Merge pull request #26 from uc-cdis/chore/r-3.6

Chore/r 3.6

rstudio3.6/Dockerfile

@@ -0,0 +1,46 @@
+## Dockerfile for rocker/tidyverse with trial base-layer security improvements, based on Rstudio tidyverse image with additional upgrades ###
+FROM rocker/rstudio:3.6.0
+RUN apt-get update -qq && apt-get -y --no-install-recommends install \
+  libxml2-dev \
+  libcairo2-dev \
+  libsqlite3-dev \
+  libmariadbd-dev \
+  libmariadb-client-lgpl-dev \
+  unixodbc-dev \
+  libssl-dev \
+  libssh2-1-dev \
+  libpq-dev \
+  && install2.r --error \
+    --deps TRUE \
+    tidyverse \
+    dplyr \
+    devtools \
+    formatR \
+    remotes \
+    selectr \
+    caTools \
+    BiocManager
+RUN wget https://www.openssl.org/source/openssl-1.1.1a.tar.gz && \
+    tar -zxf openssl-1.1.1a.tar.gz && cd openssl-1.1.1a && \
+    ./config && \
+    apt install make gcc && \
+    make && \
+    make test && \
+    mv /usr/bin/openssl ~/tmp && \
+    make install && \
+    ln -s /usr/local/bin/openssl /usr/bin/openssl && \
+    sudo ldconfig
+RUN groupadd -r -g 1001 user && useradd -r -g user -u 1001 user
+WORKDIR /home/user
+EXPOSE 8787
+CMD ["/init"]
+
+RUN usermod -a -G users rstudio
+RUN echo '#!/usr/bin/with-contenv bash \
+          \n## load /etc/environment vars first: \
+          \n for line in $( cat /etc/environment ) ; do export $line ; done \
+          \n cp /etc/rstudio/rserver.conf /etc/rstudio/rserver.conf.bak \
+          \n cat /etc/rstudio/rserver.conf.bak | grep -v www-frame-origin > /etc/rstudio/rserver.conf \
+          \n echo www-frame-origin=${WWW_FRAME_ORIGIN} >> /etc/rstudio/rserver.conf \
+          \n exec /usr/lib/rstudio-server/bin/rserver --server-daemonize 0' \
+          > /etc/services.d/rstudio/run