Dockerfile

FROM centos:7.3.1611
RUN yum install epel-release -y
ENV PATH /opt/samtools/bin:$PATH
RUN yum group install "Development Tools" -y && \
	yum install wget \
	openssl-devel \
	which  \
	git \
	bzip2-devel* \
	xz-devel \
	python \
	zlib \
	lbzip2 \
	zlib-devel \
	libcurl \
	ncurses \
	ncurses-devel \
	libcurl-devel  -y
RUN cd /root && \
	git clone git://github.com/GregoryFaust/samblaster.git && \
	cd samblaster && \
	make && \
	cp  samblaster /usr/local/bin
RUN cd /root && \
	wget -c  https://github.com/biod/sambamba/releases/download/v0.6.6/sambamba_v0.6.6_linux.tar.bz2 && \
	tar -xf sambamba_v0.6.6_linux.tar.bz2 && \
	mv sambamba_v0.6.6 /usr/bin/sambamba
RUN cd /root && \
	wget -c https://github.com/samtools/samtools/releases/download/1.8/samtools-1.8.tar.bz2 -O /root/samtools-1.8.tar.bz2 && \
	tar -xf samtools-1.8.tar.bz2 && \
	cd samtools-1.8 && \
	./configure --prefix=/opt/samtools && \
	make && \
	make install 
RUN cd /root && \
	git clone --recursive https://github.com/arq5x/lumpy-sv.git && \
	cd lumpy-sv && \
	make && \
	cp bin/* /usr/local/bin
ENV URL http://files.happy366.cn/files/docker/
RUN wget -c $URL/testdoc.sh  -O /usr/bin/testdoc.sh && \
  	wget -c $URL/rundoc.sh  -O /usr/bin/rundoc.sh && \
    chmod +x /usr/bin/rundoc.sh && \
    chmod +x  /usr/bin/testdoc.sh