source.tex 25.1 KB
Newer Older
1
\section{Installing from Source}
2
\label{s:installation:source}
3

4
This section explains how to build Nektar++ from the source-code package.
5 6

Nektar++ uses a number of third-party libraries. Some of these are required,
7 8 9 10 11 12
others are optional. It is generally more straightforward to use versions of
these libraries supplied pre-packaged for your operating system, but if you run
into difficulties with compilation errors or failing regression tests, the
Nektar++ build system can automatically build tried-and-tested versions of these
libraries for you. This requires enabling the relevant options in the CMake
configuration.
13 14 15 16 17 18 19 20 21 22


\subsection{Obtaining the source code}
There are two ways to obtain the source code for \nekpp:
\begin{itemize}
	\item Download the latest source-code archive from the
	\href{http://www.nektar.info/downloads}{Nektar++ downloads page}.
	\item Clone the git repository
	\begin{itemize}
	\item Using anonymous access. This does not require
23 24 25
	credentials but any changes to the code cannot be pushed to the
	public repository. Use this initially if you would like to try using 
	Nektar++.
26 27 28 29 30 31 32 33
    \begin{lstlisting}[style=BashInputStyle]
        git clone http://gitlab.nektar.info/clone/nektar.git nektar++
    \end{lstlisting}
	\item Using authenticated access. This will allow you to directly contribute
	back into the code.
    \begin{lstlisting}[style=BashInputStyle]
        git clone git@gitlab.nektar.info:nektar.git nektar++
    \end{lstlisting}
34 35 36 37
    \begin{tipbox}
    You can easily switch to using the authenticated access from anonymous
    access at a later date.
    \end{tipbox}
38 39 40
	\end{itemize}
\end{itemize}

41
\subsection{Linux}
42
\subsubsection{Prerequisites}
43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90
\nekpp uses a number of external programs and libraries for some or all of its
functionality. Some of these are \emph{required} and must be installed prior to
compiling Nektar++, most of which are available as pre-built \emph{system}
packages on most Linux distributions or can be installed manually by a
\emph{user}. Others are optional and required only for specific features, or can
be downloaded and compiled for use with Nektar++ \emph{automatically} (but not
installed system-wide).

\begin{center}
\begin{tabular}{lccccl}
\toprule
Package & Req. & \multicolumn{3}{c}{Installation} & Note \\ \cline{3-5}
        &      & Sys. & User & Auto.              & \\
\midrule
C++ compiler    & \checkmark & \checkmark & & & gcc, icc, etc \\
CMake  $>2.8.7$ & \checkmark & \checkmark & \checkmark &            & Ncurses
GUI optional
\\
BLAS            & \checkmark & \checkmark & \checkmark &            & Or MKL,
ACML, OpenBLAS
\\
LAPACK          & \checkmark & \checkmark & \checkmark &            & \\
Boost $>1.49$   & \checkmark & \checkmark & \checkmark & \checkmark & Compile
with iostreams
\\
ModMETIS        & \checkmark &            &            & \checkmark & \\
FFTW $>3.0$     &            & \checkmark & \checkmark & \checkmark & For
high-performance FFTs\\
ARPACK $>2.0$   &            & \checkmark & \checkmark &            & For
arnoldi algorithms\\
OpenMPI         &            & \checkmark &            &            & For
parallel execution\\
GSMPI           &            &            &            & \checkmark & For
parallel execution\\
PetSC           &            &            & \checkmark & \checkmark &
Alternative linear solvers\\
Scotch          &            & \checkmark & \checkmark & \checkmark &
Alternative mesh partitioning\\
VTK $>5.8$      &         & \checkmark & \checkmark &            & Visualisation
utilities\\
\bottomrule
\end{tabular}
\end{center}

\begin{warningbox}
Boost version 1.51 has a bug which prevents \nekpp working correctly.
Please use a newer version.
\end{warningbox}
91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130


\subsubsection{Quick Start}
Open a terminal.

