sambamba.def

Bootstrap: docker
From: ubuntu:18.04

%labels
MAINTAINER Laurent Modolo

%post
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 "$@"