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docker_init.sh

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  • sambamba.def 706 B
    Bootstrap: docker
    From: ubuntu:18.04
    
    %labels
    MAINTAINER Laurent Modolo
    
    %pos
    mkdir -p /sps /pbs /scratch
    SAMBAMBA_VERSION=0.6.9
    PACKAGES="curl=7.58.0* \
    ca-certificates=20180409 \
    build-essential=12.4* \
    zlib1g-dev=1:1.2.11*"
    
    apt-get update && \
    apt-get install -y --no-install-recommends ${PACKAGES} && \
    apt-get clean
    
    curl -k -L https://github.com/biod/sambamba/releases/download/v${SAMBAMBA_VERSION}/sambamba_v${SAMBAMBA_VERSION}_linux.tar.bz2 -o sambamba_v${SAMBAMBA_VERSION}_linux.tar.bz2 && \
    tar xvjf sambamba_v${SAMBAMBA_VERSION}_linux.tar.bz2 && \
    mv sambamba /usr/bin/ && \
    rm -R sambamba_v${SAMBAMBA_VERSION}_linux*
    
    %environment
    export SAMBAMBA_VERSION=0.6.9
    
    %runscript
    exec /bin/bash "$@"