If you have downloaded the tarball, first unpack it:
\begin{lstlisting}[style=BashInputStyle]
    tar -zxvf nektar++-4.0.0.tar.gz
\end{lstlisting}
Change into the \inlsh{nektar++} source code directory
\begin{lstlisting}[style=BashInputStyle]
    mkdir -p build && cd build 
    ccmake ../
    make install
\end{lstlisting}

\subsubsection{Detailed instructions}
From a terminal:
\begin{enumerate}
    \item If you have downloaded the tarball, first unpack it
    \begin{lstlisting}[style=BashInputStyle]
    tar -zxvf nektar++-4.0.0.tar.gz
    \end{lstlisting}
    
    \item Change into the source-code directory, create a \inltt{build}
    subdirectory and enter it 
    \begin{lstlisting}[style=BashInputStyle]
    mkdir -p build && cd build
    \end{lstlisting}
    
    \item Run the CMake GUI and configure the build
    \begin{lstlisting}[style=BashInputStyle]
    ccmake ../
    \end{lstlisting}
    \begin{itemize}
        \item Select the components of Nektar++ (prefixed with
        \inltt{NEKTAR\_BUILD\_}) you would like to build. Disabling solvers
        which you do not require will speed up the build process.
        \item Select the optional libraries you would like to use (prefixed with
        \inltt{NEKTAR\_USE\_}) for additional functionality.
131 132 133
        \item Select the libraries not already available on your system which
        you wish to be compiled automatically (prefixed with 
        \inltt{THIRDPARTY\_BUILD\_})
134 135 136
    \end{itemize}
    A full list of configuration options can be found in
    Section~\ref{s:installation:source:cmake}.
137 138 139 140 141 142 143 144 145

    \begin{notebox}
    Selecting \inltt{THIRDPARTY\_BUILD\_} options will request CMake to
    automatically download thirdparty libraries and compile them within the
    \nekpp directory. If you have administrative access to your machine, it is
    recommended to install the libraries system-wide through your
    package-management system.
    \end{notebox}
    
146 147
    
    \item Press \inltt{c} to configure the build. If errors arise relating to
148 149 150
    missing libraries, review the \inltt{THIRDPARTY\_BUILD\_} selections in
    the configuration step above or install the missing libraries manually or
    from system packages.
151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174
    
    \item When configuration completes without errors, press \inltt{c} again
    until the option \inltt{g} to generate build files appears. Press \inltt{g}
    to generate the build files and exit CMake.
    
    \item Compile the code
    \begin{lstlisting}[style=BashInputStyle]
        make install
    \end{lstlisting}
    During the build, missing third-party libraries will be automatically
    downloaded, configured and built in the \nekpp \inlsh{build} directory.
    
    % Hacky way to get an lstlisting to an argument of a macro
    \newsavebox\installationLinuxTip
    \begin{lrbox}{\installationLinuxTip}\begin{minipage}{0.8\linewidth}
    \begin{lstlisting}[style=BashInputStyle]
    make -j4 install
    \end{lstlisting}
    \end{minipage}
    \end{lrbox}
    
    \begin{tipbox}
    If you have multiple processors/cores on your system, compilation can be
    significantly increased by adding the \inlsh{-jX} option to make, where X is
175 176
    the number of simultaneous jobs to spawn. For example, use
    
177
    \noindent\usebox\installationLinuxTip
178 179
    
    on a quad-core system.
180 181 182 183 184 185 186
    \end{tipbox}
    
    \item Test the build by running unit and regression tests.
    \begin{lstlisting}[style=BashInputStyle]
    ctest
    \end{lstlisting}
\end{enumerate}
187 188

\subsection{OSX}
189 190

\subsubsection{Prerequisites}
191 192 193 194 195 196 197 198 199
\nekpp uses a number of external programs and libraries for some or all of its
functionality. Some of these are \emph{required} and must be installed prior to
compiling Nektar++, most of which are available on \emph{MacPorts}
(www.macports.org) or can be installed manually by a \emph{user}. Others are
optional and required only for specific features, or can be downloaded and 
compiled for use with Nektar++ \emph{automatically} (but not installed
system-wide).

