Linpack安装测试流程记录

软件背景

虽然很早就接触了HPC，也参与过一些项目，诸如电影动画渲染集群以及某博导老师的基因分析计算集群，但是对于跑超算的linpack，一直没时间上手玩。

Linpack是超算必测项目,也是考验优化能力的套件,很有意思，记录下安装过程。

要正常运行，主要需要安装3个部分组件：

1. mpi ，这里使用MPICH2
2. BLAS库，线性代数库 ，intel的还有自己的MKL库
3. linpack程序本身

这三个组件，除了linpack本身是标准的外，MPI和BLAS都有多种版本不同的实现，各有千秋和应用场景或者优化的特点。当前主要为了跑通，所以mpi选用mipch2,BLAS选用openblas.

软件地址如下:

 HPL - A Portable Implementation of the High-PerformanceLinpack Benchmark for Distributed-Memory Computershttps://netlib.org/benchmark/hpl/

xianyi (Zhang Xianyi) · GitHubxianyi has 36 repositories available. Follow their code on GitHub.https://github.com/xianyi/openBLAS直接下release里面最新的版本就可以。

Downloads | MPICHhttps://www.mpich.org/downloads/MPICH直接下那个体积最大的包，编译完成后有Hydra这个程序管理可执行程序（mpiexec/mpirun）的。

编译安装过程

mpich2

先安装配置mpi，mpich2安装配置和其他开源软件没啥不同就是解压，configure make make install 几步

tar zxf mpich-4.0.3.tar.gz
cd mpich-4.0.3
./configure --prefix=/usr/local/mpich2/
#需要提前安装好gfortran ,关于网上别的文章说的要添加--with-device=ch4:ofi 参数，我的configure的时候，是默认给我配置的这个，对于其他deivce类型，有需要优化的时候再慢慢看或者做测试吧。
make -j4 
sudo make install 

 安装完成后需要配置环境变量,添加以下行变量到~/.bashrc末尾

export PATH=$PATH:/usr/local/mpich2/bin/
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/mpich2/lib
export MANPATH=$MANPATH:/usr/local/mpich2/share/man

然后拷贝/usr/local/mpich2整个目录到集群其他节点对应的位置，如果机器太多建议还是nfs之类的共享吧，否则某个软件改一下，所有机器又要重新拷贝一遍。

再然后就是配置ssh互信了。

ssh-keygen -t rsa
ssh-copy-id uos@192.168.5.249
ssh-copy-id uos@192.168.5.230  #本机IP也要拷贝
#完成拷贝后，直接ssh 192.168.5.249 或者 ssh 192.168.5.230验证看是否能免密登陆

配置完成后，跑个mpich2自带的跑圆周率计算的程序

cd /home/uos/Downloads/mpich-4.0.3/examples   
#注意每个节点的这个mpich的源码业要拷贝过去。
echo "192.168.5.230" >> nodes
echo "192.168.5.249" >> nodes
mpiexec -f nodes -n 2 ./cpi

openblas 

下载的时候看了下，刚好这最后一版本还支持FT2000了，正好。

tar zxf OpenBLAS-0.3.21.tar.gz 
cd OpenBLAS-0.3.21/
sudo make PREFIX=/usr/local/openblas/ install

HPL

HPL的编译主要是mpi库和blas库的路径配置一下，设置下编译器，直接从解压的源码目录setup下面拷贝一个配置文件到源码根目录并改名为Make.FT2000-CBLAS做修改，这个名字后面编译需要用到，我修改后的配置如下：

