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Use specific samplesheet for MALT without LR reads due to GHA memory limits
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.github/workflows/ci.yml
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.github/workflows/ci.yml
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@ -169,5 +169,5 @@ jobs:
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- name: Run pipeline with test data
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- name: Run pipeline with test data
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uses: Wandalen/wretry.action@v1.0.11
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uses: Wandalen/wretry.action@v1.0.11
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with:
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with:
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command: nextflow run ${GITHUB_WORKSPACE} -profile test_nothing,docker --run_malt --outdir ./results
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command: nextflow run ${GITHUB_WORKSPACE} -profile test_nothing,docker --run_malt --input 'https://github.com/nf-core/test-datasets/raw/taxprofiler/samplesheet_shortreadsonly.csv' --outdir ./results
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attempt_limit: 3
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attempt_limit: 3
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