Merge branch 'add-python' into 'main'

Add python

See merge request hub/rshiny-k8s!14

.gitlab-ci.yml

@@ -9,15 +9,21 @@ build:
     - echo $CI_REGISTRY_PASSWORD | docker login -u $CI_REGISTRY_USER $CI_REGISTRY --password-stdin
   script:
     - docker --version
+    - |
+      if [ "${LANGUAGE}" == "python" ]; then
+        LANGUAGE_VERSION="${PYTHON_VERSION}"
+      else
+        LANGUAGE_VERSION="${R_VERSION}"
+      fi
     # put both versions in a env var, to be used as tag
     - |
-      if [ "latest" == "${R_VERSION}" ]; then
+      if [ "latest" == "${LANGUAGE_VERSION}" ]; then
         export VERSIONS_TAG="${SHINY_SERVER_VERSION}"
       else
         if [ "latest" == "${SHINY_SERVER_VERSION}" ]; then
-          export VERSIONS_TAG="${R_VERSION}"
+          export VERSIONS_TAG="${LANGUAGE_VERSION}"
         else
-          export VERSIONS_TAG="${R_VERSION}--${SHINY_SERVER_VERSION}"
+          export VERSIONS_TAG="${LANGUAGE_VERSION}--${SHINY_SERVER_VERSION}"
         fi
       fi
     - apk add gettext
@@ -60,15 +66,14 @@ build:
       fi
   parallel:
     matrix:
-      - R_VERSION: ["latest"]
+      - LANGUAGE: ["r"]
+        R_VERSION: ["latest"]
         # R_VERSION: ["3.6.3", "4.2.3", "latest"]
         SHINY_SERVER_VERSION: ["latest"]
-        LANGUAGE: ["r"]
-      - R_VERSION: ["latest"]
-        # R_VERSION: ["3.6.3", "4.2.3", "latest"]
-        SHINY_SERVER_VERSION: ["latest"]
-        LANGUAGE: ["python"]
+        
+      - LANGUAGE: ["python"]
         PYTHON_VERSION: ["3.9-slim-bullseye"]
+        SHINY_SERVER_VERSION: ["latest"]
 
 
 

Dockerfile.python

+FROM harbor.pasteur.fr/images/python:${PYTHON_VERSION}
+
+# define geographic location during installation
+ENV TZ=Etc/UTC
+ENV DEBIAN_FRONTEND=noninteractive
+
+EXPOSE 3838
+CMD ["shiny-server"]
+
+# install dependencies
+RUN apt-get update \
+ && apt-get install -y \
+     software-properties-common \
+     wget \
+     nano \
+     wget \
+     curl \
+     lsb-release \
+     libcurl4-openssl-dev \
+     gcc \
+     gfortran \
+     g++ \
+     libreadline-dev \
+     zlib1g-dev \
+     libbz2-dev \
+     liblzma-dev \
+     libpcre2-dev \
+     libcairo-dev \
+     libpng-dev \
+     libicu-dev \
+     libxml2-dev \
+     libssl-dev \
+     make \
+     libtiff-dev \
+     xorg-dev \
+     libx11-dev \
+ && rm -rf /var/lib/apt/lists/*
+
+# Upgrade pip and install wheel, shiny :
+RUN pip install --no-cache-dir --upgrade pip \
+ && python -m pip install wheel shiny
+
+# Install shiny server
+ARG SHINY_SERVER_VERSION=latest
+RUN mkdir /opt/scripts
+COPY ./scripts/install_shiny_server.sh /opt/scripts/install_shiny_server.sh
+RUN /opt/scripts/install_shiny_server.sh
+
+# allows trafic from all ips
+RUN sed -i "s/3838/3838 0.0.0.0/g" /etc/shiny-server/shiny-server.conf
+
+# grant shiny to created bookmark state directory in /var/lib/
+# grant shiny to write logs in /var/log/
+# grant shiny to write in /srv/shiny-server/www/
+RUN chown shiny:shiny /var/lib/shiny-server \
+ && mkdir -p /var/log/shiny-server \
+ && chown shiny:shiny /var/log/shiny-server \
+ && mkdir -p /srv/shiny-server/www \
+ && chown shiny:shiny /srv/shiny-server/www