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FROM ghcr.io/virtualcell/vcell-solvers:v0.8.2
RUN apt -y update && \
apt install -y curl && \
apt install -y wget gdebi-core apt-utils libfreetype6 fontconfig fonts-dejavu && \
pip3 install thrift
RUN DEBIAN_FRONTEND=noninteractive apt install -y --no-install-recommends tzdata
RUN unlink /etc/localtime || true
RUN ln -s /usr/share/zoneinfo/America/New_York /etc/localtime
RUN mkdir -p /usr/local/app/localsolvers && ln -s /vcellbin /usr/local/app/localsolvers/linux64
WORKDIR /usr/local/app
COPY ./vcell-server/target/vcell-server-0.0.1-SNAPSHOT.jar \
./vcell-server/target/maven-jars/*.jar \
./lib/
COPY ./nativelibs/linux64 ./nativelibs/linux64
COPY ./localsolvers/linux64/langevin_x64 /vcellbin/
COPY ./docker/build/batch/JavaPreprocessor64 \
./docker/build/batch/JavaPostprocessor64 \
./docker/build/batch/JavaSimExe64 \
./docker/build/batch/entrypoint.sh \
./pythonVtk \
/vcellscripts/
ENV PATH=/vcellscripts:$PATH \
CLASSPATH=/usr/local/app/lib/*
ENV softwareVersion=SOFTWARE-VERSION-NOT-SET \
serverid=SITE \
installdir=/usr/local/app \
jmshost_sim_internal="jms-host-not-set" \
jmsport_sim_internal="jms-port-not-set" \
jmsrestport_sim_internal="jms-restport-not-set" \
jmsuser="jms-user-not-set" \
jmspswd="jms-pswd-not-set" \
blob_message_use_mongo=true \
primary_datadir_internal=/simdata \
primary_datadir_external=/path/to/external/simdata \
secondary_datadir_internal=/simdata_secondary \
secondary_datadir_external=/path/to/external/simdata \
htclogdir_internal=/htclogs \
htclogdir_external=/path/to/external/htclogs \
mongodbhost_internal="mongo-host-not-set" \
mongodbport_internal="mongo-port-not-set" \
mongodb_database=test \
TMPDIR=/solvertmp/ \
java_mem_Xmx=200M \
jmsblob_minsize=100000
VOLUME /simdata
VOLUME /simdata_secondary
VOLUME /htclogs
VOLUME /solvertmp
ENTRYPOINT [ "/vcellscripts/entrypoint.sh" ]
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