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mashehumashehu
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run pre-commit rules on all files (#9416)
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‎.github/workflows/lint.yml‎

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- uses: actions/checkout@08c6903cd8c0fde910a37f88322edcfb5dd907a8 # v5
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- uses: actions/setup-python@e797f83bcb11b83ae66e0230d6156d7c80228e7c # v6
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- uses: pre-commit/action@2c7b3805fd2a0fd8c1884dcaebf91fc102a13ecd # v3.0.1
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with:
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extra_args: ""
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###################
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# nf-core linting #

‎.pre-commit-config.yaml‎

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rev: v2.14.0
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hooks:
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- id: hadolint-docker
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- repo: https://github.com/nf-core/tools
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rev: pre-commit
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hooks:
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- id: lint-subworkflows
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args: ["--failure-threshold", "error"]

‎modules/nf-core/agat/convertbed2gff/tests/main.nf.test‎

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}
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}
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}

‎modules/nf-core/agat/convertgff2bed/tests/main.nf.test‎

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}
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}
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}

‎modules/nf-core/agat/spextractsequences/tests/main.nf.test‎

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}
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}
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}

‎modules/nf-core/agat/spfilterbyorfsize/tests/main.nf.test‎

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}
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}
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}

‎modules/nf-core/agat/spfilterfeaturefromkilllist/tests/main.nf.test‎

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}
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}
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}

‎modules/nf-core/agat/spflagshortintrons/tests/main.nf.test‎

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}
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}
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}

‎modules/nf-core/agat/spmergeannotations/tests/main.nf.test‎

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}
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}
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}

‎modules/nf-core/angsd/contamination/tests/nextflow.config‎

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withName: ANGSD_DOCOUNTS {
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ext.args = "-iCounts 1 -doDepth -dumpCounts 2"
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}
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}
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}

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