.docker/.s2i/bin/assemble.orig

#!/bin/bash

set -x

set -eo pipefail

APP_ROOT=${APP_ROOT:-/opt/app-root/src}


# Run the original Python S2I assemble script to install packages.

/usr/libexec/s2i/assemble

# Remove the cached package dependencies files generated from s2i assemble script. 
rm -rf /tmp/Pipfile.lock
rm -rf /tmp/requirements.txt

########################################################################
# INFO: Install everything that's required for Jupyter notebooks here.
########################################################################

# Install pipenv for jupyter-nbrequirements to use
# TODO: This should be removed once nbrequirements can use Thoth + micropipenv only
pip install pipenv==2020.11.15

# Install mod_wsgi for use in optional webdav support.

pip install 'mod_wsgi==4.6.8'

# Install base packages needed for running Jupyter Notebooks.

npm cache clean --force

rm -rf $HOME/.cache/yarn
rm -rf $HOME/.node-gyp

# Copy into place default config files for Jupyter and Apache webdav.

cp ${APP_ROOT}/src/jupyter_notebook_config.py /opt/app-root/etc/
cp ${APP_ROOT}/src/jupyter_kernel_gateway_config.py /opt/app-root/etc/
cp ${APP_ROOT}/src/httpd-webdav.conf /opt/app-root/etc/

# This S2I assemble script is only used when creating the custom image.
# For when running the image, or using it as a S2I builder, we use a second
# set of custom S2I scripts. We now need to move these into the correct
# location and have the custom image use those by dropping in an image
# metadata file which overrides the labels of the base image.

mkdir -p ${APP_ROOT}/.s2i

mv ${APP_ROOT}/src/builder/image_metadata.json ${APP_ROOT}/.s2i/image_metadata.json

mv ${APP_ROOT}/src/builder /opt/app-root/builder

mv ${APP_ROOT}/src/supervisor /opt/app-root/etc/supervisor

mv ${APP_ROOT}/src/gateway /opt/app-root/gateway

mv ${APP_ROOT}/src/*.sh /opt/app-root/bin

# Install oc command line client for OpenShift cluster.

curl -s -o ${APP_ROOT}/oc.tar.gz https://mirror.openshift.com/pub/openshift-v3/clients/3.11.153/linux/oc.tar.gz && \
    tar -C /opt/app-root/bin -zxf ${APP_ROOT}/oc.tar.gz oc && \
    mv /opt/app-root/bin/oc /opt/app-root/bin/oc-3.11 && \
    rm ${APP_ROOT}/oc.tar.gz

curl -s -o ${APP_ROOT}/oc.tar.gz https://mirror.openshift.com/pub/openshift-v4/clients/oc/latest/linux/oc.tar.gz&& \
    tar -C /opt/app-root/bin -zxf ${APP_ROOT}/oc.tar.gz oc && \
    mv /opt/app-root/bin/oc /opt/app-root/bin/oc-4 && \
    rm ${APP_ROOT}/oc.tar.gz

ln -s /opt/app-root/bin/oc-wrapper.sh /opt/app-root/bin/oc

# Ensure passwd/group file intercept happens for any shell environment.

echo "source /opt/app-root/etc/generate_container_user" >> /opt/app-root/etc/scl_enable

# Install packages required by the proxy process.

(cd /opt/app-root/gateway && npm install --production)

# Create additional directories.

echo " -----> Creating additional directories."

mkdir -p /opt/app-root/data

# Generate default supervisord.conf file.

echo_supervisord_conf | \
    sed -e 's%^logfile=/tmp/supervisord.log%logfile=/dev/fd/1%' \
        -e 's%^logfile_maxbytes=50MB%logfile_maxbytes=0%' > \
        /opt/app-root/etc/supervisord.conf

cat >> /opt/app-root/etc/supervisord.conf << EOF
[include]
files = /opt/app-root/etc/supervisor/*.conf
EOF

# Install and enable default nbextensions

jupyter contrib nbextension install --sys-prefix

jupyter nbextension install --sys-prefix https://raw.githubusercontent.com/vpavlin/jupyter-publish-extension/master/publish.js
jupyter nbextension enable  --sys-prefix publish

# Enable the extensions configurator

pip install -U jupyter_nbextensions_configurator

jupyter nbextensions_configurator enable --sys-prefix

# Apply custom notebook configuration

if [ -d "$APP_ROOT/src/.jupyter/" ]; then
    rsync \
        --link-dest="$APP_ROOT/src/.jupyter/" \
        --recursive \
        --verbose \
        "$APP_ROOT/src/.jupyter/" ${APP_ROOT}/etc/jupyter
fi

# Make sure the S2I source directory is empty as we will use the image
# produced to run further S2I builds

(shopt -s dotglob ; rm -rf ${APP_ROOT}/src/*)

# Fixup permissions on directories and files.

fix-permissions /opt/app-root