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<section class="tex2jax_ignore mathjax_ignore" id="the-use-of-blas-and-lapack-in-petsc-and-external-libraries">
<span id="ch-blas-lapack"></span><h1>The Use of BLAS and LAPACK in PETSc and external libraries<a class="headerlink" href="#the-use-of-blas-and-lapack-in-petsc-and-external-libraries" title="Link to this heading">#</a></h1>
<ol class="arabic simple">
<li><p>BLAS 1 operations (and GPU equivalents) - vector operations such as <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Vec/VecNorm.html">VecNorm</a>()</span></code>, <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Vec/VecAXPY.html">VecAXPY</a>()</span></code>, and <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Vec/VecScale.html">VecScale</a>()</span></code> are used extensively in PETSc. Depending on the
simulation the size of the vectors may be from hundreds of entries to many millions.</p></li>
<li><p>BLAS 2 operations - dense matrix with vector operations, generally the dense matrices are very small.</p></li>
<li><p>Eigenvalue and SVD computations, generally for very small matrices</p></li>
<li><p>External packages such as MUMPS and SuperLU_DIST use BLAS 3 operations (and possibly BLAS 1 and 2). The
dense matrices may be of modest size, going up to thousands of rows and columns.</p></li>
</ol>
<p>For most PETSc simulations (that is not using certain external packages) using an optimized set of BLAS/LAPACK routines
only provides a modest improvement in performance. For some external packages using optimized BLAS/LAPACK can make a
dramatic improvement in performance.</p>
<section id="or-64-bit-blas-lapack-integers">
<h2>32 or 64-bit BLAS/LAPACK integers<a class="headerlink" href="#or-64-bit-blas-lapack-integers" title="Link to this heading">#</a></h2>
<p>BLAS/LAPACK libraries may use 32 or 64-bit integers. PETSc configure and compile handles this automatically
so long at the arguments to the BLAS/LAPACK routines are set to the type <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Sys/PetscBLASInt.html">PetscBLASInt</a></span></code>. The routine <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Sys/PetscBLASIntCast.html">PetscBLASIntCast</a></span></code>(<code class="docutils notranslate"><span class="pre"><a href="../manualpages/Sys/PetscInt.html">PetscInt</a></span></code>, <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Sys/PetscBLASInt.html">PetscBLASInt</a></span></code> *) casts
a <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Sys/PetscInt.html">PetscInt</a></span></code> to the BLAS/LAPACK size. If the BLAS/LAPACK size is not large enough it generates an error. For the vast majority of
simulations, even very large ones, 64-bit BLAS/LAPACK integers are not needed, even when 64-bit PETSc integers are used.</p>
<p>The configure
option <code class="docutils notranslate"><span class="pre">--with-64-bit-blas-indices</span></code> attempts to locate and use a 64-bit integer version of BLAS/LAPACK library. Except for MKL Cluster PARDISO,
most external packages do not support using
64-bit BLAS/LAPACK integers so if you are using such packages you cannot use 64-bit BLAS/LAPACK integers.</p>
<p>The configure options <code class="docutils notranslate"><span class="pre">--with-64-bit-indices</span></code> and <code class="docutils notranslate"><span class="pre">--with-64-bit-blas-indices</span></code> are independent. <code class="docutils notranslate"><span class="pre">--with-64-bit-indices</span></code> does not imply that the
BLAS/LAPACK libraries use 64 bit indices.</p>
</section>
<section id="shared-memory-blas-lapack-parallelism">
<h2>Shared memory BLAS/LAPACK parallelism<a class="headerlink" href="#shared-memory-blas-lapack-parallelism" title="Link to this heading">#</a></h2>
<p>Some BLAS/LAPACK libraries can make use of shared memory parallelism within the function calls, generally using OpenMP, or possibly PThreads.
If this feature is turned on, it is in addition to the MPI based parallelism that PETSc is using. Thus it can result in over-subscription of hardware resources. For example,
if a system has 16 cores and PETSc is run with an MPI size of 16 then each core is assigned an MPI process. But if the BLAS/LAPACK is running with
OpenMP and 4 threads per process this results in 64 threads competing to use 16 cores which will perform poorly.</p>
<p>If one elects to use both MPI parallelism and shared memory BLAS/LAPACK parallelism one should ensure they do not over subscribe the hardware
resources. Since PETSc does not natively use OpenMP this means that phases of the computation that do not use BLAS/LAPACK will be under-subscribed,
thus under-utilizing the system. For PETSc simulations which do not use external packages there is generally no benefit to using parallel
BLAS/LAPACK. The environmental variable <code class="docutils notranslate"><span class="pre">OMP_NUM_THREADS</span></code> can be used to set the number of threads used by each MPI process for its shared memory parallel BLAS/LAPACK. The additional
environmental variables <code class="docutils notranslate"><span class="pre">OMP_PROC_BIND</span></code> and <code class="docutils notranslate"><span class="pre">OMP_PLACES</span></code> may also need to be set appropriately for the system to obtain good parallel performance with
BLAS/LAPACK. The configure option <code class="docutils notranslate"><span class="pre">--with-openmp</span></code> will trigger PETSc to try to locate and use a parallel BLAS/LAPACK library.</p>
<p>Certain external packages such as MUMPS may benefit from using parallel BLAS/LAPACK operations. See the manual page <code class="docutils notranslate"><span class="pre"><a href="../manualpages/Mat/MATSOLVERMUMPS.html">MATSOLVERMUMPS</a></span></code> for details on
how one can restrict the number of MPI processes while running MUMPS to utilize parallel BLAS/LAPACK.</p>
</section>
<section id="available-blas-lapack-libraries">
<span id="ch-blas-lapack-avail-libs"></span><h2>Available BLAS/LAPACK libraries<a class="headerlink" href="#available-blas-lapack-libraries" title="Link to this heading">#</a></h2>
<p>Most systems (besides Microsoft Windows) come with pre-installed BLAS/LAPACK which are satisfactory for many PETSc simulations.</p>
<p>The freely available Intel MKL mathematics libraries provide BLAS/LAPACK that are generally better performing than the system provided libraries
and are generally fine for most users.</p>
<p>For systems that do not provide BLAS/LAPACK, such as Microsoft Windows, PETSc provides the Fortran reference version
<code class="docutils notranslate"><span class="pre">--download-fblaslapack</span></code> and a f2c generated C version <code class="docutils notranslate"><span class="pre">--download-f2cblaslapack</span></code> (which also supports 128 bit real number computations).
These libraries are less optimized but useful to get started with PETSc easily.</p>
<p>PETSc also provides access to OpenBLAS via the <code class="docutils notranslate"><span class="pre">--download-openblas</span></code> configure option. OpenBLAS uses some highly optimized operations but falls back on reference
routines for many other operations. See the OpenBLAS manual for more information. The configure option <code class="docutils notranslate"><span class="pre">--download-openblas</span></code> provides a full BLAS/LAPACK implementation.</p>
<p>BLIS does not bundle LAPACK with it so PETSc’s configure attempts to locate a compatible system LAPACK library to use if <code class="docutils notranslate"><span class="pre">--download-blis</span></code> is
selected. One can use <code class="docutils notranslate"><span class="pre">--download-f2cblaslapack</span> <span class="pre">--download-blis</span></code>. This is recommended as a portable high-performance option. It is possible if you use <code class="docutils notranslate"><span class="pre">--download-blis</span></code> without <code class="docutils notranslate"><span class="pre">--download-f2cblaslapack</span></code> the BLIS library installed will <strong>not</strong> be used! Instead, PETSc will link in some LAPACK implementation and the BLAS that comes with that implementation!</p>
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