#208 dockerization + github action

.github/workflows/docker-build-image.yml

@@ -0,0 +1,51 @@
+name: docker-build-image
+
+on:
+  push:
+    branches:
+      - 'main'
+    tags:
+      - "v*"
+
+jobs:
+  docker:
+    runs-on: ubuntu-latest
+    steps:
+      -
+        name: Checkout
+        uses: actions/checkout@v4
+
+      - name: Docker meta
+        id: meta
+        uses: docker/metadata-action@v5
+        with:
+          images: ghcr.io/fdiwg/calipseo-shiny
+          flavor: latest=true
+          tags: |
+            type=ref,event=branch
+            type=ref,event=pr
+            type=semver,pattern={{version}}
+          labels: |
+            org.opencontainers.image.url=https://github.com/un-fao/calipseo-shiny
+            org.opencontainers.image.source=https://github.com/un-fao/calipseo-shiny
+            org.opencontainers.image.title=calipseo-shiny
+            org.opencontainers.image.description=Calipseo R Shiny dashboard
+            org.opencontainers.image.vendor=UN-FAO
+            org.opencontainers.image.author=UN-FAO
+            org.opencontainers.image.authors=Emmanuel Blondel <emmanuel.blondel@fao.org>
+      - name: Login to image repository
+        if: github.ref_type == 'tag'
+        uses: docker/login-action@v3
+        with:
+          registry: ghcr.io
+          username: ${{ github.actor }}
+          password: ${{ secrets.GHCR_TOKEN }}
+
+      - name: Build and push
+        uses: docker/build-push-action@v5
+        with:
+          context: .
+          file: Dockerfile
+          push: ${{ github.ref_type == 'tag' }}
+          tags: ${{ steps.meta.outputs.tags }}
+          labels: ${{ steps.meta.outputs.labels }}

Dockerfile

@@ -1,50 +1,80 @@
-FROM rocker/shiny:4.0.5
+FROM rocker/r-ver:4.0.5
 
 MAINTAINER Emmanuel Blondel "emmanuel.blondel@fao.org"
 
-# system libraries of general use
-#---------------------------------------------------------------------------------------
+# system libraries for LaTeX reporting & keyring
 RUN apt-get update && apt-get install -y \
     sudo \
+    pandoc \
+    pandoc-citeproc \
+    texlive-xetex \
+    texlive-latex-base \
+    texlive-latex-recommended \
+    texlive-fonts-recommended \
+    texlive-fonts-extra \
+    texlive-formats-extra \
+	  libsodium-dev \
+    libsecret-1-dev
+
+# general system libraries
+# Note: this includes rdf/redland system libraries
+RUN apt-get update && apt-get install -y \
+    cmake \
+    curl \
+    default-jdk \
+    fonts-roboto \
+    ghostscript \
+    hugo \
+    less \
+    libbz2-dev \
+    libglpk-dev \
+    libgmp3-dev \
+    libfribidi-dev \
+    libharfbuzz-dev \
+    libhunspell-dev \
+    libicu-dev \
+    liblzma-dev \
+    libmagick++-dev \
+    libopenmpi-dev \
+    libpcre2-dev \
     libssl-dev \
-    libcurl4-openssl-dev \
+    libv8-dev \
     libxml2-dev \
-    git 
+    libxslt1-dev \
+    libzmq3-dev \
+    lsb-release \
+    qpdf \
+    texinfo \
+    software-properties-common \
+    vim \
+    wget
+
+RUN apt-get install -y librdf0-dev
+RUN install2.r --error --skipinstalled --ncpus -1 redland
+RUN apt-get install -y \
+    libcurl4-openssl-dev \
+    libgit2-dev \
+    libxslt-dev \
+    librdf0 \
+    redland-utils \
+    rasqal-utils \
+    raptor2-utils
 
-#Install geospatial deps over shiny server
-#---------------------------------------------------------------------------------------
+# geospatial system libraries
 RUN /rocker_scripts/install_geospatial.sh
 
+# install R core package dependencies
+RUN install2.r --error --skipinstalled --ncpus -1 httpuv
+RUN R -e "install.packages(c('remotes','jsonlite','yaml'), repos='https://cran.r-project.org/')"
+# copy app
+COPY . /srv/calipseo-shiny
 
-#R shiny server
-#---------------------------------------------------------------------------------------
-# RUN chown shiny:shiny /var/lib/shiny-server
-RUN chown shiny:shiny /srv/shiny-server
+# install R app package dependencies
+RUN R -e "source('./srv/calipseo-shiny/install.R')"
 
-#Git clone shiny app
-#---------------------------------------------------------------------------------------
-ADD ./shiny/shiny-calipseo /srv/shiny-server/
-#check dir is created
-RUN ls -ls /srv/shiny-server
+#etc dirs (for config)
+RUN mkdir -p /etc/calipseo-shiny/
 
-RUN mkdir -p /etc/shiny-server
-COPY shinyconfigs/config.yml /etc/shiny-server/config.yml
-RUN ls -ls /etc/shiny-server
-RUN chmod -R a+w /srv/shiny-server
-COPY shiny-server.conf /etc/shiny-server/shiny-server.conf
-RUN ls -ls /srv/shiny-server
+EXPOSE 3838
 
-#R packages
-#---------------------------------------------------------------------------------------
-# install R core package dependencies
-RUN install2.r --error --skipinstalled --ncpus -1 httpuv
-RUN R -e "install.packages(c('remotes','testthat','jsonlite','yaml'), repos='https://cran.r-project.org/')"
-# install dependencies of the app
-RUN R -e "source('./srv/shiny-server/install.R')"
-
-# EXPOSE 3838
-EXPOSE 8080
-
-#RUN apt-get install -y curl
-#CMD ["R", "-e shiny::runApp('/srv/shiny-server', port=8080, host='0.0.0.0')"]
-CMD ["/init"] 
+CMD ["R", "-e shiny::runApp('/srv/calipseo-shiny',port=3838,host='0.0.0.0')"]