ous-uio-bioinfo-core/containerised_ATACseq_pipeline:solexaqa

$ singularity pull shub://ous-uio-bioinfo-core/containerised_ATACseq_pipeline:solexaqa

Singularity Recipe

Bootstrap: docker
From: ubuntu:bionic-20191029

%environment
	SOLEXAQA="/usr/local/SolexaQA++_v3.1.7.1/Linux_x64"
	CONDA="/usr/local/miniconda3/bin"
	export PATH="${SOLEXAQA}:${CONDA}:${PATH}"

%post
	apt-get update && apt-get install -y wget unzip

	wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
	bash Miniconda3-latest-Linux-x86_64.sh -b -f -u -p /usr/local/miniconda3
	rm Miniconda3-latest-Linux-x86_64.sh

	wget -O - https://sourceforge.net/projects/solexaqa/files/latest/download/SolexaQA++_v3.1.7.1.zip \
		> /usr/local/SolexaQA++_v3.1.7.1.zip
	cd /usr/local/
	mkdir SolexaQA++_v3.1.7.1
	unzip SolexaQA++_v3.1.7.1.zip -d SolexaQA++_v3.1.7.1
	ls -la

	SOLEXAQA="/usr/local/SolexaQA++_v3.1.7.1/Linux_x64"
	CONDA="/usr/local/miniconda3/bin"
	PATH="${SOLEXAQA}:${CONDA}:${PATH}"      

	conda config --add channels conda-forge
	conda install -y r-base=3.6.2 fonts-conda-ecosystem=1
      
	echo "PATH=${PATH}"

	mkdir /cluster /work /tsd /projects
      
%runscript
	echo "Running ubuntu bionic container with SolexaQA++ v3.1.7.1 and R v3.6.2."
	exec /bin/bash "$@"

Collection


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key value
id /containers/ous-uio-bioinfo-core-containerised_ATACseq_pipeline-solexaqa
collection name ous-uio-bioinfo-core/containerised_ATACseq_pipeline
branch master
tag solexaqa
commit d2eb117398b087dae36fce0f7172b036c843cb8b
version (container hash) cf10479f590d310d20722d110f76ae19d89082aaec41ddfde3305230fb752ebd
build date 2020-10-12T18:20:21.603Z
size (MB) 661.59765625
size (bytes) 693735424
SIF Download URL (please use pull with shub://)
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Singularity Recipe Singularity Recipe on Datalad
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