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authorChristoph Helma <helma@in-silico.ch>2019-09-03 13:45:36 +0200
committerChristoph Helma <helma@in-silico.ch>2019-09-03 13:45:36 +0200
commitd1032e4f40d9fbb212e85e0db4f0ecd2e8ac9a88 (patch)
tree48922d60d750839dacd5d0a4a6e50ea3fe68da63 /docker/Dockerfile
parent5bb4c24c6cfc1ddfae14eb9543b283baae2d75be (diff)
parenta84d9eabf1b921086a688f81df28b0f21ba4df19 (diff)
development merged, git links in FAQ.md fixed1.4.0
Diffstat (limited to 'docker/Dockerfile')
-rw-r--r--docker/Dockerfile63
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+FROM archlinux/base
+MAINTAINER in-silico toxicology Gmbh
+
+RUN pacman-db-upgrade
+RUN pacman -Syyu --noconfirm
+RUN pacman -S --noconfirm \
+ base-devel \
+ boost-libs \
+ cmake \
+ eigen3 \
+ fontconfig \
+ gcc-fortran \
+ git \
+ gsl \
+ jre10-openjdk-headless \
+ r \
+ ruby \
+ swig \
+ python-pip \
+ catdoc \
+ wget
+RUN pacman -Scc --noconfirm
+
+RUN R -e "install.packages('Rserve', repos='http://rforge.net/')"
+RUN pip install xlsx2csv
+
+# install lazar-gui gem
+RUN echo 'gem: --no-document' > /etc/gemrc
+RUN gem install lazar-gui
+
+RUN useradd -ms /bin/bash ist
+
+USER ist
+WORKDIR /home/ist
+RUN mkdir data
+# mongodb has been removed from main repositories, AUR installation
+RUN mkdir src
+WORKDIR /home/ist/src
+RUN wget https://aur.archlinux.org/cgit/aur.git/snapshot/mongodb-bin.tar.gz
+RUN tar -xvzf mongodb-bin.tar.gz
+WORKDIR /home/ist/src/mongodb-bin
+RUN makepkg -s --noconfirm
+
+# rest api swagger gui
+WORKDIR /home/ist
+RUN git clone https://github.com/swagger-api/swagger-ui.git
+COPY swagger.html /home/ist/swagger-ui/dist/index.html
+
+# start script
+COPY start.sh /home/ist/start.sh
+
+# mongodb installation requires root
+USER root
+RUN pacman -U --noconfirm /home/ist/src/mongodb-bin/mongodb-bin*.pkg.tar.xz
+
+# swagger links
+RUN ln -s /home/ist/swagger-ui/dist/swagger-ui-bundle.js $(gem which "lazar-gui"|sed 's#/lib/lazar-gui.rb/##')/public/swagger-ui-bundle.js
+RUN ln -s /home/ist/swagger-ui/dist/swagger-ui-standalone-preset.js $(gem which "lazar-gui"|sed 's#/lib/lazar-gui.rb/##')/public/swagger-ui-standalone-preset.js
+RUN ln -s /home/ist/swagger-ui/dist/swagger-ui.css $(gem which "lazar-gui"|sed 's#/lib/lazar-gui.rb/##')/public/swagger-ui.css
+
+USER ist
+RUN rm -r /home/ist/src
+ENTRYPOINT ["/home/ist/start.sh"]