From 50d77a26ce1ec87dc16addf33df59ef383a828a5 Mon Sep 17 00:00:00 2001 From: Stephen Watts Date: Fri, 10 May 2024 13:58:04 +1000 Subject: [PATCH] Qualify SAGE Docker image URL with 'quay.io/' --- modules/local/sage/append/main.nf | 2 +- modules/local/sage/germline/main.nf | 2 +- modules/local/sage/somatic/main.nf | 2 +- 3 files changed, 3 insertions(+), 3 deletions(-) diff --git a/modules/local/sage/append/main.nf b/modules/local/sage/append/main.nf index 6de61250..1cadebbd 100644 --- a/modules/local/sage/append/main.nf +++ b/modules/local/sage/append/main.nf @@ -5,7 +5,7 @@ process SAGE_APPEND { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/hmftools-sage:3.4.3--hdfd78af_0' : - 'biocontainers/hmftools-sage:3.4.3--hdfd78af_0' }" + 'quay.io/biocontainers/hmftools-sage:3.4.3--hdfd78af_0' }" input: tuple val(meta), path(vcf), path(bam), path(bai) diff --git a/modules/local/sage/germline/main.nf b/modules/local/sage/germline/main.nf index ab9b9fcd..f08f3d36 100644 --- a/modules/local/sage/germline/main.nf +++ b/modules/local/sage/germline/main.nf @@ -5,7 +5,7 @@ process SAGE_GERMLINE { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/hmftools-sage:3.4.3--hdfd78af_0' : - 'biocontainers/hmftools-sage:3.4.3--hdfd78af_0' }" + 'quay.io/biocontainers/hmftools-sage:3.4.3--hdfd78af_0' }" input: tuple val(meta), path(tumor_bam), path(normal_bam), path(tumor_bai), path(normal_bai) diff --git a/modules/local/sage/somatic/main.nf b/modules/local/sage/somatic/main.nf index fed775ca..fab24930 100644 --- a/modules/local/sage/somatic/main.nf +++ b/modules/local/sage/somatic/main.nf @@ -7,7 +7,7 @@ process SAGE_SOMATIC { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/hmftools-sage:3.4.3--hdfd78af_0' : - 'biocontainers/hmftools-sage:3.4.3--hdfd78af_0' }" + 'quay.io/biocontainers/hmftools-sage:3.4.3--hdfd78af_0' }" input: tuple val(meta), path(tumor_bam), path(normal_bam), path(tumor_bai), path(normal_bai)