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installation-osx-0.9.7-highsierra.html
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<h1>Topology ToolKit</h1>
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<span class="subheading">OSX Installation</span>
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Please find below detailed instructions for the installation of TTK under
MacOS.<br><br>
TTK is also supported on other operating systems:<br>
·
<a href="installation.html">
Linux installation instructions</a> (default target platform);
<br>
·
<a href="installation-windows.html">
Windows installation instructions</a>.<br><br>
If you are an advanced user and you do not wish to install ParaView (TTK's
main user interface), you
still
have the possibility to install TTK without ParaView support (although we
highly recommend to activate it).<br>
In that case, simply
download TTK as describded in section 1, install the dependencies as detailed
in
section 2 and finally, directly jump to section 6 (<i>"Configuring, building
and installing TTK"</i>). <br>
Examples showing how to use TTK libraries from your
own VTK code can be found
<a target="new"
href="https://github.com/topology-tool-kit/ttk/tree/dev/examples/vtk-c%2B%2B"
>on this page</a>.<br><br>
If you are an advanced user and you do not even wish to install VTK, you still
have the possibility to install TTK without VTK support (although we
highly recommend to activate it).<br>
In that case, simply download TTK as describded in section 1, install the
<b>optional</b> dependencies as detailed in
section 2 and finally, directly jump to section 6 (<i>"Configuring, building
and
installing TTK"</i>). <br>
Examples showing how to use TTK libraries from your own
C++ code can be found
<a target="new"
href="https://github.com/topology-tool-kit/ttk/tree/dev/examples/c%2B%2B"
>on this page</a>.<br>
<br>
<b>Most users will want to activate TTK's ParaView support.</b><br><br>
This page describes installing TTK 0.9.7 on OSX, using High Sierra 10.13.6 and
ParaView 5.6.0. The key differences from the linux installation involve how
ParaView is compiled, installing certain dependencies, and setting up some of
the paths for OSX. The following assumes that the target is to compile with
OSX clang and uses homebrew for dependencies, including python3<br><br>
Note that these instructions are maintained for legacy purposes -- some
of the library versions may have changed as MacOS moved to Mojave.
Other versions of earlier software packages
may require slight variations in the installation procedure.
For earlier versions of both software packages, you may want to check out
previous versions of our installation notes for OSX: <br>
· <a href="installation-osx-0.9.6.html">TTK 0.9.6
with ParaView 5.5.2</a>.<br>
· <a href="installation-osx-0.9.5.html">TTK 0.9.5
with ParaView 5.5.0</a>.<br>
· <a href="installation-osx-0.9.4.html">TTK 0.9.3 (and 0.9.4)
with ParaView 5.4.1</a>.<br>
· <a href="installation-osx-0.9.2.html">TTK 0.9.2 with
ParaView 5.4.0</a>.<br>
<p><h3>1. Downloads</h3>
Note: The instructions for this step are identical to those on linux:<br><br>
TTK builds on top of <a href="http://www.paraview.org"
target="new">ParaView</a> for its main user interface. Thus, you will first
need to download
<a
href="http://www.paraview.org/paraview-downloads/download.php?submit=Download&
version=v5.6&type=source&os=all&downloadFile=ParaView-v5.6.0.tar.gz"
target="new">
ParaView 5.6.0's source code</a>.
Note
that TTK plugins for ParaView will only work with a version of ParaView
compiled from source. Thus, if you already installed ParaView with a binary
copy, you may need to un-install it before proceeding.
Next, download TTK from our <a
href="downloads.html">download page</a>.
</p>
<p><h3>2. Installing the dependencies</h3>
<h4>a) Required Dependencies</h4>
Using <a href="https://brew.sh/">homebrew</a>, install:
<ul>
<li> cmake (tested with 3.13.2) </li>
<li> qt5 (tested with 5.12.0) </li>
<li> python (tested with 3.7.1)<br/>
Note: For this installation, we have switched to python3 instead of python2. To map the default executable for python, please add <code>export PATH="/usr/local/opt/python/libexec/bin/:$PATH"</code> to either your <code>~/.bashrc</code>, <code>~/.bash_profile</code>, or other shell startup script.</li>
<li> vtk (tested with 8.1.2)<br/>
Note: we excluded building python2 with vtk so as to not have to install both python2 and python3. This required installing certain vtk dependencies separately that also excluded python2, including:
<ul>
<li>sip (tested with version 4.19.8)</li>
<li>pyqt (tested with version 5.10.1</li>
</ul>
Installing vtk will also install hdf5 as a dependency (that ParaView can make use of).
</ul>
Altogether, this required the following sequence of commands:<br><br>
<code>$ brew install cmake qt5 python</code><br>
<code>$ export PATH="/usr/local/opt/python/libexec/bin/:$PATH"</code><br>
<code>$ brew install sip --without-python@2</code><br>
<code>$ brew install pyqt --without-python@2</code><br>
<code>$ brew install vtk --with-python --with-qt --without-python@2</code><br><br>
<h4>b) Optional Dependencies</h4>
<h5>(i) ffmpeg:</h5>
Using homebrew, one can install optional packages for ParaView features with homebrew:
<ul>
<li> ffmpeg (tested with 4.1) </li>
</ul>
Using the command: <code>$ brew install ffmpeg</code><br><br>
<h5>(ii) OpenMP:</h5>
Using homebrew, one can also install OpenMP support for ParaView and TTK with homebrew:
<ul>
<li> libomp (tested with 7.0.0)</li>
</ul>
Using the command: <code>$ brew install libomp</code><br><br>
<h5>(iii) OSPRay:</h5>
And, in addition, one can install OSPRay and it's dependencies using:
<ul>
<li> mpich (tested with 3.3):<br>
<code>$ brew install mpich</code> </li>
<li>Download and expand ospray-1.7.3.x86_64.macosx.tar.gz from <a href="http://www.ospray.org/getting_ospray.html">http://www.ospray.org/getting_ospray.html</a>, to install:
<ul>
<li>Copy lib/cmake and lib/libospray* to /opt/local/lib</li>
<li>Copy include/* to /opt/local/include</li>
<li>Copy scripts to /opt/local/share/OSPRay-1.7.2</li>
<li>Copy bin and doc to /Applications/OSPRay</li>
</ul>
You may need to create some of the destination directories before copying. The above steps manually do the work that the *.dmg used to (but, this file is currently missing).