\begin{notebox}
200 201 202 203 204
To compile \nekpp on OSX, Apple's Xcode Developer Tools must be installed. They
can be installed either from the App Store (only on Mac OS 10.7 and above) or
downloaded directly from
\href{http://connect.apple.com/}{http://connect.apple.com/} 
(you are required to have an Apple Developer Connection account).
205 206 207
Xcode includes Apple implementations of BLAS and LAPACK (called the Accelerate
Framework).
\end{notebox}
208

209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245
\begin{center}
\begin{tabular}{lccccl}
\toprule
Package & Req. & \multicolumn{3}{c}{Installation} & Note \\ \cline{3-5}
        &      & MacPorts & User & Auto.              & \\
\midrule
Xcode           & \checkmark &            & & & gcc, icc, etc \\
CMake  $>2.8.7$ & \checkmark & \checkmark & \checkmark &            & Ncurses
GUI optional \\
BLAS            & \checkmark &            &            &            & Part of
Xcode \\
LAPACK          & \checkmark &            &            &            & Part of
Xcode \\
Boost $>1.49$   & \checkmark & \checkmark & \checkmark & \checkmark & Compile
with iostreams
\\
ModMETIS        & \checkmark &            &            & \checkmark & \\
FFTW $>3.0$     &            & \checkmark & \checkmark & \checkmark & For
high-performance FFTs\\
ARPACK $>2.0$   &            & \checkmark & \checkmark &            & For
arnoldi algorithms\\
OpenMPI         &            & \checkmark &            &            & For
parallel execution\\
GSMPI           &            &            &            & \checkmark & For
parallel execution\\
PetSC           &            & \checkmark & \checkmark & \checkmark &
Alternative linear solvers\\
Scotch          &            &            & \checkmark & \checkmark &
Alternative mesh partitioning\\
VTK $>5.8$      &            & \checkmark & \checkmark &            &
Visualisation utilities\\
\bottomrule
\end{tabular}
\end{center}

\newsavebox\installationOSXMacPortsTip
\begin{lrbox}{\installationOSXMacPortsTip}\begin{minipage}{0.8\linewidth}
246 247 248
\begin{lstlisting}[style=BashInputStyle]
sudo port install cmake
\end{lstlisting}
249 250 251 252 253 254 255 256 257
\end{minipage}
\end{lrbox}

\begin{tipbox}
CMake, and some other software, is available from MacPorts
(\url{http://macports.org}) and can be installed using, for example,

\noindent\usebox\installationOSXMacPortsTip
\end{tipbox}
258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291


\subsubsection{Quick Start}
Open a terminal (Applications->Utilities->Terminal).

If you have downloaded the tarball, first unpack it:
\begin{lstlisting}[style=BashInputStyle]
    tar -zxvf nektar++-4.0.0.tar.gz
\end{lstlisting}
Change into the \inlsh{nektar++} source code directory
\begin{lstlisting}[style=BashInputStyle]
    mkdir -p build && cd build 
    ccmake ../
    make install
\end{lstlisting}

\subsubsection{Detailed instructions}
From a terminal (Applications->Utilities->Terminal):
\begin{enumerate}
    \item If you have downloaded the tarball, first unpack it
    \begin{lstlisting}[style=BashInputStyle]
    tar -zxvf nektar++-4.0.0.tar.gz
    \end{lstlisting}

    \item Change into the source-code directory, create a \inltt{build}
    subdirectory and enter it 
    \begin{lstlisting}[style=BashInputStyle]
    mkdir -p build && cd build
    \end{lstlisting}
    
    \item Run the CMake GUI and configure the build
    \begin{lstlisting}[style=BashInputStyle]
    ccmake ../
    \end{lstlisting}
292 293
    Use the arrow keys to navigate the options and \inlsh{ENTER} to select/edit
    an option.
294 295 296 297 298 299
    \begin{itemize}
        \item Select the components of Nektar++ (prefixed with
        \inltt{NEKTAR\_BUILD\_}) you would like to build. Disabling solvers
        which you do not require will speed up the build process.
        \item Select the optional libraries you would like to use (prefixed with
        \inltt{NEKTAR\_USE\_}) for additional functionality.
300 301 302 303
        \item Select the libraries not already available on your system which
        you wish to be compiled automatically (prefixed with 
        \inltt{THIRDPARTY\_BUILD\_})
        \item 
304 305 306
    \end{itemize}
    A full list of configuration options can be found in
    Section~\ref{s:installation:source:cmake}.
307

