/
Dockerfile
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Dockerfile
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#------------------------------------------------------------------------------
#
# This Dockerfile is meant for containerized deployment with Kubernetes.
#
#-------------------------------------------------------------------------------
FROM python:3.8.15-slim
RUN apt-get update && apt-get install -y \
g++ \
build-essential \
curl \
tar \
git \
vim \
supervisor && \
rm -rf /var/lib/apt/lists/*
ENV RNACENTRAL_LOCAL=/srv/rnacentral/local
ENV SUPERVISOR_CONF_DIR=/srv/rnacentral/supervisor
ARG LOCAL_DEVELOPMENT
# Create folders
RUN \
mkdir -p $RNACENTRAL_LOCAL && \
mkdir -p $SUPERVISOR_CONF_DIR && \
mkdir /srv/rnacentral/log && \
mkdir /srv/rnacentral/static
# Install Infernal and node.js
RUN \
cd $RNACENTRAL_LOCAL && \
curl -OL http://eddylab.org/infernal/infernal-1.1.1.tar.gz && \
tar -xvzf infernal-1.1.1.tar.gz && \
cd infernal-1.1.1 && \
./configure --prefix=$RNACENTRAL_LOCAL/infernal-1.1.1 && \
make && \
make install && \
cd easel && \
make install && \
cd $RNACENTRAL_LOCAL && \
rm infernal-1.1.1.tar.gz && \
curl -sL https://deb.nodesource.com/setup_lts.x | bash - && \
apt-get install -y nodejs
# Create the rnacentral user
RUN useradd -m -d /srv/rnacentral -s /bin/bash rnacentral
# Set work directory
ENV RNACENTRAL_HOME=/srv/rnacentral/rnacentral-webcode
RUN mkdir -p $RNACENTRAL_HOME
WORKDIR $RNACENTRAL_HOME
# Copy requirements
COPY rnacentral/requirements.txt .
# Install requirements
RUN pip3 install --upgrade pip && pip3 install -r requirements.txt
# Install NPM dependencies
ADD rnacentral/portal/static/package.json rnacentral/portal/static/
RUN cd rnacentral/portal/static && npm install --only=production
# Copy and chown all the files to the rnacentral user
COPY rnacentral $RNACENTRAL_HOME/rnacentral
RUN chown -R rnacentral:rnacentral /srv
# Install and configure packages for local development if needed
RUN \
LOCAL_DEV="${LOCAL_DEVELOPMENT:-False}" && \
if [ "$LOCAL_DEV" = "True" ] ; then \
pip3 install -r rnacentral/requirements_dev.txt ; \
sed -i "13 a import debug_toolbar" "${RNACENTRAL_HOME}"/rnacentral/rnacentral/urls.py ; \
sed -i "31 a \ \ \ \ url(r'^__debug__/', include(debug_toolbar.urls))," "${RNACENTRAL_HOME}"/rnacentral/rnacentral/urls.py ; \
sed -i "129 a \ \ \ \ 'debug_toolbar.middleware.DebugToolbarMiddleware'," "${RNACENTRAL_HOME}"/rnacentral/rnacentral/settings.py ; \
sed -i "188 a \ \ \ \ 'debug_toolbar'," "${RNACENTRAL_HOME}"/rnacentral/rnacentral/settings.py ; \
fi
# Set user
USER rnacentral
# Run entrypoint
COPY ./entrypoint.sh $RNACENTRAL_HOME
ENTRYPOINT ["/srv/rnacentral/rnacentral-webcode/entrypoint.sh"]
# Supervisor
CMD [ "/bin/sh", "-c", "/usr/bin/supervisord -c ${SUPERVISOR_CONF_DIR}/supervisord.conf" ]