ous-uio-bioinfo-core/mirdeep_workflow:preprocess

$ singularity pull shub://ous-uio-bioinfo-core/mirdeep_workflow:preprocess

Singularity Recipe

Bootstrap: docker
From: ubuntu:bionic-20191029

%environment
      CONDA="/usr/local/miniconda2/bin"
      PATH="${CONDA}:${PATH}"
      export PATH

%post
	apt-get update && apt-get install -y wget
	wget https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
	bash Miniconda2-latest-Linux-x86_64.sh -b -p /usr/local/miniconda2

	CONDA="/usr/local/miniconda2/bin"
	export PATH=${CONDA}:${PATH}

	conda config --add channels bioconda 

	conda install -y \
		fastqc \
		bowtie=1.0.0 \
		fastx_toolkit \
		cutadapt=1.8

	echo "PATH=${PATH}"
	mkdir /cluster /work /tsd /projects

%runscript
	exec /bin/bash "$@"

Collection


View on Datalad

Metrics

key value
id /containers/ous-uio-bioinfo-core-mirdeep_workflow-preprocess
collection name ous-uio-bioinfo-core/mirdeep_workflow
branch master
tag preprocess
commit 032bfda19706d8b7d637e89fd31c8a11154cd925
version (container hash) 0a298f9d357db560a3cb3fb2c3636aa7d36ea4e69b06e9fa8ccb308b9f186da2
build date 2020-09-18T07:45:58.433Z
size (MB) 500.98046875
size (bytes) 525316096
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
We cannot guarantee that all containers will still exist on GitHub.