add scripts to generate docker image

Dockerfile

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+# FROM ubuntu:16.04
+# FROM debian:stable
+FROM ubuntu:18.04
+
+WORKDIR /app
+RUN apt-get update
+RUN apt-get install git -y
+RUN git clone https://github.com/gptune/superlu_dist.git
+WORKDIR superlu_dist
+RUN git fetch
+RUN git pull https://github.com/gptune/superlu_dist gpu_trisolve_new
+RUN cd example_scripts
+RUN bash config_cleanlinux.sh 

PATCH/parmetis/CMakeLists.txt

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+cmake_minimum_required(VERSION 2.8)
+project(ParMETIS)
+
+set(GKLIB_PATH METIS/GKlib CACHE PATH "path to GKlib")
+set(METIS_PATH METIS CACHE PATH "path to METIS")
+
+# Symlink ./metis to wherever metis is. This allows files to be
+# included from metis/libmetis/.
+execute_process(COMMAND ${CMAKE_COMMAND} -E create_symlink ${METIS_PATH} metis)
+
+# Search for MPI.
+# GK commented this out as it seems to be creating problems
+# include(FindMPI)
+# if(NOT MPI_FOUND)
+#   message(FATAL_ERROR "mpi is not found")
+# endif()
+# set(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${MPI_COMPILE_FLAGS}")
+
+# Prepare libraries.
+if(SHARED)
+  set(ParMETIS_LIBRARY_TYPE SHARED)
+  set(METIS_LIBRARY_TYPE SHARED)
+else()
+  set(ParMETIS_LIBRARY_TYPE STATIC)
+  set(METIS_LIBRARY_TYPE STATIC)
+endif()
+
+include(${GKLIB_PATH}/GKlibSystem.cmake)
+
+# List of paths that the compiler will search for header files.
+# i.e., the -I equivalent
+include_directories(include)
+include_directories(${MPI_INCLUDE_PATH})
+include_directories(${GKLIB_PATH})
+include_directories(${METIS_PATH}/include)
+
+# List of directories that cmake will look for CMakeLists.txt
+add_subdirectory(${METIS_PATH}/libmetis ${CMAKE_BINARY_DIR}/libmetis)
+add_subdirectory(include)
+add_subdirectory(libparmetis)
+add_subdirectory(programs)
+
+# This is for testing during development and is not being distributed
+#add_subdirectory(test)

