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Code Issues Releases Packages Activity

Syncronise local modules with other generic container modules

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This commit is contained in:
James Fellows Yates 2023-03-07 11:41:57 +01:00
parent e92196cd12
commit 5c8e2b492c
2 changed files with 5 additions and 5 deletions
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6
modules/local/kraken2_standard_report.nf
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@ -2,10 +2,10 @@ process KRAKEN2_STANDARD_REPORT {
tag "$meta.id" tag "$meta.id"
label 'process_single' label 'process_single'
conda "conda-forge::sed=4.8" conda "conda-forge::sed=4.7"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv2/biocontainers_v1.2.0_cv2.img' : 'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
'biocontainers/biocontainers:v1.2.0_cv2' }" 'ubuntu:20.04' }"
input: input:
tuple val(meta), path(report) tuple val(meta), path(report)

4
modules/local/krona_cleanup.nf
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@ -4,8 +4,8 @@ process KRONA_CLEANUP {
conda "conda-forge::sed=4.7" conda "conda-forge::sed=4.7"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img' : 'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
'biocontainers/biocontainers:v1.2.0_cv1' }" 'ubuntu:20.04' }"
input: input:
tuple val(meta), path(krona, stageAs: 'uncleaned.krona.txt') tuple val(meta), path(krona, stageAs: 'uncleaned.krona.txt')