Same as above but do not have a fortran compiler and want to use petsc from c. Configure petsc with mkl by adding withblaslapackdirpathtomkl to. Compiling with your own petsc and slepc builds freefem. There is a tar file that can be downloaded to ra that contains the source for the various programs, most in both c and fortran, a makefile, and a pbs script. Lapack c interface is now included in the lapack package in the lapacke directory. Is this a common trend or are there other factors at play. For some reason the windows petsc lib is much slower than the linux lib in solving linear equation systems the linux and win7 workstations have about the same speed based on other tests. I am currently on a coupled vlasovnavierstokes system and i want numerical simulations. These names might depend on your mpi library andor compiler suite. Scientific libraries texas advanced computing center. In order to avoid incompatibilities between petsc, petsc4py and petgem, we highly recommend the following configuration lines.
Petsc now downloads a decent version of mpi during installation, so no. Mkl is available only on lc machines with x86based chips. Installation of petsc on os x with already compiled mumps and scalapack through homebrew. Then, it is important that petsc is configured with a working mpi implementation. Petsc portable, extensible toolkit for scientific computation is an open source suite of data structures and routines for the parallel solution of scientific applications modelled by partial differential equations. Enabling intel mkl in petsc applications intel software. Run with withblaslib to indicate the library containing blas. Scalapack is a subset of the lapack linear algebra routines which have been parallelized for execution on distributed memory systems mimd.
Scalapack routines intel math kernel library for fortran. Using intel mkl blas and lapack with petsc intel software. I attended the tutorial sessions of the freefem days in december, when petsc was extensively used. High performance computing at louisiana state university. I built petsc with intel mkl in both linux and windows7 with intel compilers. The configure finally worked when i added withscalapackincludeusrlocal. Petsc portable, extensible toolkit for scientific computation, pronounced petsee the s is silent, is a suite of data structures and routines for the scalable parallel solution of scientific applications modeled by. Intel math kernel library scalapack,lapack examples. Matsolvermumps a matrix type providing direct solvers lu and cholesky for distributed and sequential matrices via the external package mumps. All these related packages were associated with petsc based on the same version of compiler when we installed petsc on a specific hpc machine. Petsc fails on cluster could not find a functional blas. Preamble for reference purposes, the lapack installation provides an untuned version of the. Wiki and git repository covering the status and enablement of hpc software packages for the arm architecture. This page gives a number of intel math kernel library mkl examples, in particular calls to routines that are part of the scalapack group of routines.
In my experience of building and installing petsc on ubuntu and centos, i found out that the procedure for installing petsc is often quite difficult, especially when using intel compilers. Scalapack is a library of highperformance linear algebra routines for distributedmemory messagepassing mimd computers. Replaced download fblaslapack1 with download f2cblaslapack1 in the petsc config command installed mumps and scalapack through homebrew using. In my experience of building and installing petsc on ubuntu and centos, i found. Instructions for download can be found on petsc website. But petsc doesnt provide interface to these packages they are provides to satisfy dependencies of some externalpackages for eg. If i compare results for typical model poisson equation, 220220220 cells, pretty sparse matrix, kspbcgs i dont see any improvements. Operations are performed on distributedmatrix objects which can be easily created whilst hiding all the nasty details of block cyclic distribution. Intels threaded math kernel library mkl is a set of math libraries containing optimized blas, lapack, scalapack, fft and other routines in the lc linux environment. Installation of petsc on os x with already compiled mumps. Petsc is developed as opensource software and can be downloaded from the argonne national laboratory. If you have a clean environment not working mpiblaslapack, then run.
Download the all the scalapack precompiled binaries. The compilation of petsc codes is deeply related to other packages, such as lapackblas and mpi implementations openmpi, mvapich or mpich. Versions and availability display softenv keys for scalapack. Please, visit petsc website for advanced configuration options. I have a running code for sequential computing but it is too slow.
These variables can be set as envirnment variables or specified on the command line to both configure and make. Petsc, pronounced petsee the s is silent, is a suite of data structures and routines for the scalable parallel solution of scientific applications modeled by partial differential equations. Petsc sometimes called petsc tao also contains the tao optimization software library. Some are specialized to certain application areas, others are quite general. Features highly optimized, threaded, and vectorized math functions that maximize performance on each processor. These atomic operations may be linear algebra operations, eigenvalue problems, interpolation, integration. Scalapack supports routines for the systems of equations with the following types of matrices. File names of the precomputed debug libraries end with the letter d e. For best parallel execution mumps and scalapack are recommended. For petgem executions, petsc must be build for complexvalued numbers. In this section we will take a brief look at the petsc library for sparse matrix computations, and the blaslapack libraries for dense computations. Routines are supported for both real and complex dense and band matrices to perform the tasks of solving systems of linear equations, solving linear leastsquares problems, eigenvalue and singular value problems, as well as performing a number of related computational tasks.
Scalapack solves dense and banded linear systems, least squares problems, eigenvalue problems, and singular value problems, and is designed to. An exemplary configure line for petsc is download and unpack petsc. After quite a few attempts, i was finally successful. Scalapack for python scalapy scalapy is a wrapping of scalapack such that it can be called by python in a friendly manner. It supports mpi, and gpus through cuda or opencl, as well as hybrid mpigpu parallelism. So, in this blog, i am sharing my recent efforts at the installation of petsc library. Installing petsc using intel compilers chennakesava kadapa. Im trying to systematize the compilation of freefem in my machines, making it as clean as possible, and id like to build freefem using my own petsc and slepc builds installed in custom prefixes, but i wasnt able to. We suggest using the online documentation and only recommend using this download if you have no or very slow internet access. Intel math kernel library implements routines from the scalapack package for distributedmemory architectures. The easiest way to configure petsc for damask is to let petsc download and install all. Petsc extensible toolkit for scientific computation petsc. You might also consider using downloadscalapack instead.