Merge pull request cnerg#1 from kkiesling/pymoab-images

build scripts w/ moab and pymoab w/ python 2 and 3
kkiesling · Apr 9, 2020 · ccb7ee9 · ccb7ee9
2 parents f584ebe + 66acc6f
commit ccb7ee9
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diff --git a/pymoab-py2-18.04 b/pymoab-py2-18.04
@@ -0,0 +1,56 @@
+FROM  ubuntu:18.04
+
+# set timezone
+ENV HOME /root
+ENV TZ=America/Chicago
+RUN ln -snf /usr/share/zoneinfo/$TZ /etc/localtime && echo $TZ > /etc/timezone
+
+ENV HOME /root
+
+RUN apt-get -y --force-yes update \
+    && apt-get install -y --force-yes \
+       software-properties-common \
+       build-essential \
+       git \
+       cmake \
+       gfortran \
+       libblas-dev \
+       python-pip \
+       liblapack-dev \
+       libhdf5-dev \
+       autoconf \
+       libtool
+
+# need to put libhdf5.so on LD_LIBRARY_PATH
+ENV LD_LIBRARY_PATH /usr/lib/x86_64-linux-gnu
+ENV LIBRARY_PATH /usr/lib/x86_64-linux-gnu
+
+# upgrade pip and install python dependencies
+ENV PATH $HOME/.local/bin:$PATH
+RUN python -m pip install --upgrade pip \
+    && pip install numpy scipy cython tables matplotlib setuptools future pytest
+
+# make starting directory
+RUN cd $HOME \
+  && mkdir opt
+
+# build MOAB
+RUN cd $HOME/opt \
+    && mkdir moab \
+    && cd moab \
+    && git clone --depth 1 -b Version5.1.0 --single-branch https://bitbucket.org/fathomteam/moab \
+    && mkdir build \
+    && cd build \
+    && cmake ../moab -DCMAKE_C_FLAGS="-fPIC -DPIC" -DCMAKE_CXX_FLAGS="-fPIC -DPIC" -DBUILD_SHARED_LIBS=ON \
+       -DCMAKE_SHARED_LINKER_FLAGS="-Wl,--no-undefined" -DENABLE_MPI=OFF  \
+       -DENABLE_HDF5=ON -DHDF5_ROOT=/usr/lib/x86_64-linux-gnu/hdf5/serial \
+       -DENABLE_NETCDF=OFF -DENABLE_METIS=OFF -DENABLE_IMESH=OFF -DENABLE_FBIGEOM=OFF \
+       -DENABLE_PYMOAB=ON -DPREFIX=$HOME/opt/moab \
+    && make all -j 8 \
+    && cd .. \
+    && rm -rf build moab
+
+# set environment variables
+ENV PATH $HOME/opt/moab/bin/:$PATH
+ENV LD_LIBRARY_PATH $HOME/opt/moab/lib:$LD_LIBRARY_PATH
+ENV PYTHONPATH $HOME/opt/moab/lib/python2.7/site-packages/:$PYTHONPATH
diff --git a/pymoab-py3-18.04 b/pymoab-py3-18.04
@@ -0,0 +1,61 @@
+FROM  ubuntu:18.04
+
+# set timezone
+ENV HOME /root
+ENV TZ=America/Chicago
+RUN ln -snf /usr/share/zoneinfo/$TZ /etc/localtime && echo $TZ > /etc/timezone
+
+ENV HOME /root
+
+RUN apt-get -y --force-yes update \
+    && apt-get install -y --force-yes \
+       software-properties-common \
+       build-essential \
+       git \
+       cmake \
+       gfortran \
+       libblas-dev \
+       python3-pip \
+       liblapack-dev \
+       libhdf5-dev \
+       autoconf \
+       libtool
+
+# need to put libhdf5.so on LD_LIBRARY_PATH
+ENV LD_LIBRARY_PATH /usr/lib/x86_64-linux-gnu
+ENV LIBRARY_PATH /usr/lib/x86_64-linux-gnu
+ENV PATH $HOME/.local/bin:$PATH
+
+# switch to python 3
+RUN update-alternatives --install /usr/bin/python python /usr/bin/python3 10; \
+    update-alternatives --install /usr/bin/pip pip /usr/bin/pip3 10;
+
+# upgrade pip and install python dependencies
+RUN python -m pip install --upgrade pip \
+    && pip install numpy scipy cython tables matplotlib setuptools future pytest
+
+
+# make starting directory
+RUN cd $HOME \
+  && mkdir opt
+
+# build MOAB
+RUN cd $HOME/opt \
+    && mkdir moab \
+    && cd moab \
+    && git clone --depth 1 -b Version5.1.0 --single-branch https://bitbucket.org/fathomteam/moab \
+    && mkdir build \
+    && cd build \
+    && cmake ../moab -DCMAKE_C_FLAGS="-fPIC -DPIC" -DCMAKE_CXX_FLAGS="-fPIC -DPIC" -DBUILD_SHARED_LIBS=ON \
+       -DCMAKE_SHARED_LINKER_FLAGS="-Wl,--no-undefined" -DENABLE_MPI=OFF  \
+       -DENABLE_HDF5=ON -DHDF5_ROOT=/usr/lib/x86_64-linux-gnu/hdf5/serial \
+       -DENABLE_NETCDF=OFF -DENABLE_METIS=OFF -DENABLE_IMESH=OFF -DENABLE_FBIGEOM=OFF \
+       -DENABLE_PYMOAB=ON -DPREFIX=$HOME/opt/moab \
+    && make all -j 8 \
+    && cd .. \
+    && rm -rf build moab
+
+# set environment variables
+ENV PATH $HOME/opt/moab/bin/:$PATH
+ENV LD_LIBRARY_PATH $HOME/opt/moab/lib:$LD_LIBRARY_PATH
+ENV PYTHONPATH $HOME/opt/moab/lib/python3.6/site-packages/:$PYTHONPATH