#  
#  -- High Performance Computing Linpack Benchmark (HPL)                
#     HPL - 2.3 - December 2, 2018                          
#     Antoine P. Petitet                                                
#     University of Tennessee, Knoxville                                
#     Innovative Computing Laboratory                                 
#     (C) Copyright 2000-2008 All Rights Reserved                       
#                                                                       
#  -- Copyright notice and Licensing terms:                             
#                                                                       
#  Redistribution  and  use in  source and binary forms, with or without
#  modification, are  permitted provided  that the following  conditions
#  are met:                                                             
#                                                                       
#  1. Redistributions  of  source  code  must retain the above copyright
#  notice, this list of conditions and the following disclaimer.        
#                                                                       
#  2. Redistributions in binary form must reproduce  the above copyright
#  notice, this list of conditions,  and the following disclaimer in the
#  documentation and/or other materials provided with the distribution. 
#                                                                       
#  3. All  advertising  materials  mentioning  features  or  use of this
#  software must display the following acknowledgement:                 
#  This  product  includes  software  developed  at  the  University  of
#  Tennessee, Knoxville, Innovative Computing Laboratory.             
#                                                                       
#  4. The name of the  University,  the name of the  Laboratory,  or the
#  names  of  its  contributors  may  not  be used to endorse or promote
#  products  derived   from   this  software  without  specific  written
#  permission.                                                          
#                                                                       
#  -- Disclaimer:                                                       
#                                                                       
#  THIS  SOFTWARE  IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
#  ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES,  INCLUDING,  BUT NOT
#  LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
#  A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE UNIVERSITY
#  OR  CONTRIBUTORS  BE  LIABLE FOR ANY  DIRECT,  INDIRECT,  INCIDENTAL,
#  SPECIAL,  EXEMPLARY,  OR  CONSEQUENTIAL DAMAGES  (INCLUDING,  BUT NOT
#  LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
#  DATA OR PROFITS; OR BUSINESS INTERRUPTION)  HOWEVER CAUSED AND ON ANY
#  THEORY OF LIABILITY, WHETHER IN CONTRACT,  STRICT LIABILITY,  OR TORT
#  (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
#  OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. 
# ######################################################################
#  
# ----------------------------------------------------------------------
# - shell --------------------------------------------------------------
# ----------------------------------------------------------------------
#
SHELL        = /bin/sh
#
CD           = cd
CP           = cp
LN_S         = ln -s
MKDIR        = mkdir
RM           = /bin/rm -f
TOUCH        = touch
#
# ----------------------------------------------------------------------
# - Platform identifier ------------------------------------------------
# ----------------------------------------------------------------------
#
ARCH         = FT2000-CBLAS
#
# ----------------------------------------------------------------------
# - HPL Directory Structure / HPL library ------------------------------
# ----------------------------------------------------------------------
#
TOPdir       = /home/uos/Downloads/hpl-2.3
INCdir       = $(TOPdir)/include
BINdir       = $(TOPdir)/bin/$(ARCH)
LIBdir       = $(TOPdir)/lib/$(ARCH)
#
HPLlib       = $(LIBdir)/libhpl.a 
#
# ----------------------------------------------------------------------
# - Message Passing library (MPI) --------------------------------------
# ----------------------------------------------------------------------
# MPinc tells the  C  compiler where to find the Message Passing library
# header files,  MPlib  is defined  to be the name of  the library to be
# used. The variable MPdir is only used for defining MPinc and MPlib.
#
MPdir        = /usr/local/mpich2
MPinc        = -I$(MPdir)/include
