From c9f8cd864a2b72e7330b8095691fa5c16fea83aa Mon Sep 17 00:00:00 2001
From: Christoph Helma <helma@in-silico.ch>
Date: Fri, 30 Aug 2019 11:14:50 +0200
Subject: Dockerfile and start script added

---
 docker/Dockerfile | 73 +++++++++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 73 insertions(+)
 create mode 100644 docker/Dockerfile

(limited to 'docker/Dockerfile')

diff --git a/docker/Dockerfile b/docker/Dockerfile
new file mode 100644
index 0000000..a606b9a
--- /dev/null
+++ b/docker/Dockerfile
@@ -0,0 +1,73 @@
+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
+RUN         useradd -ms /bin/bash ist
+
+# mongodb has been removed from main repositories
+USER        ist
+WORKDIR     /home/ist
+RUN         mkdir data
+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
+
+# installation requires root
+USER        root
+RUN         pacman -U --noconfirm /home/ist/src/mongodb-bin/mongodb-bin*.pkg.tar.xz 
+
+# install lazar-gui gem
+RUN         echo 'gem: --no-document' > /etc/gemrc
+
+#RUN         gem install lazar-gui
+RUN         gem install lazar
+RUN         gem install qsar-report
+RUN         gem install sinatra haml sass rdiscount unicorn
+
+USER        ist
+WORKDIR     /home/ist
+RUN         rm -r src
+
+# lazar-gui
+RUN         git clone https://git.in-silico.ch/lazar-gui
+WORKDIR     lazar-gui
+RUN         git checkout prerelease
+
+# SWAGGER for API
+WORKDIR     /home/ist
+RUN         git clone https://github.com/swagger-api/swagger-ui.git
+COPY        swagger.html /home/ist/swagger-ui/dist/index.html
+
+# TODO adjust to lazar-gui gem path
+RUN         ln -s /home/ist/swagger-ui/dist/swagger-ui-bundle.js /home/ist/lazar-gui/public/swagger-ui-bundle.js
+RUN         ln -s /home/ist/swagger-ui/dist/swagger-ui-standalone-preset.js /home/ist/lazar-gui/public/swagger-ui-standalone-preset.js
+RUN         ln -s /home/ist/swagger-ui/dist/swagger-ui.css /home/ist/lazar-gui/public/swagger-ui.css
+
+# start script
+COPY        start.sh /home/ist/start.sh
+
+ENTRYPOINT  ["/home/ist/start.sh"]
-- 
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