308 309 310 311 312 313 314
    \begin{notebox}
    Selecting \inltt{THIRDPARTY\_BUILD\_} options will request CMake to
    automatically download thirdparty libraries and compile them within the
    \nekpp directory. If you have administrative access to your machine, it is
    recommended to install the libraries system-wide through MacPorts.
    \end{notebox}
    
315 316 317 318 319
    \item Press \inltt{c} to configure the build. If errors arise relating to
        missing libraries (variables set to \inlsh{NOTFOUND}), review the 
        \inltt{THIRDPARTY\_BUILD\_} selections in the previous
    step or install the missing libraries manually or through MacPorts. 
    
320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353
    \item When configuration completes without errors, press \inltt{c} again
    until the option \inltt{g} to generate build files appears. Press \inltt{g}
    to generate the build files and exit CMake.
    
    \item Compile the code
    \begin{lstlisting}[style=BashInputStyle]
        make install
    \end{lstlisting}
    During the build, missing third-party libraries will be automatically
    downloaded, configured and built in the \nekpp \inlsh{build} directory.
    
    % Hacky way to get an lstlisting to an argument of a macro
    \newsavebox\installationMacTip
    \begin{lrbox}{\installationMacTip}\begin{minipage}{0.8\linewidth}
    \begin{lstlisting}[style=BashInputStyle]
    make -j4 install
    \end{lstlisting}
    \end{minipage}
    \end{lrbox}
    
    \begin{tipbox}
    If you have multiple processors/cores on your system, compilation can be
    significantly increased by adding the \inlsh{-jX} option to make, where X is
    the number of simultaneous jobs to spawn. For example,
    \noindent\usebox\installationMacTip
    \end{tipbox}
    
    \item Test the build by running unit and regression tests.
    \begin{lstlisting}[style=BashInputStyle]
    ctest
    \end{lstlisting}
\end{enumerate}


354 355

\subsection{Windows}
356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375
The following software must be pre-installed on your system:
\begin{itemize}
\item Microsoft Visual Studio 2008
\begin{itemize} 
    \item Visual Studio 2008 Service Pack 1 is required
\end{itemize}
\item Python Compiler 2.7.2+ (download from
\url{http://www.http//python.org/download/}) 
\item CMake 2.8.7+ (download from \url{http://www.cmake.org/HTML/index.html})
\begin{itemize}
    \item When prompted, select the option to add CMake to the system PATH.
\end{itemize}
\item WinRAR (download from \url{http://www.rarlab.com/download.htm})
\end{itemize}

\newcommand{\nekver}{\input{../../VERSION}}
\subsubsection{Unpack the tarballs}
\begin{itemize}
\item Unpack the \inlsh{nektar++-\nekver.tar.gz} file using
WinRAR
376 377 378 379 380
\item Create a \inlsh{ThirdParty} directory within the
\inlsh{nektar++-\nekver} subdirectory.

\begin{notebox}
 Some windows version do not
381 382 383 384
 recognise the path of a folder which has '++' in the name. If you think that 
 your windows version can not handle path containing special characters, you 
 should rename \inlsh{nektar++-\nekver} to
 \inlsh{nektar-\nekver}.
385 386
 \end{notebox}
 