MPlib        = $(MPdir)/lib/libmpi.so
#
# ----------------------------------------------------------------------
# - Linear Algebra library (BLAS or VSIPL) -----------------------------
# ----------------------------------------------------------------------
# LAinc tells the  C  compiler where to find the Linear Algebra  library
# header files,  LAlib  is defined  to be the name of  the library to be
# used. The variable LAdir is only used for defining LAinc and LAlib.
#
LAdir        = /usr/local/openblas
LAinc        = -I$(LAdir)/include
LAlib        = $(LAdir)/lib/libopenblas_ft2000p-r0.3.21.a
#
# ----------------------------------------------------------------------
# - F77 / C interface --------------------------------------------------
# ----------------------------------------------------------------------
# You can skip this section  if and only if  you are not planning to use
# a  BLAS  library featuring a Fortran 77 interface.  Otherwise,  it  is
# necessary  to  fill out the  F2CDEFS  variable  with  the  appropriate
# options.  **One and only one**  option should be chosen in **each** of
# the 3 following categories:
#
# 1) name space (How C calls a Fortran 77 routine)
#
# -DAdd_              : all lower case and a suffixed underscore  (Suns,
#                       Intel, ...),                           [default]
# -DNoChange          : all lower case (IBM RS6000),
# -DUpCase            : all upper case (Cray),
# -DAdd__             : the FORTRAN compiler in use is f2c.
#
# 2) C and Fortran 77 integer mapping
#
# -DF77_INTEGER=int   : Fortran 77 INTEGER is a C int,         [default]
# -DF77_INTEGER=long  : Fortran 77 INTEGER is a C long,
# -DF77_INTEGER=short : Fortran 77 INTEGER is a C short.
#
# 3) Fortran 77 string handling
#
# -DStringSunStyle    : The string address is passed at the string loca-
#                       tion on the stack, and the string length is then
#                       passed as  an  F77_INTEGER  after  all  explicit
#                       stack arguments,                       [default]
# -DStringStructPtr   : The address  of  a  structure  is  passed  by  a
#                       Fortran 77  string,  and the structure is of the
#                       form: struct {char *cp; F77_INTEGER len;},
# -DStringStructVal   : A structure is passed by value for each  Fortran
#                       77 string,  and  the  structure is  of the form:
#                       struct {char *cp; F77_INTEGER len;},
# -DStringCrayStyle   : Special option for  Cray  machines,  which  uses
#                       Cray  fcd  (fortran  character  descriptor)  for
#                       interoperation.
#
F2CDEFS      =
#
# ----------------------------------------------------------------------
# - HPL includes / libraries / specifics -------------------------------
# ----------------------------------------------------------------------
#
HPL_INCLUDES = -I$(INCdir) -I$(INCdir)/$(ARCH) $(LAinc) $(MPinc)
HPL_LIBS     = $(HPLlib) $(LAlib) $(MPlib)
#
# - Compile time options -----------------------------------------------
#
# -DHPL_COPY_L           force the copy of the panel L before bcast;
# -DHPL_CALL_CBLAS       call the cblas interface;
# -DHPL_CALL_VSIPL       call the vsip  library;
# -DHPL_DETAILED_TIMING  enable detailed timers;
#
# By default HPL will:
#    *) not copy L before broadcast,
#    *) call the BLAS Fortran 77 interface,
#    *) not display detailed timing information.
#
HPL_OPTS     = -DHPL_CALL_CBLAS
#
# ----------------------------------------------------------------------
#
HPL_DEFS     = $(F2CDEFS) $(HPL_OPTS) $(HPL_INCLUDES)
#
# ----------------------------------------------------------------------
# - Compilers / linkers - Optimization flags ---------------------------
# ----------------------------------------------------------------------
#
CC           = /usr/bin/gcc
CCNOOPT      = $(HPL_DEFS)
CCFLAGS      = $(HPL_DEFS) -fomit-frame-pointer -O3 -funroll-loops
#
# On some platforms,  it is necessary  to use the Fortran linker to find
# the Fortran internals used in the BLAS library.
#
LINKER       = /usr/bin/gfortran
LINKFLAGS    = $(CCFLAGS) -lpthread
#
ARCHIVER     = ar
ARFLAGS      = r
RANLIB       = echo
#
# ----------------------------------------------------------------------

主要是修改TOPdir  MPdir  LAdir LINKER LINKFLAGS几个位置，编译的时候报错，LINKFLAGS 后面需要添加lpthread

修改完成后直接 make arch=FT2000-CBLAS ,编译完成后可执行程序在bin/FT2000-CBLAS/下，主要是xhpl HPL.dat 两个文件。做测试的时候调整的参数都在HPL.dat 文件里面。

可以不用修改直接运行测试跑一下，

cd bin/FT2000-CBLAS/
mpirun -n 4 ./xhpl

如果没报错，说明安装正常。接下来绝大部分时间都需要慢慢调HPL.dat 里面的参数了，当然MPI以及BLAS库的优化业是必不可少的。

调参数未完待续

HPL Tuninghttps://netlib.org/benchmark/hpl/tuning.html