Dragen germline topics migration#10853
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| [ | ||
| "DRAGEN", | ||
| "dragen", | ||
| "bash: line 1: dragen: command not found" |
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It seems that the command capturing the version is not correct. Could you modify it so that it correctly prints the version?
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DRAGEN requires specialized hardware to run and the module itself has no docker image to run. I'm not sure if i can make a docker image of a proprietary pipeline.
" // ATTENTION: No conda env or container image as Dragen requires specialized hardware to run" <-- This is what it says on the module file.
| path "*_usage.txt" , emit: usage_txt | ||
| path "**" , emit: all | ||
| path "versions.yml" , emit: versions | ||
| tuple val("${task.process}"), val('dragen'), eval("dragen --version 2>&1 | sed 's/^dragen Version //;s/ Hash.*//'"), emit: versions_dragen, topic: versions |
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It seems that the command capturing the version is not correct. Could you modify it so that it correctly prints the version?
| type: file | ||
| description: GFF3 representation of the CNV events | ||
| pattern: "*.cnv.gff3" | ||
| ontologies: [] |
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You can add the ontology for gff
| type: file | ||
| description: Contains aligned reads | ||
| pattern: "*.bam" | ||
| ontologies: [] |
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Please add the missing ontologies
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PR checklist
Closes #10773
topic: versions- See version_topicsnf-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