FROM python:3-slim
MAINTAINER Joerg Holetschek <j.holetschek@bgbm.org>
# sudo docker run -it --name=biocase python:3-buster

# Add this folder so that installing default-jre won't fail
#RUN mkdir /usr/share/man/man1

RUN apt-get update
RUN apt-get install -y apache2 subversion
RUN apt-get install -y nano graphviz default-jre-headless	# optional
RUN apt-get install -y gcc unixodbc-dev libmariadb-dev pkg-config		# required for compiling pyodbc and mysqlclient

# Java 8
#RUN apt-get install -y software-properties-common
#RUN apt-add-repository 'deb http://security.debian.org/debian-security stretch/updates main'
#RUN apt-get update
#RUN apt-get install -y openjdk-8-jdk-headless

RUN pip install lxml pyodbc pymssql psycopg2-binary mysqlclient fdb legacy-cgi

# Some cleanup
RUN apt-get autoremove -y gcc					# was just needed for compiling
RUN apt-get clean && rm -rf /var/lib/apt/lists/*

# Set Apache environment variables
ENV APACHE_RUN_USER www-data
ENV APACHE_RUN_GROUP www-data
ENV APACHE_LOG_DIR /var/log/apache2
ENV APACHE_LOCK_DIR /var/lock/apache2
ENV APACHE_PID_FILE /var/run/apache2/apache2.pid
ENV APACHE_RUN_DIR /var/run/apache2

# Enable cgi
RUN /usr/sbin/a2enmod cgid

# Checkout BioCASe, change owner
RUN cd /opt/ && svn export http://ww2.biocase.org/svn/bps2/trunk biocase
RUN chown -R www-data:www-data /opt/biocase

# Set bpsPath in lib/biocase/addjustpath.py to r'/opt/biocase'
RUN sed -i 's/C:\\Workspace\\bps3/\/opt\/biocase/g' /opt/biocase/lib/biocase/adjustpath.py
# chdir to tools, then run fixpermissions.py
RUN cd /opt/biocase/tools && python fixpermissions.py

# Set up virtual host and expose HTTP port (add "EXPOSE 443" for HTTPS)
RUN sed -i 's/<VirtualHost \*:80>/ServerName localhost\n<VirtualHost \*:80>/g' /etc/apache2/sites-enabled/000-default.conf
RUN sed -i 's/<\/VirtualHost>/\n\nAlias \/biocase "\/opt\/biocase\/www"\n<Directory "\/opt\/biocase\/www">\n\tAllowOverride None\n\tOrder allow,deny\n\tAllow from all\n\tOptions \+ExecCGI \+Indexes\n\tAddHandler cgi-script cgi\n\tDirectoryIndex index\.cgi index\.html\n\tRequire all granted\n<\/Directory>\n\n<\/VirtualHost>/g' /etc/apache2/sites-enabled/000-default.conf

EXPOSE 80

# Start Apache
CMD rm -f /var/run/apache2/apache2.pid ; /usr/sbin/apache2ctl -D FOREGROUND

# Start BioCASe after creating the image
# sudo docker run -d -p8181:80 --name=biocase --hostname=biocase --mount source=bps_config,target=/opt/biocase/config "biocase/bps:latest"