint-wf
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# Run nf-core pipelines linting
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- name: nf-core pipelines lint
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shell: bash
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- name: Upload log file artifact
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if: ${{ always() }}
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uses: actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882 # v4
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uses: actions/upload-artifact@ea165f8d65b6e75b540449e92b4886f43607fa02 # v4
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with:
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name: nf-core-log-file-${{ matrix.NXF_VER }}
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path: create-lint-wf/log.txt

‎.github/snapshots/adaptivecard.nf.test.snap‎

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"pipeline_info",
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"meta": {
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"nf-test": "0.9.2",
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"nextflow": "25.03.1"
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},
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"timestamp": "2025-05-07T13:52:10.350817122"
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}
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}

‎.github/snapshots/changelog.nf.test.snap‎

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{
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"-profile test": {
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"fastqc/SAMPLE3_SE_2_fastqc.html",
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"fastqc/SAMPLE3_SE_2_fastqc.zip",
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"multiqc",
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