387 388 389
\end{itemize}

\subsubsection{Building ThirdParty libraries}
390 391
Download ThirdParty packages from \inlsh{www.nektar.info/thirdparty} as requried
below.
392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499 500 501 502 503 504 505 506 507 508 509 510 511 512 513 514 515 516
\begin{itemize}
\item \textbf{TinyXML} Extract the \inlsh{tinyxml\_2\_4\_3.zip} archive into
the ThirdParty directory using WinRAR. This will create a \inlsh{tinyxml}
sub-directory.
\item \textbf{Loki} Extract the \inlsh{loki-0.1.3.tar.bz2} archive into the
ThirdParty directory using WinRAR. This will create a \inlsh{loki-0.1.3}
sub-directory.
\item \textbf{Mod-METIS} Extract the \inlsh{modmetis-4.0.tar.bz2} archive
into the ThirdParty directory using WinRAR. This will create a
\inlsh{modmetis-4.0} sub-directory.
\begin{itemize}
  \item Open a command-line terminal and change to
   \inlsh{ThirdParty\textbackslash modmetis-4.0\textbackslash build}.
  \item Run
    \begin{lstlisting}[style=BashInputStyle]
    cmake ..\
    vcbuild "ModifiedMetis.sln"
    vcbuild "INSTALL.vcproj"
    \end{lstlisting}
\end{itemize}
\item \textbf{NIST SparseBLAS} Extract the \inlsh{spblastk0.9b} archive
into the ThirdParty directory using WinRAR. This will create a
\inlsh{spblastk0.9b} sub-directory.
\begin{itemize}
  \item From a command-line terminal change to
  \inlsh{ThirdParty\textbackslash spblastk0.9b\textbackslash build}.
  \item Run
    \begin{lstlisting}[style=BashInputStyle]
    cmake ..\
    vcbuild "NistSparseBlasToolkit.sln"
    vcbuild "INSTALL.vcproj"
    \end{lstlisting}
\end{itemize}
\item \textbf{BLAS/LAPACK} Extract the \inlsh{blaslapack-dll.zip} archive
into the ThirdParty directory using WinRAR. This will create
\inlsh{blas\_win32.*} and \inlsh{lapack\_win32.*} files in the ThirdParty
directory.

\item \textbf{ZLib} Extract the \inlsh{zlib-1.2.3.tar.bz2} archive using
WinRAR. This will create a \inlsh{zlib-1.2.3} sub-directory.

\item \textbf{Boost} Extract the \inlsh{boost\_1\_49\_0.tar.bz2} archive using
WinRAR. This will create a {{{boost\_1\_49\_0}}} sub-directory.
\begin{itemize}
  \item Open a command-line terminal and change to the \inlsh{boost\_1\_49\_0}
  directory and run:
    \begin{lstlisting}[style=BashInputStyle]
    bootstrap.bat
    b2.exe -s ZLIB_SOURCE=..\..\..\..\zlib-1.2.3 \ 
            --prefix=..\boost toolset=msvc-9.0 install
    \end{lstlisting}
\end{itemize}
\begin{notebox}
Boost might not be able to find the \inlsh{zlib-1.2.3} directory specified
by the relative path in the command line above. If this happens, you can 
replace the relative path with the absolute path of the \inlsh{zlib-1.2.3}
directory (surround it in quotes).
\end{notebox}
\end{itemize}

\subsubsection{Building Nektar++}
Change to the \inlsh{nektar++-\nekver\textbackslash builds} directory.
\begin{lstlisting}[style=BashInputStyle]
cmake ..\
vcbuild "Nektar++.sln"
vcbuild "INSTALL.vcproj"
\end{lstlisting}
To modify the default configuration use \inlsh{cmake -i ..\textbackslash} or use
the CMake-gui application.


