libMesh v1.3.1 .deb package for Ubuntu 16.04.

Author: jdeaton

.gitignore

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-.DS_Store
+.DS_Store
+
+libmesh/ubuntu16.04/libmesh/
+libmesh/ubuntu16.04/libmesh-1.3.1-1/
+libmesh/ubuntu16.04/libmesh-1.3.1-1.deb

libmesh/ubuntu16.04/DEBIAN/control

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+Package: libmesh-1.3.1
+Version: 1.3.1-1
+Section: base
+Priority: optional
+Architecture: amd64
+Depends: gfortran (>= 4.5),
+ openmpi-bin (>= 1.10), libopenmpi-dev (>= 1.10),
+ libpetsc3.6 (>= 3.6), libpetsc3.6.2-dev (>= 3.6),
+ libslepc3.6 (>= 3.6), libslepc3.6.1-dev (>= 3.6),
+ libparpack2-dev (>= 3.3), 
+ libboost-all-dev (>= 1.58), 
+ libeigen3-dev (>= 3.2)
+Maintainer: Joshua Deaton <jdeaton@users.noreply.github.com>
+Description: libMesh
+ The libMesh library provides a framework for the numerical simulation 
+ of partial differential equations using arbitrary unstructured discretizations 
+ on serial and parallel platforms. A major goal of the library is to provide 
+ while allowing a research scientist to focus on the physics they are modeling.

libmesh/ubuntu16.04/README.md

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+# libMesh - Ubuntu 16.04 (Travis CI)
+This directory contains a script for creating a `.deb` package that can be installed on Ubuntu 16.04 (Xenial) (or possibly another Debian-based Linux distribution). The resulting package will work on the default **Travis CI** *xenial* runner. At this point, all dependencies are installed using Ubuntu's standard package manager.
+
+## Building on Ubuntu 16.04
+On a Ubuntu 16.04 system, simply run the script `build_libmesh_deb.sh`. This script will:
+
+1. Install required dependencies with the standard package manager and Ubuntu repositories.
+2. Fetch the libMesh v1.3.1 release from GitHub.
+3. Unpack, compile, and install libMesh libraries and headers to `/usr/local`.
+4. Create the package `libmesh-1.3.1-1.deb`.
+
+## Building with Ubuntu 16.04 Docker image
+The `libmesh-1.3.1-1.deb` package can also be generated using a Ubuntu 16.04 Docker image. From within the current directory call `run_with_docker.sh`, which will drop you inside an interactive Docker container. Note that the current directory (containing this file) is mapped to `/package` inside the container.
+
+Next, run 
+
+```
+apt-get update
+apt-get install sudo
+cd /package
+```
+
+The build script can then be run as `build_libmesh_deb.sh` and the resulting `libmesh-1.3.1-1.deb` will be available outside the Docker container in the current directory.
+
+## References
+The following links contain references related to making binary packages on Ubuntu.
+- https://ubuntuforums.org/showthread.php?t=910717
+- https://askubuntu.com/questions/1345/what-is-the-simplest-debian-packaging-guide
+- https://www.debian.org/doc/debian-policy/ch-controlfields.html

libmesh/ubuntu16.04/build_libmesh_deb.sh

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+#!/usr/bin/env bash
+
+# Get # of processors in environment variables.
+export NP=$(nproc)
+# Store current location as working directory.
+export WORK_DIR=${PWD}
+
+# Update packages fromt apt repos.
+sudo apt-get update
+sudo apt-get -y install build-essential gfortran wget less m4 git cmake
+sudo apt-get -y install openmpi-bin libopenmpi-dev
+sudo apt-get -y install libpetsc3.6 libpetsc3.6.2-dbg libpetsc3.6.2-dev
+sudo apt-get -y install libslepc3.6 libslepc3.6.1-dbg libslepc3.6.1-dev
+sudo apt-get -y install libparpack2-dev
+sudo apt-get -y install libboost-all-dev
+sudo apt-get -y install libeigen3-dev
+
+# Fetch/build libMesh.
+mkdir libmesh
+cd libmesh
+wget https://github.com/libMesh/libmesh/releases/download/v1.3.1/libmesh-1.3.1.tar.gz
+tar -xvf libmesh-1.3.1.tar.gz
+cd libmesh-1.3.1
+mkdir build
+cd build
+export PETSC_DIR=/usr/lib/petscdir/3.6.2/x86_64-linux-gnu-real
+export SLEPC_DIR=/usr/lib/slepcdir/3.6.1/x86_64-linux-gnu-real
+export HDF5_DIR=/usr/lib/x86_64-linux-gnu/hdf5/openmpi
+../configure --prefix=/usr/local --with-methods="opt dbg" --disable-metaphysicl --disable-examples
+make -j ${NP}
+sudo make install
+
+# Organize libMesh include/ and lib/ for packaging.
+cd ${WORK_DIR}
+export PKG_DIR=libmesh-1.3.1-1
+export INST_DIR=${PKG_DIR}/usr/local
+mkdir ${PKG_DIR}
+mkdir ${PKG_DIR}/usr
+mkdir ${PKG_DIR}/usr/local
+mkdir ${PKG_DIR}/usr/local/include
+mkdir ${PKG_DIR}/usr/local/lib
+cp -r /usr/local/include/* ${INST_DIR}/include
+cp -r /usr/local/lib/libmesh* ${INST_DIR}/lib
+cp -r /usr/local/lib/libnetcdf* ${INST_DIR}/lib
+
+# Copy in DEBIAN/control package configuration file.
+cp -r ${WORK_DIR}/DEBIAN ${PKG_DIR}
+
+# Create libMesh .deb package.
+dpkg-deb --build libmesh-1.3.1-1

libmesh/ubuntu16.04/run_with_docker.sh

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+docker rm libmesh-pkg-build-ubuntu-16.04
+docker run -it --entrypoint /bin/bash --name libmesh-pkg-build-ubuntu-16.04 -v ${PWD}:/package ubuntu:16.04