example_scripts/config_cleanlinux.sh

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+#!/bin/bash
+
+##################################################
+##################################################
+cd ..
+export ModuleEnv='cleanlinux-unknown-openmpi-gnu'
+BuildExample=1 # whether to build all examples
+MPIFromSource=1 # whether to build openmpi from source
+
+if [[ $(cat /etc/os-release | grep "PRETTY_NAME") != *"Ubuntu"* && $(cat /etc/os-release | grep "PRETTY_NAME") != *"Debian"* ]]; then
+	echo "This script can only be used for Ubuntu or Debian systems"
+	exit
+fi
+
+##################################################
+##################################################
+
+
+export SuperLUROOT=$PWD
+
+############### Yang's tr4 machine
+if [ $ModuleEnv = 'cleanlinux-unknown-openmpi-gnu' ]; then
+
+	CC=gcc-8
+	FTN=gfortran-8
+	CPP=g++-8
+
+	if [[ $MPIFromSource = 1 ]]; then
+		export PATH=$PATH:$SuperLUROOT/openmpi-4.0.1/bin
+		export MPICC="$SuperLUROOT/openmpi-4.0.1/bin/mpicc"
+		export MPICXX="$SuperLUROOT/openmpi-4.0.1/bin/mpicxx"
+		export MPIF90="$SuperLUROOT/openmpi-4.0.1/bin/mpif90"
+		export LD_LIBRARY_PATH=$SuperLUROOT/openmpi-4.0.1/lib:$LD_LIBRARY_PATH
+		export LIBRARY_PATH=$SuperLUROOT/openmpi-4.0.1/lib:$LIBRARY_PATH  		
+	else
+
+		#######################################
+		#  define the following as needed
+		export MPICC=
+		export MPICXX=
+		export MPIF90=
+		export LD_LIBRARY_PATH=$LD_LIBRARY_PATH
+		export LIBRARY_PATH=$LIBRARY_PATH 
+		export PATH=$PATH 
+		########################################
+
+		if [[ -z "$MPICC" ]]; then
+			echo "Line: ${LINENO} of $BASH_SOURCE: It seems that openmpi will not be built from source, please set MPICC, MPICXX, MPIF90, PATH, LIBRARY_PATH, LD_LIBRARY_PATH for your OpenMPI build correctly above. Make sure OpenMPI > 4.0.0 is used and compiled with CC=$CC, CXX=$CPP and FC=$FTN."
+			exit
+		fi
+	fi
+	export BLAS_LIB=$SuperLUROOT/OpenBLAS/libopenblas.so
+	export LAPACK_LIB=$SuperLUROOT/OpenBLAS/libopenblas.so
+	export LD_LIBRARY_PATH=$SuperLUROOT/OpenBLAS/:$LD_LIBRARY_PATH
+	OPENMPFLAG=fopenmp
+
+
+fi
+###############
+
+
+
+
+
+#set up environment variables, these are also needed when running GPTune 
+################################### 
+
+export ParMETIS_DIR=$SuperLUROOT/parmetis-4.0.3/install
+export PARMETIS_INCLUDE_DIRS="$ParMETIS_DIR/include"
+export PARMETIS_LIBRARIES="$ParMETIS_DIR/lib/libparmetis.so;$ParMETIS_DIR/lib/libmetis.so"
+
+
+
+# install dependencies using apt-get and virtualenv
+###################################
+
+apt-get update -y 
+apt-get upgrade -y 
+apt-get dist-upgrade -y  
+apt-get install dialog apt-utils -y 
+apt-get install build-essential software-properties-common -y 
+add-apt-repository ppa:ubuntu-toolchain-r/test -y 
+apt-get update -y 
+apt-get install gcc-8 g++-8 gfortran-8 -y  
+# apt-get install gcc-9 g++-9 gfortran-9 -y  
+# apt-get install gcc-10 g++-10 gfortran-10 -y  
+
+
+apt-get install libffi-dev -y
+apt-get install libssl-dev -y
+
+# apt-get install libblas-dev  -y
+# apt-get install liblapack-dev -y
+apt-get install cmake -y
+apt-get install git -y
+apt-get install vim -y
+apt-get install autoconf automake libtool -y
+apt-get install zlib1g-dev -y
+apt-get install wget -y
+apt-get install libsm6 -y
+apt-get install libbz2-dev -y
+apt-get install libsqlite3-dev -y
+apt-get install jq -y
+
+
+# manually install dependencies from cmake and make
+###################################
+cd $SuperLUROOT
+git clone https://github.com/xianyi/OpenBLAS
+cd OpenBLAS
+make PREFIX=. CC=$CC CXX=$CPP FC=$FTN -j32
+make PREFIX=. CC=$CC CXX=$CPP FC=$FTN install -j32
+
+
+if [[ $MPIFromSource = 1 ]]; then
+	cd $SuperLUROOT
+	wget https://download.open-mpi.org/release/open-mpi/v4.0/openmpi-4.0.1.tar.bz2
+	bzip2 -d openmpi-4.0.1.tar.bz2
+	tar -xvf openmpi-4.0.1.tar 
+	cd openmpi-4.0.1/ 
+	./configure --prefix=$PWD --enable-mpi-interface-warning --enable-shared --enable-static --enable-cxx-exceptions CC=$CC CXX=$CPP F77=$FTN FC=$FTN --enable-mpi1-compatibility --disable-dlopen
+	make -j32
+	make install
+fi
+
+
+
+	cd $SuperLUROOT
+
+	#### the following server is often down, so switch to the github repository 
+	wget https://launchpad.net/ubuntu/+archive/primary/+sourcefiles/parmetis/4.0.3-4/parmetis_4.0.3.orig.tar.gz
+	tar -xf parmetis_4.0.3.orig.tar.gz
+	cd parmetis-4.0.3/
+	cp $SuperLUROOT/PATCH/parmetis/CMakeLists.txt .
+	mkdir -p install
+	make config shared=1 cc=$MPICC cxx=$MPICXX prefix=$PWD/install
+	make install > make_parmetis_install.log 2>&1
+	cd ../
+	cp $PWD/parmetis-4.0.3/build/Linux-x86_64/libmetis/libmetis.so $PWD/parmetis-4.0.3/install/lib/.
+	cp $PWD/parmetis-4.0.3/metis/include/metis.h $PWD/parmetis-4.0.3/install/include/.
+
+
+	mkdir -p build
+	cd build
+	rm -rf CMakeCache.txt
+	rm -rf DartConfiguration.tcl
+	rm -rf CTestTestfile.cmake
+	rm -rf cmake_install.cmake
+	rm -rf CMakeFiles
+	cmake .. \
+		-DCMAKE_CXX_FLAGS="-Ofast -std=c++11 -DAdd_ -DRELEASE" \
+		-DCMAKE_C_FLAGS="-std=c11 -DPRNTlevel=0 -DPROFlevel=0 -DDEBUGlevel=0" \
+		-DBUILD_SHARED_LIBS=ON \
+		-DCMAKE_CXX_COMPILER=$MPICXX \
+		-DCMAKE_C_COMPILER=$MPICC \
+		-DCMAKE_Fortran_COMPILER=$MPIF90 \
+		-DCMAKE_BUILD_TYPE=Release \
+		-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON \
+		-DTPL_BLAS_LIBRARIES="${BLAS_LIB}" \
+		-DTPL_LAPACK_LIBRARIES="${LAPACK_LIB}" \
+		-DTPL_PARMETIS_INCLUDE_DIRS=$PARMETIS_INCLUDE_DIRS \
+		-DTPL_PARMETIS_LIBRARIES=$PARMETIS_LIBRARIES
+	make pddrive3d