\subsubsection{Notes on building on windows 7 64 bit with Visual Studio 10}
To get a build working on a windows 7 64 bit machine with VS10, the following
modifications were helpful or necessary:
\begin{itemize}
\item Instead of vcbuild (which doesn't exist in VS10) use msbuild. 
\item You may need to run \\ \inlsh{C:\textbackslash Program Files
(x86)\textbackslash Microsoft Visual Studio 10.0\textbackslash
VC\textbackslash vcvarsall.bat} \\ first to set up some registry entries to run
msbuild.
 Try without first.
\item You will probably wish to put msbuild into your path
\item project files created by cmake are likely to have the extension .vcxproj
 rather than .vcproj.
\item When running b2.exe, provide the full path to zlib. Not doing so will only
 cause an error later when running cmake for Nektar++ 
\item When running b2.exe, use toolset=msvc-10.0 instead of toolset=msvc-9.0
\item When using cmake for nektar++, it is helpful to use the cmake gui
\item Using the cmake gui, set the BOOST\_ROOT variable to the appropriate path
for boost * Set Boost\_USE\_STATIC\_LIBS = ON (I did this by editing
CMakeLists.txt, but setting it from the gui should work)
\item When running msbuild "Nektar++.sln" I got error can't find zlib.lib. As a
 workaround, copy the files zlibd.lib (two of them) and rename the copies zlib.lib. 
 However, I believe these are the debug builds, so it would be better to work 
 out how to build in release mode.
\item At this stage, when running msbuild "Nektar++.sln", I got boost link
errors.
 To fix them, look for the line
\begin{lstlisting}[style=BashInputStyle]
ADD_DEFINITIONS(-DBOOST_ALL_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK \
    -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_THREAD_DYN_LINK)
\end{lstlisting}
in the \inlsh{CMakeLists.txt} file and comment it out (and run cmake again) 
\item At this point, when building Nektar, linking against boost is fine, but I
got a compile error in TestData.cpp. This could be fixed by editing TestData.cpp
and replacing the line 
\begin{lstlisting}
m_doc = new TiXmlDocument(pFilename.file_string().c_str());
\end{lstlisting}
with
\begin{lstlisting}
m_doc =new TiXmlDocument(pFilename.string().c_str());
\end{lstlisting}
\end{itemize}

\begin{notebox}
The step of building INSTALL.vcproj causes executables and dlls to be copied
into a directory \inlsh{<path>\textbackslash
nektar\textbackslash builds-test\textbackslash dist\textbackslash bin}.
The executables should be run from here so that they can find the dlls they need.
\end{notebox}

If you wish to put a breakpoint in to step through Nektar++, you may need to run
from the folder the executable was built in so that the pdb files are in the
expected place. Then a workaround is to copy the dlls into that folder.
517 518

\subsection{CMake Option Reference}
519
\label{s:installation:source:cmake}
520 521 522 523 524 525 526 527 528 529 530 531 532 533 534 535 536 537
This section describes the main configuration options which can be set when
building Nektar++. The default options should work on almost all systems, but
additional features (such as parallelisation and specialist libraries) can be
enabled if needed.

\subsubsection{Components}
The first set of options specify the components of the Nektar++ toolkit to
compile. Some options are dependent on others being enabled, so the available
options may change.

Components of the \nekpp package can be selected using the following options:
\begin{itemize}
    \item \inlsh{NEKTAR\_BUILD\_DEMOS} (Recommended)
    
    Compiles the demonstration programs. These are primarily used by the
    regression testing suite to verify the \nekpp library, but also provide an
    example of the basic usage of the framework.

538 539 540 541 542 543 544
    \item \inlsh{NEKTAR\_BUILD\_DOC}

    Compiles the Doxygen documentation for the code. This will be put in
    \begin{lstlisting}[style=BashInputStyle]
    $BUILDDIR/doxygen/html
    \end{lstlisting}

545 546 547 548 549 550 551 552 553 554 555 556 557 558 559 560 561 562 563 564 565 566 567 568 569 570 571 572 573 574 575 576 577 578 579 580 581 582 583 584 585 586 587 588 589 590 591 592 593 594 595 596 597 598 599 600 601 602 603 604 605 606 607 608 609 610 611 612 613 614 615 616 617 618 619 620 621 622 623 624 625 626 627 628 629 630 631 632 633 634 635 636 637 638 639 640 641 642 643 644 645 646 647 648 649 650 651 652 653 654 655 656 657 658 659 660 661 662
    \item \inlsh{NEKTAR\_BUILD\_LIBRARY} (Required)
    
    Compiles the Nektar++ framework libraries. This is required for all other
    options.

    \item \inlsh{NEKTAR\_BUILD\_SOLVERS} (Recommended)
    
    Compiles the solvers distributed with the \nekpp framework.

