def VERSION='1.0.2' process DEEPARG_DOWNLOADDATA { label 'process_low' conda (params.enable_conda ? "bioconda::deeparg=1.0.2" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://depot.galaxyproject.org/singularity/deeparg:1.0.2--pyhdfd78af_1' : 'quay.io/biocontainers/deeparg:1.0.2--pyhdfd78af_1' }" /* We have to force singularity to run with -B to allow reading of a problematic file with borked read-write permissions in an upstream dependency (theanos). Original report: https://github.com/nf-core/funcscan/issues/23 */ containerOptions { "${workflow.containerEngine}" == 'singularity' ? '-B $(which bash):/usr/local/lib/python2.7/site-packages/Theano-0.8.2-py2.7.egg-info/PKG-INFO' : '' } input: output: path "db/" , emit: db path "versions.yml" , emit: versions when: task.ext.when == null || task.ext.when script: def args = task.ext.args ?: '' """ deeparg \\ download_data \\ $args \\ -o db/ cat <<-END_VERSIONS > versions.yml "${task.process}": deeparg: $VERSION END_VERSIONS """ }