2 stage Docker build to reduce size for singularity

Author: jcschaff

Dockerfile

@@ -1,25 +1,10 @@
-FROM eclipse-temurin:17-jdk-jammy
+FROM eclipse-temurin:17-jdk-jammy as build
 
 RUN apt-get -y update && apt-get install -y apt-utils && \
     apt-get install -y -qq -o=Dpkg::Use-Pty=0 build-essential gfortran zlib1g-dev \
-    libhdf5-dev libcurl4-openssl-dev libboost-dev cmake wget python3 && \
+    libhdf5-dev libcurl4-openssl-dev libboost-dev cmake wget python3 python3-pip && \
     apt-get install -q -y --no-install-recommends curl dnsutils
 
-# Create a custom Java runtime
-RUN $JAVA_HOME/bin/jlink \
-         --add-modules ALL-MODULE-PATH \
-         --strip-debug \
-         --no-man-pages \
-         --no-header-files \
-         --compress=2 \
-         --output /javaruntime
-
-ENV JAVA_HOME=/javaruntime
-ENV PATH="${JAVA_HOME}/bin:${PATH}"
-
-ENV DEBIAN_FRONTEND=noninteractive
-ENV LANG=en_US.UTF-8
-
 COPY . /vcellroot
 
 RUN mkdir -p /vcellroot/build/bin
@@ -40,8 +25,31 @@ RUN /usr/bin/cmake \
     -DOPTION_TARGET_HY3S_SOLVERS=OFF \
     .. && \
     make && \
-    ctest -VV && \
-    mv /vcellroot/build/bin /vcellbin
+    ctest -VV
+
+FROM eclipse-temurin:17-jdk-jammy as runtime
+
+RUN apt-get -y update && apt-get install -y apt-utils && \
+    apt-get install -y -qq -o=Dpkg::Use-Pty=0 build-essential gfortran zlib1g-dev \
+    libhdf5-dev libcurl4-openssl-dev libboost-dev cmake wget python3 python3-pip && \
+    apt-get install -q -y --no-install-recommends curl dnsutils
+
+# Create a custom Java runtime
+RUN $JAVA_HOME/bin/jlink \
+         --add-modules ALL-MODULE-PATH \
+         --strip-debug \
+         --no-man-pages \
+         --no-header-files \
+         --compress=2 \
+         --output /javaruntime
+
+ENV JAVA_HOME=/javaruntime
+ENV PATH="${JAVA_HOME}/bin:${PATH}"
+
+ENV DEBIAN_FRONTEND=noninteractive
+ENV LANG=en_US.UTF-8
+
+COPY --from=build /vcellroot/build/bin /vcellbin
 
 WORKDIR /vcellbin
 ENV PATH=/vcellbin:$PATH