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Distributed memory, MPI based SuperLU
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SuperLU_DIST (version 5.0.0) ============================ SuperLU_DIST contains a set of subroutines to solve a sparse linear system A*X=B. It uses Gaussian elimination with static pivoting (GESP). Static pivoting is a technique that combines the numerical stability of partial pivoting with the scalability of Cholesky (no pivoting), to run accurately and efficiently on large numbers of processors. SuperLU_DIST is a parallel extension to the serial SuperLU library. It is targeted for the distributed memory parallel machines. SuperLU_DIST is implemented in ANSI C, and MPI for communications. Currently, the LU factorization and triangular solution routines, which are the most time-consuming part of the solution process, are parallelized. The other routines, such as static pivoting and column preordering for sparsity are performed sequentially. This "alpha" release contains double-precision real and double-precision complex data types. The distribution contains the following directory structure: SuperLU_DIST/README instructions on installation SuperLU_DIST/CBLAS/ needed BLAS routines in C, not necessarily fast SuperLU_DIST/DOC/ the Users' Guide SuperLU_DIST/EXAMPLE/ example programs SuperLU_DIST/INSTALL/ test machine dependent parameters SuperLU_DIST/SRC/ C source code, to be compiled into libsuperlu_dist.a SuperLU_DIST/lib/ contains library archive libsuperlu_dist.a SuperLU_DIST/Makefile top level Makefile that does installation and testing SuperLU_DIST/make.inc compiler, compiler flags, library definitions and C preprocessor definitions, included in all Makefiles. (You may need to edit it to suit for your system before compiling the whole package.) SuperLU_DIST/MAKE_INC/ sample machine-specific make.inc files ---------------- | INSTALLATION | ---------------- There are two ways to install the package. One requires users to edit makefile manually, the other uses CMake build system. The procedures are described below. 1. Manual installation with makefile. Before installing the package, please examine the three things dependent on your system setup: 1.1 Edit the make.inc include file. This make include file is referenced inside each of the Makefiles in the various subdirectories. As a result, there is no need to edit the Makefiles in the subdirectories. All information that is machine specific has been defined in this include file. Sample machine-specific make.inc are provided in the MAKE_INC/ directory for several platforms, such as Cray XT5 and IBM SP. When you have selected the machine to which you wish to install SuperLU_DIST, copy the appropriate sample include file (if one is present) into make.inc. For example, if you wish to run SuperLU_DIST on a Cray XT5, you can do cp MAKE_INC/make.xc30 make.inc For the systems other than listed above, some porting effort is needed for parallel factorization routines. Please refer to the Users' Guide for detailed instructions on porting. The following CPP definitions can be set in CFLAGS. o -D_LONGINT use 64-bit integers for indexing sparse matrices. (default 32 bit) o -DPRNTlevel=[0,1,2,...] printing level to show solver's execution details. (default 0) o -DDEBUGlevel=[0,1,2,...] diagnostic printing level for debugging purpose. (default 0) 1.2. The BLAS library. The parallel routines in SuperLU_DIST uses some sequential BLAS routines on each process. If there is BLAS library available on your machine, you may define the following in the file make.inc: BLASDEF = -DUSE_VENDOR_BLAS BLASLIB = <BLAS library you wish to link with> The CBLAS/ subdirectory contains the part of the C BLAS needed by SuperLU_DIST package. However, these codes are intended for use only if there is no faster implementation of the BLAS already available on your machine. In this case, you should go to the top-level SuperLU_DIST/ directory and do the following: 1) In make.inc, undefine (comment out) BLASDEF, and define: BLASLIB = ../lib/libblas$(PLAT).a 2) Type: make blaslib to make the BLAS library from the routines in the CBLAS/ subdirectory. 