update and optimize docker image

Dockerfile

@@ -1,9 +1,10 @@
 # Copyright (c) HERMES Development Team.
 # Distributed under the terms of the GPLv3.
 ARG REGISTRY=quay.io
-ARG OWNER=jupyter
-ARG BASE_CONTAINER=$REGISTRY/$OWNER/scipy-notebook
-FROM $BASE_CONTAINER
+ARG OWNER=cosmicrays
+ARG BUILD_CONTAINER=$REGISTRY/jupyter/docker-stacks-foundation
+ARG RUNNER_CONTAINER=$REGISTRY/jupyter/scipy-notebook
+FROM $BUILD_CONTAINER as builder
 
 LABEL maintainer="HERMES Developers <[email protected]>"
 
@@ -12,19 +13,23 @@ USER root
 RUN apt-get update --yes && \
     apt-get install --yes --no-install-recommends \
     build-essential \
+    pkg-config \
     cmake \
+    git \
     doxygen \
+    graphviz \
     libgsl-dev \
     libfftw3-dev \
     libcfitsio-dev && \
     apt-get clean && rm -rf /var/lib/apt/lists/*
 
 USER ${NB_UID}
 
-# Install Python 3 packages
+# Install Python packages
 RUN mamba install --yes \
-    'conda-forge::sphinx' \
-    'healpy' && \
+    'h5py' \
+    'conda-forge::zlib' \
+    'conda-forge::sphinx' && \
     mamba clean --all -f -y && \
     fix-permissions "${CONDA_DIR}" && \
     fix-permissions "/home/${NB_USER}"
@@ -45,8 +50,29 @@ RUN mkdir build-container && \
          -DENABLE_TESTING=On .. && \
     make -j && \
     make install && \
-    git clone --depth 1 --branch master --no-checkout https://github.com/cosmicrays/hermes-examples.git && \
-    cp -r hermes-examples/jupyter /home/${NB_USER}/hermes-examples && \
+    git clone --depth 1 --branch master https://github.com/cosmicrays/hermes-examples.git && \
+    fix-permissions "${CONDA_DIR}" && \
+    fix-permissions "/home/${NB_USER}"
+
+FROM $RUNNER_CONTAINER as runner
+
+USER root
+
+RUN apt-get update --yes && \
+    apt-get install --yes --no-install-recommends \
+    libgsl27 \
+    libfftw3-3 \
+    libcfitsio9 && \
+    apt-get clean && rm -rf /var/lib/apt/lists/*
+
+COPY --from=builder ${CONDA_DIR} ${CONDA_DIR}
+COPY --from=builder /tmp/hermes/build-container/hermes-examples/jupyter /home/${NB_USER}/hermes-examples 
+
+# Install Python packages
+RUN mamba install --yes \
+    'conda-forge::astropy' \
+    'conda-forge::healpy' && \
+    mamba clean --all -f -y && \
     fix-permissions "${CONDA_DIR}" && \
     fix-permissions "/home/${NB_USER}"
 

INSTALL.md

@@ -133,3 +133,5 @@ docker run --name jupyter -it --rm -p 8888:8888 -v $HOME/jupyter-work:/home/jovy
 
 where `$HOME/jupyter-work` is any directory on the host in which notebooks and files can be stored permanently, after the container is stopped and removed. It is linked to the `work` folder within the container.
 
+
+Jupyter can be accessed through a web browser following a link given in the output of the previous command (such as `http://127.0.0.1:8888/lab?token=b680...`).