diff --git a/modules/nf-core/cadd/environment.yml b/modules/nf-core/cadd/environment.yml index 6a21f71ee57..516199ad299 100644 --- a/modules/nf-core/cadd/environment.yml +++ b/modules/nf-core/cadd/environment.yml @@ -4,6 +4,6 @@ channels: - bioconda - defaults dependencies: - - bioconda::cadd-scripts=1.6 + - bioconda::cadd-scripts=1.6.post1 - anaconda::conda=4.14.0 - conda-forge::mamba=1.4.0 diff --git a/modules/nf-core/cadd/main.nf b/modules/nf-core/cadd/main.nf index d4fab1f447b..0af87f6e5b6 100644 --- a/modules/nf-core/cadd/main.nf +++ b/modules/nf-core/cadd/main.nf @@ -3,14 +3,12 @@ process CADD { label 'process_medium' conda "${moduleDir}/environment.yml" - container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? - 'https://depot.galaxyproject.org/singularity/mulled-v2-8d145e7b16a8ca4bf920e6ca464763df6f0a56a2:d4e457a2edecb2b10e915c01d8f46e29e236b648-0': - 'biocontainers/mulled-v2-8d145e7b16a8ca4bf920e6ca464763df6f0a56a2:d4e457a2edecb2b10e915c01d8f46e29e236b648-0' }" + container 'docker.io/biocontainers/cadd-scripts-with-envs:1.6.post1_cv1' containerOptions { (workflow.containerEngine == 'singularity') ? - "--writable -B ${annotation_dir}:/usr/local/share/cadd-scripts-1.6-1/data/annotations" : - "--privileged -v ${annotation_dir}:/usr/local/share/cadd-scripts-1.6-1/data/annotations" + "-B ${annotation_dir}:/opt/CADD-scripts-1.6.post1/data/annotations" : + "-v ${annotation_dir}:/opt/CADD-scripts-1.6.post1/data/annotations" } input: @@ -27,7 +25,7 @@ process CADD { script: def args = task.ext.args ?: '' def prefix = task.ext.prefix ?: "${meta.id}" - def VERSION = "1.6" // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions. + def VERSION = "1.6.post1" // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions. """ cadd.sh \\ -o ${prefix}.tsv.gz \\ @@ -43,7 +41,7 @@ process CADD { stub: def args = task.ext.args ?: '' def prefix = task.ext.prefix ?: "${meta.id}" - def VERSION = "1.6" // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions. + def VERSION = "1.6.post1" // WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions. """ touch ${prefix}.tsv.gz diff --git a/modules/nf-core/cadd/meta.yml b/modules/nf-core/cadd/meta.yml index df84d237c54..230ed9c0f2e 100644 --- a/modules/nf-core/cadd/meta.yml +++ b/modules/nf-core/cadd/meta.yml @@ -11,7 +11,8 @@ tools: documentation: "https://github.com/kircherlab/CADD-scripts/blob/master/README.md" tool_dev_url: "https://github.com/kircherlab/CADD-scripts/" doi: "10.1093/nar/gky1016" - licence: "['Restricted. Free for non-commercial users.']" + licence: + - Restricted. Free for non-commercial users. input: - meta: type: map