1.3. External libraries: Metis and ParMetis. If you will use Metis or ParMetis ordering, you will need to install them yourself. Since ParMetis package already contains the source code for the Metis library, you can just download and compile ParMetis from: http://glaros.dtc.umn.edu/gkhome/metis/parmetis/download After you have installed it, you should define the following in make.inc: METISLIB = -L<metis directory> -lmetis PARMETISLIB = -L<parmetis directory> -lparmetis I_PARMETIS = -I<parmetis directory>/include -I<parmetis directory>/metis/include 1.4. C preprocessor definition CDEFS. In the header file SRC/Cnames.h, we use macros to determine how C routines should be named so that they are callable by Fortran. (Some vendor-supplied BLAS libraries do not have C interfaces. So the re-naming is needed in order for the SuperLU BLAS calls (in C) to interface with the Fortran-style BLAS.) The possible options for CDEFS are: o -DAdd_: Fortran expects a C routine to have an underscore postfixed to the name; o -DNoChange: Fortran expects a C routine name to be identical to that compiled by C; o -DUpCase: Fortran expects a C routine name to be all uppercase. 1.5. Multicore and GPU (optional). To use OpenMP parallelism, need to set the number of threads as follows: setenv OMP_NUM_THREADS <##> To enable Nvidia GPU access, need to take the following 2 step: 1) set the following Linux environment variable: setenv ACC GPU 2) Add the CUDA library location in make.inc: ifeq "${ACC}" "GPU" CUDA_FLAGS = -DGPU_ACC INCS += -I<CUDA directory>/include LIBS += -L<CUDA directory>/lib64 -lcublas -lcudart endif A Makefile is provided in each subdirectory. The installation can be done completely automatically by simply typing "make" at the top level. 2. Using CMake build system. You will need to create a build tree from which to invoke CMake. First, in order to use parallel symbolic factorization function, you need to install ParMETIS parallel ordering package, and define the two environment variables: PARMETIS_ROOT and PARMETIS_BUILD_DIR setenv PARMETIS_ROOT <Prefix directory of the ParMETIS installation> setenv PARMETIS_BUILD_DIR ${PARMETIS_ROOT}/build/Linux-x86_64 Then, the installation procedure is the following. From the top level directory, do: mkdir build ; cd build cmake .. \ -DTPL_PARMETIS_LIBRARIES="${PARMETIS_BUILD_DIR}/libparmetis/libparmetis.a;${PARMETIS_BUILD_DIR}/libmetis/libmetis.a" \ -DTPL_PARMETIS_INCLUDE_DIRS="${PARMETIS_ROOT}/include;${PARMETIS_ROOT}/metis/include" ( example: setenv PARMETIS_ROOT ~/lib/parmetis-4.0.3 setenv PARMETIS_BUILD_DIR ${PARMETIS_ROOT}/build/Linux-x86_64 cmake .. \ -DTPL_PARMETIS_INCLUDE_DIRS="${PARMETIS_ROOT}/include;${PARMETIS_ROOT}/metis/include" \ -DTPL_PARMETIS_LIBRARIES="${PARMETIS_BUILD_DIR}/libparmetis/libparmetis.so;${PARMETIS_BUILD_DIR}/libmetis/libmetis.so"\ -DCMAKE_C_FLAGS="-std=c99 -g" \ -Denable_blaslib=OFF \ -DBUILD_SHARED_LIBS=ON \ -DCMAKE_C_COMPILER=mpicc \ -DCMAKE_INSTALL_PREFIX=.. ) To actually build, type: make To install the libraries, type: make install To run the installation test, type: make test (all the outputs are in file: build/Testing/Temporary/LastTest.log) -------------- | REFERENCES | -------------- [1] SuperLU_DIST: A Scalable Distributed-Memory Sparse Direct Solver for Unsymmetric Linear Systems. Xiaoye S. Li and James W. Demmel. ACM Trans. on Math. Solftware, Vol. 29, No. 2, June 2003, pp. 110-140. [2] Parallel Symbolic Factorization for Sparse LU with Static Pivoting. L. Grigori, J. Demmel and X.S. Li. SIAM J. Sci. Comp., Vol. 29, Issue 3, 1289-1314, 2007. [3] A distributed CPU-GPU sparse direct solver. P. Sao, R. Vuduc and X.S. Li, Proc. of EuroPar-2014 Parallel Processing, August 25-29, 2014. Porto, Portugal. Xiaoye S. Li Lawrence Berkeley National Lab, [email protected] Laura Grigori INRIA, France, [email protected] Piyush Sao Georgia Institute of Technology, [email protected] Ichitaro Yamazaki Univ. of Tennessee, [email protected] -------------------- | RELEASE VERSIONS | -------------------- October 15, 2003 Version 2.0 October 1, 2007 Version 2.1 Feburary 20, 2008 Version 2.2 October 15, 2008 Version 2.3 June 9, 2010 Version 2.4 November 23, 2010 Version 2.5 March 31, 2013 Version 3.3 October 1, 2014 Version 4.0 July 15, 2014 Version 4.1 September 25, 2015 Version 4.2 December 31, 2015 Version 4.3 April 8, 2016 Version 5.0.0
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