From 307d38ff33ee801b85712b68fb4fc91205158513 Mon Sep 17 00:00:00 2001 From: maxulysse Date: Tue, 26 Sep 2023 16:43:53 +0200 Subject: [PATCH] remove unnecessary/wrong spaces in controlfreec modules containers declaration --- modules/nf-core/controlfreec/assesssignificance/main.nf | 4 ++-- modules/nf-core/controlfreec/freec/main.nf | 4 ++-- modules/nf-core/controlfreec/freec2bed/main.nf | 4 ++-- modules/nf-core/controlfreec/freec2circos/main.nf | 4 ++-- modules/nf-core/controlfreec/makegraph/main.nf | 5 +++-- 5 files changed, 11 insertions(+), 10 deletions(-) diff --git a/modules/nf-core/controlfreec/assesssignificance/main.nf b/modules/nf-core/controlfreec/assesssignificance/main.nf index 50197809645..aada1c4a494 100644 --- a/modules/nf-core/controlfreec/assesssignificance/main.nf +++ b/modules/nf-core/controlfreec/assesssignificance/main.nf @@ -4,8 +4,8 @@ process CONTROLFREEC_ASSESSSIGNIFICANCE { conda "bioconda::control-freec=11.6b" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0 ': - 'biocontainers/control-freec:11.6b--hdbdd923_0 ' }" + 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0' : + 'biocontainers/control-freec:11.6b--hdbdd923_0' }" input: tuple val(meta), path(cnvs), path(ratio) diff --git a/modules/nf-core/controlfreec/freec/main.nf b/modules/nf-core/controlfreec/freec/main.nf index 7ba83353c92..213ef929274 100644 --- a/modules/nf-core/controlfreec/freec/main.nf +++ b/modules/nf-core/controlfreec/freec/main.nf @@ -4,8 +4,8 @@ process CONTROLFREEC_FREEC { conda "bioconda::control-freec=11.6b" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0 ': - 'biocontainers/control-freec:11.6b--hdbdd923_0 ' }" + 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0' : + 'biocontainers/control-freec:11.6b--hdbdd923_0' }" input: tuple val(meta), path(mpileup_normal), path(mpileup_tumor), path(cpn_normal), path(cpn_tumor), path(minipileup_normal), path(minipileup_tumor) diff --git a/modules/nf-core/controlfreec/freec2bed/main.nf b/modules/nf-core/controlfreec/freec2bed/main.nf index 31c35e1d8ac..0d5332a2d77 100644 --- a/modules/nf-core/controlfreec/freec2bed/main.nf +++ b/modules/nf-core/controlfreec/freec2bed/main.nf @@ -4,8 +4,8 @@ process CONTROLFREEC_FREEC2BED { conda "bioconda::control-freec=11.6b" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0 ': - 'biocontainers/control-freec:11.6b--hdbdd923_0 ' }" + 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0' : + 'biocontainers/control-freec:11.6b--hdbdd923_0' }" input: tuple val(meta), path(ratio) diff --git a/modules/nf-core/controlfreec/freec2circos/main.nf b/modules/nf-core/controlfreec/freec2circos/main.nf index f0a1fb445ab..c748af8be75 100644 --- a/modules/nf-core/controlfreec/freec2circos/main.nf +++ b/modules/nf-core/controlfreec/freec2circos/main.nf @@ -4,8 +4,8 @@ process CONTROLFREEC_FREEC2CIRCOS { conda "bioconda::control-freec=11.6b" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0 ': - 'biocontainers/control-freec:11.6b--hdbdd923_0 ' }" + 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0' : + 'biocontainers/control-freec:11.6b--hdbdd923_0' }" input: tuple val(meta), path(ratio) diff --git a/modules/nf-core/controlfreec/makegraph/main.nf b/modules/nf-core/controlfreec/makegraph/main.nf index e788e799364..8bf32787ce2 100644 --- a/modules/nf-core/controlfreec/makegraph/main.nf +++ b/modules/nf-core/controlfreec/makegraph/main.nf @@ -4,8 +4,9 @@ process CONTROLFREEC_MAKEGRAPH { conda "bioconda::control-freec=11.6b" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0 ': - 'biocontainers/control-freec:11.6b--hdbdd923_0 ' }" + 'https://depot.galaxyproject.org/singularity/control-freec:11.6b--hdbdd923_0' : + 'biocontainers/control-freec:11.6b--hdbdd923_0' }" + input: tuple val(meta), path(ratio), path(baf), val(ploidy)