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# use the ubuntu base image
FROM ubuntu:22.04
MAINTAINER Tobias Rausch rausch@embl.de
# install required packages using apt
RUN apt-get update && apt-get install -y \
autoconf \
build-essential \
cmake \
g++ \
gfortran \
git \
libcurl4-gnutls-dev \
hdf5-tools \
libboost-date-time-dev \
libboost-program-options-dev \
libboost-system-dev \
libboost-filesystem-dev \
libboost-iostreams-dev \
libbz2-dev \
libdeflate-dev \
libhdf5-dev \
libncurses-dev \
liblzma-dev \
pkg-config \
zlib1g-dev \
&& apt-get clean \
&& rm -rf /var/lib/apt/lists/*
# set environment
ENV BOOST_ROOT /usr
# install delly
RUN cd /opt \
&& git clone --recursive https://github.com/dellytools/delly.git \
&& cd /opt/delly/ \
&& make STATIC=1 all \
&& make install
# Multi-stage build
FROM alpine:latest
RUN apk add --no-cache bash
RUN mkdir -p /opt/delly/bin
WORKDIR /opt/delly/bin
COPY --from=0 /opt/delly/bin/delly .
# Workdir
WORKDIR /home
# Add Delly to PATH
ENV PATH="/opt/delly/bin:${PATH}"
# by default /bin/sh is executed
CMD ["/bin/bash"]
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