AroArz/singularity_playground:snakemake

$ singularity pull shub://AroArz/singularity_playground:snakemake

Singularity Recipe

Bootstrap: docker
From: continuumio/miniconda3



%post
	### Installs snakemake

	PATH=/opt/conda/bin:$PATH
        export PATH	
	conda install -c conda-forge mamba
	mamba create -c conda-forge -c bioconda -n snakemake snakemake -y


	### Creates a bash script to run snakemake	

	echo \#\!/bin/bash > /opt/runscript.sh
	echo source activate snakemake >> /opt/runscript.sh
	echo \$\@ >> /opt/runscript.sh

%runscript
	### Starts runscript.sh, everything you type after "sing run snakemake.sif" is forwarded to the runscript.
	### e.g. "sing run snakemake.sif snakemake --dryrun" forwards "snakemake --dryrun" to runscript.sh and executes that command. 

	bash /opt/runscript.sh "$@"
	echo "$@"

Collection

• Name: AroArz/singularity_playground
• License: None

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