How to compile PUMGen

本文来源于https://github.com/SeisSol/PUMGen/wiki/How-to-compile-PUMGen

开始编译PUMGen之前，需要先按照https://blog.csdn.net/afgqwjgfjqwgfg/article/details/120308484中的步骤安装好HDF5；

HDF5

cd hdf5-1.8.21
CC=mpicc ./configure --enable-parallel --prefix=/path/to/hdf5
make -j $ncpu
make install

Where ncpu can be obtained by:

ncpu=$(lscpu | grep "^CPU(" | awk '{print $2}')

Simmetrix (optional)可选

The Sim Modeling Suite from Simmetrix is optional. To use it, you need a valid Simmetrix license for the Sim Modeling Suite library. If you have the license you should be able to download the library from http://simmetrix.com/index.php/support/support-downloads. See here for the installation process.
这个网站打开就是一个什么登录界面，太麻烦了，反正我没装。

PUMI

https://github.com/SCOREC/core

cd $HOME
git clone git@github.com:SCOREC/core.git
cd core

• 如果没有安装Simmetrix：

mkdir build && cd build
cmake .. \
  -DCMAKE_C_COMPILER="`which mpicc`" \
  -DCMAKE_CXX_COMPILER="`which mpiCC`" \
  -DCMAKE_C_FLAGS="-O2 -g -Wall" \
  -DCMAKE_CXX_FLAGS="-O2 -g -Wall" \
  -DCMAKE_INSTALL_PREFIX=$path_to_pumi
make -j $ncpu
sudo make install

(depending of the mpi environement, you may need to used which mpicxx instead of which mpiCC)对应不同的MPI环境，需要选择使用which mpicxx 还是which mpiCC, 建议是如果不会报错就用原来的which mipCC，报错了再换 which mpicxx 试试。

• 如果安装了Simmetrix

mkdir build && cd build
cmake .. \
  -DCMAKE_C_COMPILER="`which mpicc`" \
  -DCMAKE_CXX_COMPILER="`which mpiCC`" \
  -DCMAKE_C_FLAGS="-O2 -g -Wall" \
  -DCMAKE_CXX_FLAGS="-O2 -g -Wall" \
  -DCMAKE_INSTALL_PREFIX=$path_to_pumi \
  -DENABLE_SIMMETRIX=ON \
  -DSIM_MPI=$mpi_name \
  -DSIMMETRIX_LIB_DIR=$path_to_SimModeler_lib \
  -DSIMMODSUITE_INCLUDE_DIR=$path_to_SimModeler_include_dir
make -j $ncpu
make install

Where $mpi_name is the mpi implementation (see the name of the preinstalled libSimPartitionedMesh-xxx.a, e.g. mpi, mpich3, openmpi3 or openmpi4. on supermucNG we use mpich3)

As an illustration, the different path could be:

export myLibs=(set your myLibs here)
export path_to_SimModeler=$myLibs/SimModelerLib/15.0-200822/
export mpi_name=mpich3
export path_to_pumi=$myLibs/core/
export path_to_SimModeler_lib=$path_to_SimModeler/lib/x64_rhel7_gcc48
export path_to_SimModeler_include_dir=$path_to_SimModeler/include
export path_to_hdf5=$HDF5_BASE

Where $myLibs point to the folder where user libraries are installed.

netCDF (optional/deprecated)

标题都说不建议了，这一部分可以直接跳过。

NetCDF is required to convert old SeisSol meshes.

http://www.unidata.ucar.edu/downloads/netcdf/index.jsp (NetCDF-C Releases)

CPPFLAGS=-I/path/to/hdf5/include CC=mpicc LDFLAGS=-L/path/to/hdf5/lib LIBS=-ldl ./configure --disable-shared --prefix=/path/to/netcdf
make -j $ncpu
make install

Getting PUMGen

git clone https://github.com/SeisSol/PUMGen.git
cd PUMGen
git submodule update --init

Compiling PUMGen

mkdir build
cd build
cmake .. -DCMAKE_PREFIX_PATH=$path_to_pumi -DSIMMETRIX=ON \
    -DSIMMETRIX_ROOT=$path_to_SimModeler -DSIM_MPI=$mpi_name \
    -DCMAKE_BUILD_TYPE=Release\
    -DCMAKE_C_COMPILER=icc -DCMAKE_CXX_COMPILER=icpc 
make -j $ncpu

pumgen can be compiled with simmetrix using -DSIMMETRIX=OFF.
The argument of -DCMAKE_C_COMPILER and -DCMAKE_CXX_COMPILER should match the compiler used for pumi.

如果没有安装Simmetrix的话，直接使用上面的

cmake .. -DCMAKE_PREFIX_PATH=$path_to_pumi -DSIMMETRIX=ON \
    -DSIMMETRIX_ROOT=$path_to_SimModeler -DSIM_MPI=$mpi_name \
    -DCMAKE_BUILD_TYPE=Release\
    -DCMAKE_C_COMPILER=icc -DCMAKE_CXX_COMPILER=icpc 

会出错，需要将其改为：

cmake .. -DCMAKE_PREFIX_PATH=$path_to_pumi -DSIMMETRIX=OFF -DSIM_MPI=$mpi_name     -DCMAKE_BUILD_TYPE=Release    -DCMAKE_C_COMPILER="`which mpicc`" -DCMAKE_CXX_COMPILER="`which mpiCC`"

make -j $ncpu

其中The argument of -DCMAKE_C_COMPILER and -DCMAKE_CXX_COMPILER should match the compiler used for pumi.

如果执行 make -j $ncpu 后出现 undefined reference to ompi_mpi_comm_world之类的错误，最好回到安装OPENMPI和mpich 那一步，重新编译，安装一遍，确保过程中没有问题，都正确安装了。
MPI环境： Ubuntu 20.04下安装和配置MPI - 知乎

OpenMPI : openmpi入门1-安装与测试 - 灰信网（软件开发博客聚合）,

或者：OpenMPI的下载和安装

编译和安装最好分别进行：

make
make install    #权限不够加 sudo

成功执行make -j $ncpu之后：

安装：sudo make install

此时在命令行输入pumgen ,就会出现pumgen命令的参数介绍了。

到这里应该就成功安装好PUMGen了。