FROM sharelatex/sharelatex:latest

# MAINTAINER Andrea Dell'Amico <andrea.dellamico@isti.cnr.it>

RUN apt-get update && apt-get dist-upgrade -y

RUN apt-get update && apt-get install -y \
    subversion \
    git \
    texlive texlive-full \
    gdal-bin \
    libgdal-dev \
    libgeos-dev \
    libspatialite-dev \
    proj-bin \
    proj-data \
    libproj-dev \
    libcurl4-openssl-dev \
    libnetcdf-dev \
    netcdf-bin \
    mono-runtime \
    libmono-microsoft-visualbasic10.0-cil \
    'libmono-2.0-1' \
    'libmono-corlib2.0-cil' \
    gsl-bin \
    libgsl0-dev \
    mesa-common-dev \
    libglu1-mesa-dev \
    postgis \
    postgresql-client

RUN apt-get update && apt-get install -y \
    r-recommended \
    r-base \
    r-base-dev \
    r-base-html \
    r-base-core \
    r-doc-html \
    r-cran-boot \
    r-cran-cluster \
    r-cran-foreign \
    r-cran-kernsmooth \
    r-cran-lattice \
    r-cran-mgcv \
    r-cran-nlme \
    r-cran-rpart \
    r-cran-survival \
    r-cran-mass \
    r-cran-class \
    r-cran-nnet \
    r-cran-spatial \
    r-cran-codetools \
    r-cran-matrix \
    jags

# copy the LatexMk file needed by knitr
COPY LatexMk /etc/LatexMk

RUN mkdir -p /srv/d4science

RUN cd /srv/d4science ; svn checkout http://svn.research-infrastructures.eu/public/d4science/gcube/trunk/data-analysis/RConfiguration/RStudioConfiguration

RUN rm -f /etc/R/Rprofile.site && ln -s /srv/d4science/RStudioConfiguration/.Rprofile /etc/R/Rprofile.site

RUN mkdir -p /srv/r_updater

RUN cd /srv/r_updater ; svn checkout http://svn.research-infrastructures.eu/public/d4science/gcube/trunk/data-analysis/RConfiguration/RPackagesManagement

RUN cp install-r-packages.cron /etc/cron.d
RUN cp upgrade-r-packages.cron /etc/cron.d
RUN cp update-rprofile.cron /etc/cron.d
RUN cp update_r_packages /usr/local/bin/update_r_packages ; chmod 755 /usr/local/bin/update_r_packages

EXPOSE 80

WORKDIR /

ENTRYPOINT ["/sbin/my_init"]