Clair3 #3058
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Clair3 #3058
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sateeshperi
requested changes
Nov 4, 2023
| conda 'bioconda::clair3=1.0.0' | ||
| container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? | ||
| 'https://depot.galaxyproject.org/singularity/clair3:1.0.0--py39hb9dc472_1' : | ||
| 'quay.io/biocontainers/clair3:1.0.0--py39hb9dc472_1' }" |
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| 'quay.io/biocontainers/clair3:1.0.0--py39hb9dc472_1' }" | |
| 'biocontainers/clair3:1.0.0--py39hb9dc472_1' }" |
modules/nf-core/clair3/main.nf
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| tuple val(meta), path("${meta.id}/*") , emit: vcf | ||
| path "versions.yml" , emit: versions |
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| tuple val(meta), path("${meta.id}/*") , emit: vcf | |
| path "versions.yml" , emit: versions | |
| tuple val(meta), path("${meta.id}/*") , emit: vcf | |
| path "versions.yml" , emit: versions |
| "${task.process}": | ||
| clair3: \$( /usr/local/bin/run_clair3.sh --version | sed 's/Clair3 v//' ) | ||
| END_VERSIONS | ||
| """ |
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recommend adding a stub: section
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| - clair3 | ||
| - short-variant calling |
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| - clair3 | |
| - short-variant calling | |
| - germline | |
| - short-variant calling | |
| - long-reads |
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condaenvironment couldn't be resolvedPR checklist
Closes #XXX
versions.ymlfile.labelPROFILE=docker pytest --tag <MODULE> --symlink --keep-workflow-wd --git-awarePROFILE=singularity pytest --tag <MODULE> --symlink --keep-workflow-wd --git-awarePROFILE=conda pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware