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Update the dev branch with the DIAMOND module update

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This commit is contained in:
mjamy 2022-07-15 16:28:07 +02:00
parent d7ca3df160
commit 035b4b7a17
3 changed files with 11 additions and 2 deletions
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2
modules.json
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@ -28,7 +28,7 @@
"git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
}, },
"diamond/blastx": { "diamond/blastx": {
"git_sha": "bd3bfe0817246082525ab93707976676b1fe208b" "git_sha": "3531824af826c16cd252bc5aa82ae169b244ebaa"
}, },
"fastp": { "fastp": {
"git_sha": "d0a1cbb703a130c19f6796c3fce24fbe7dfce789" "git_sha": "d0a1cbb703a130c19f6796c3fce24fbe7dfce789"

6
modules/nf-core/modules/diamond/blastx/main.nf generated
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@ -21,6 +21,7 @@ process DIAMOND_BLASTX {
tuple val(meta), path('*.sam') , optional: true, emit: sam tuple val(meta), path('*.sam') , optional: true, emit: sam
tuple val(meta), path('*.tsv') , optional: true, emit: tsv tuple val(meta), path('*.tsv') , optional: true, emit: tsv
tuple val(meta), path('*.paf') , optional: true, emit: paf tuple val(meta), path('*.paf') , optional: true, emit: paf
tuple val(meta), path("*.log") , emit: log
path "versions.yml" , emit: versions path "versions.yml" , emit: versions
when: when:
@ -54,7 +55,10 @@ process DIAMOND_BLASTX {
--query $fasta \\ --query $fasta \\
--outfmt ${outfmt} ${columns} \\ --outfmt ${outfmt} ${columns} \\
$args \\ $args \\
--out ${prefix}.${out_ext} --out ${prefix}.${out_ext} \\
--log
mv diamond.log ${prefix}.log
cat <<-END_VERSIONS > versions.yml cat <<-END_VERSIONS > versions.yml
"${task.process}": "${task.process}":

5
modules/nf-core/modules/diamond/blastx/meta.yml generated
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@ -70,7 +70,12 @@ output:
type: file type: file
description: File containing software versions description: File containing software versions
pattern: "versions.yml" pattern: "versions.yml"
- log:
type: file
description: Log file containing stdout information
pattern: "*.{log}"
authors: authors:
- "@spficklin" - "@spficklin"
- "@jfy133" - "@jfy133"
- "@mjamy"