aberowl2/Dockerfile.api at main · bio-ontology-research-group/aberowl2 · GitHub

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# Use an official Groovy image based on JDK 11
FROM groovy:4.0-jdk11

# Ensure subsequent commands and the final container run as root
USER root

WORKDIR /app

# Note: Base image might be Debian-based, apt-get should work.
RUN apt-get update && \
    apt-get install -y --no-install-recommends \
        python3 \
        python3-pip \
        ca-certificates && \
    pip3 install gevent requests rdflib && \
    # Clean apt cache
    rm -rf /var/lib/apt/lists/*
    # Clean default root grapes cache (just in case) - should now have permission
    # rm -rf /root/.groovy/grapes

# Copy the application files FIRST, so we can use OntologyServer.groovy for grabs
COPY aberowlapi/ /app/aberowlapi/
COPY docker/scripts/api_server.py /app/api_server.py

# Pre-resolve Grapes dependencies during build using the base image's Groovy
# This will download the JARs into the image layer's Grapes cache
# Use temporary directory to avoid polluting /app
RUN mkdir /tmp/grapes_resolve && cd /tmp/grapes_resolve && \
    echo "Attempting to grab dependencies using base image Groovy (as root)..." && \
    groovy -e "@Grapes([ \
        @Grab(group='org.eclipse.rdf4j', module='rdf4j-runtime', version='2.5.4'), \
        @Grab(group='javax.servlet', module='javax.servlet-api', version='3.1.0'), \
        @Grab(group='javax.servlet.jsp', module='javax.servlet.jsp-api', version='2.3.1'), \
        @Grab(group='org.eclipse.jetty', module='jetty-server', version='9.4.7.v20170914'), \
        @Grab(group='org.eclipse.jetty', module='jetty-servlet', version='9.4.7.v20170914'), \
        @Grab(group='com.google.code.gson', module='gson', version='2.3.1'), \
        @Grab(group='com.googlecode.json-simple', module='json-simple', version='1.1.1'), \
        @Grab(group='org.slf4j', module='slf4j-nop', version='1.7.25'), \
        @Grab(group='org.semanticweb.elk', module='elk-owlapi', version='0.4.3'), \
        @Grab(group='net.sourceforge.owlapi', module='owlapi-api', version='4.5.26'), \
        @Grab(group='net.sourceforge.owlapi', module='owlapi-apibinding', version='4.5.26'), \
        @Grab(group='net.sourceforge.owlapi', module='owlapi-impl', version='4.5.26'), \
        @Grab(group='net.sourceforge.owlapi', module='owlapi-parsers', version='4.5.26'), \
        @Grab(group='org.codehaus.gpars', module='gpars', version='1.1.0'), \
        @Grab(group='com.google.guava', module='guava', version='19.0'), \
        @Grab(group='ch.qos.reload4j', module='reload4j', version='1.2.18.5'), \
        @GrabExclude(group='xml-apis', module='xml-apis'), \
        @GrabExclude(group='log4j', module='log4j'), \
        @Grab(group='aopalliance', module='aopalliance', version='1.0'), \
        @Grab(group='javax.el', module='javax.el-api', version='3.0.0'), \
        @GrabConfig(systemClassLoader=true) \
    ]) \
    class Empty {} ; println 'Dependency grab successful.'" && \
    echo "Cleaning up temporary directory..." && \
    cd / && rm -rf /tmp/grapes_resolve && \
    # Verify grapes cache exists (optional)
    echo "Checking for Grapes cache..." && ls -ld /root/.groovy/grapes || echo "Grapes cache not found at /root/.groovy/grapes (might be elsewhere or empty)"


# Expose the API port
EXPOSE 8080