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FROM base/archlinux
MAINTAINER in-silico toxicology GmbH
RUN pacman-db-upgrade && pacman -Syyu --noconfirm && pacman -S --noconfirm \
base-devel \
boost-libs \
cmake \
eigen3 \
fontconfig \
gcc-fortran \
git \
gsl \
jre10-openjdk-headless \
msmtp \
msmtp-mta \
mongodb \
mongodb-tools \
r \
ruby \
swig \
vim \
wget && pacman -Scc --noconfirm
RUN useradd -ms /bin/bash ist
RUN echo "ist ALL=(ALL) NOPASSWD:ALL" >> /etc/sudoers
RUN mkdir -p /data/db
USER ist
WORKDIR /home/ist
RUN echo 'export GEM_HOME=$(ruby -e 'print Gem.user_dir')' > ~/.bashrc
RUN sudo R -e "install.packages('Rserve', repos='http://rforge.net/')"
RUN echo 'gem: --user-install --no-document' > ~/.gemrc
ENV PATH $PATH:/home/ist/.gem/ruby/2.5.0/bin
RUN gem install bundler
RUN git clone https://github.com/opentox/lazar.git && \
cd lazar && \
ruby ext/lazar/extconf.rb && \
bundle install --path ~/.gem
RUN mkdir -p /home/ist/log
COPY nightly.sh /home/ist/nightly.sh
RUN sudo chmod +x /home/ist/nightly.sh
COPY start.sh /home/ist/start.sh
RUN sudo chmod +x /home/ist/start.sh
ENTRYPOINT ["/home/ist/start.sh"]
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