    If enabling \inlsh{NEKTAR\_BUILD\_SOLVERS}, individual solvers can be
    enabled or disabled. See Chapter~\ref{s:solvers} for the list of available
    solvers. You can disable solvers which are not required to reduce
    compilation time. See the \inlsh{NEKTAR\_SOLVER\_X} option.

    \item \inlsh{NEKTAR\_BUILD\_TESTS} (Recommended)

    Compiles the testing program used to verify the \nekpp framework.

    \item \inlsh{NEKTAR\_BUILD\_TIMINGS}

    Compiles programs used for timing \nekpp operations.

    \item \inlsh{NEKTAR\_BUILD\_UNIT\_TESTS}

    Compiles tests for checking the core library functions.

    \item \inlsh{NEKTAR\_BUILD\_UTILITIES}

    Compiles utilities for pre- and post-processing simulation data.
    
    \item \inlsh{NEKTAR\_SOLVER\_X}
    
    Enabled compilation of the 'X' solver.
\end{itemize}

A number of ThirdParty libraries are required by \nekpp. There are also
optional libraries which provide additional functionality. These can be selected
using the following options:
\begin{itemize}
    \item \inlsh{NEKTAR\_USE\_BLAS\_LAPACK} (Required)
    
    Enables the use of Basic Linear Algebra Subroutines libraries for linear
    algebra operations.

    \item \inlsh{NEKTAR\_USE\_SYSTEM\_BLAS\_LAPACK} (Recommended)
    
    On Linux systems, use the default BLAS and LAPACK library on the system.
    This may not be the implementation offering the highest performance for your
    architecture, but it is the most likely to work without problem.
    
    \item \inlsh{NEKTAR\_USE\_OPENBLAS}
    
    Use OpenBLAS for the BLAS library. OpenBLAS is based on the Goto BLAS
    implementation and generally offers better performance than a non-optimised
    system BLAS. However, the library must be installed on the system.
    
    \item \inlsh{NEKTAR\_USE\_MKL}
    
    Use the Intel MKL library. This is typically available on cluster
    environments and should offer performance tuned for the specific cluster
    environment.
    
    \item \inlsh{NEKTAR\_USE\_MPI} (Recommended)
    
    Build Nektar++ with MPI parallelisation. This allows solvers to be run in
    serial or parallel.
    
    \item \inlsh{NEKTAR\_USE\_FFTW}
    
    Build Nektar++ with support for FFTW for performing Fast Fourier Transforms
    (FFTs). This is used only when using domains with homogeneous coordinate
    directions.
    
    \item \inlsh{NEKTAR\_USE\_ARPACK}
    
    Build Nektar++ with support for ARPACK. This provides routines used for
    linear stability analyses. Alternative Arnoldi algorithms are also
    implemented directly in Nektar++.
    
    \item \inlsh{NEKTAR\_USE\_VTK}
    
    Build Nektar++ with support for VTK libraries. This is only needed for
    specialist utilities and is not needed for general use.
    
    \begin{notebox}
    The VTK libraries are not needed for converting the output of simulations to
    VTK format for visualization as this is handled internally.
    \end{notebox}
\end{itemize}

The \inlsh{THIRDPARTY\_BUILD\_X} options select which third-party libraries are
automatically built during the \nekpp build process. Below are the choices of X:
\begin{itemize}
    \item \inlsh{BOOST}

    The \emph{Boost} libraries are frequently provided by the operating system,
    so automatic compilation is not enabled by default. If you do not have
    Boost on your system, you can enable this to have Boost configured
    automatically.

    \item \inlsh{GSMPI}
    
    (MPI-only) Parallel communication library.
    
    \item \inlsh{LOKI}
    
    An implementation of a singleton.
    
    \item \inlsh{METIS}
    
    A graph partitioning library used for substructuring of matrices and mesh
    partitioning when Nektar++ is run in parallel.
    
    \item \inlsh{TINYXML}
    
    Library for reading and writing XML files.
\end{itemize}