Vcf vembrane #9305
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Vcf vembrane #9305
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SPPearce
requested changes
Nov 1, 2025
| script: | ||
| def args = task.ext.args ?: '' | ||
| def prefix = task.ext.prefix ?: "${meta.id}" | ||
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| script: | ||
| def args = task.ext.args ?: '' | ||
| def prefix = task.ext.prefix ?: "${meta.id}" |
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Suggested change
| def prefix = task.ext.prefix ?: "${meta.id}" | |
| def prefix = task.ext.prefix ?: "${meta.id}_filtered" |
| vembrane filter \\ | ||
| ${args} \\ | ||
| ${expression} \\ | ||
| -o ${prefix}_filtered.vcf \\ |
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Suggested change
| -o ${prefix}_filtered.vcf \\ | |
| -o ${prefix}.vcf \\ |
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| stub: | ||
| def args = task.ext.args ?: '' | ||
| def prefix = task.ext.prefix ?: "${meta.id}" |
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Suggested change
| def prefix = task.ext.prefix ?: "${meta.id}" | |
| def prefix = task.ext.prefix ?: "${meta.id}_filtered" |
| vembrane filter \\ | ||
| ${args} \\ | ||
| ${expression} \\ | ||
| -o ${prefix}_filtered.vcf \\ |
There was a problem hiding this comment.
Suggested change
| -o ${prefix}_filtered.vcf \\ | |
| -o ${prefix}.vcf \\ |
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| description: write your description here | ||
| keywords: | ||
| - filter | ||
| - table | ||
| - sort | ||
| tools: |
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| // | ||
| // (the module requires running more than one process to generate the required output) | ||
| // add the 'setup' method here. | ||
| // You can find more information about how to use a 'setup' method in the docs (https://nf-co.re/docs/contributing/modules#steps-for-creating-nf-test-for-chained-modules). |
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| // | |
| // (the module requires running more than one process to generate the required output) | |
| // add the 'setup' method here. | |
| // You can find more information about how to use a 'setup' method in the docs (https://nf-co.re/docs/contributing/modules#steps-for-creating-nf-test-for-chained-modules). |
| } | ||
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| } | ||
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Can you add a stub test please.
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in Hackathon Barcelona October 2025
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PR checklist
Closes #XXX
versions.ymlfile.labelnf-core modules test <MODULE> --profile dockernf-core modules test <MODULE> --profile singularitynf-core modules test <MODULE> --profile condanf-core subworkflows test <SUBWORKFLOW> --profile dockernf-core subworkflows test <SUBWORKFLOW> --profile singularitynf-core subworkflows test <SUBWORKFLOW> --profile conda