</li>
<li>Download and unpack embree-3.3.0.x86_64.pkg from <a href="https://embree.github.io/downloads.html">https://embree.github.io/downloads.html</a> (this installs in /opt/local and /Applications/Embree2).</li>
<li>Download and unpack tbb2019_20181203oss_mac.tgz from <a
href="https://github.com/01org/tbb/releases">https://github.com/01org/tbb/releases</a>. After expanding the .tgz, to install:
<ul>
<li>Copy lib/libtbb* to /opt/local/lib</li>
<li>Copy cmake/* to /opt/local/lib/cmake/tbb</li>
<li>Copy include/tbb to /opt/local/include</li>
</ul>
You may need to create some of the destination directories before copying.</li>
</ul>
After doing all of the above, you'll likely want to make sure that your commandline knows about ospray/embree/tbb, the easy fix for this is to add <code>export DYLD_LIBRARY_PATH="/opt/local/lib"</code> to your <code>~/.bashrc</code>.<br><br>
<h5>(iv) TTK optional dependencies:</h5>
Finally, in order to enjoy the complete set of TTK features, we also recommend installing the following, optional TTK dependencies:
<ul>
<li><a target="new" href="https://www.graphviz.org/">graphviz</a> (for graph drawing features) tested with version 2.40.1 on homebrew:<br>
<code>$ brew install graphviz</code></li>
<li><a target="new" href="https://scikit-learn.org/stable/index.html">scikit-learn</a> for Python3 (for data reduction features, version 0.19.0 or later). You can install this for python3 with pip:<br>
<code>$ pip install -U scikit-learn</code></li>
<li><a href="https://www.sqlite.org/" target="new">sqlite</a> (for cinema query features), tested with version 3.26.0 on homebrew:<br>
<code>$ brew install sqlite</code></li>
<li><a href="https://github.com/LLNL/zfp" target="new">ZFP</a> (for advanced compression support, version 0.5.4 or later), installed from source.</li>
<li><a href="https://zlib.net/" target="new">zlib</a> (for further compression support) tested with version 1.2.11 on homebrew:<br>
<code>$ brew install zlib</code></li>
</ul>
</p>
<p><h3>3. Preparing the sources</h3>
Note: The instructions for this step are identical to those on linux:<br><br>
Move the tarballs to a working directory (for instance called
<code>~/ttk</code>) and decompress them by entering the following commands in
a terminal (this assumes that you downloaded the tarballs to the
<code>~/Downloads</code> directory):<br><br>
<code>$ mkdir ~/ttk</code><br>
<code>$ mv ~/Downloads/ParaView-v5.6.0.tar.gz ~/ttk/</code><br>
<code>$ mv ~/Downloads/ttk-0.9.7.tar.gz ~/ttk/</code><br>
<code>$ cd ~/ttk</code><br>
<code>$ tar xvzf ParaView-v5.6.0.tar.gz</code><br>
<code>$ tar xvzf ttk-0.9.7.tar.gz</code><br><br>
You can delete the tarballs after the source trees have been decompressed by
entering the following commands:<br><br>
<code>$ rm ParaView-v5.6.0.tar.gz</code><br>
<code>$ rm ttk-0.9.7.tar.gz</code><br><br>
</p>
<p><h3>4. Patching the ParaView source tree</h3>
Note: The instructions for this step are identical to those on linux:<br><br>
In order to enjoy the complete set of TTK features, we
recommend at this stage to patch the ParaView source tree.
This step is
optional.
To proceed, go to
the patch directory and apply it as follows:<br><br>
<code>$ cd ~/ttk/ttk-0.9.7/paraview/patch</code><br>
<code>$ ./patch-paraview-5.6.0.sh ~/ttk/ParaView-v5.6.0/</code><br><br>
</p>
<p><h3>5. Configuring, building and installing ParaView</h3>
<h4>a) Configuration</h4>
To enter the configuration menu of ParaView's build, enter the following
commands:<br><br>
<code>$ cd ~/ttk/ParaView-v5.6.0/</code><br>
<code>$ mkdir build</code><br>
<code>$ cd build</code><br>
<code>$ ccmake ..</code> (on homebrew cmake there is no <code>cmake-gui</code>,
although you can install this separately from <a
href="https://cmake.org/download/">https://cmake.org/download/</a>)<br><br>
Then, press 'c' to configure and we'll edit some CMake flags:<br>
<code> · CMAKE_BUILD_TYPE=Release</code><br>
<code> · PARAVIEW_ENABLE_PYTHON=ON</code><br>
<code> · VTK_PYTHON_VERSION=3</code><br>
<code> · VTK_SMP_IMPLEMENTATION_TYPE=Sequential</code> (the default)<br>
<br>
You can also enable optional pieces, including:
<h5>(i) ffmpeg:</h5>
<code> · PARAVIEW_ENABLE_FFMPEG=ON</code><br>
<br>
<h5>(ii) OpenMP as the SMP implementation (support is experimental, but
both ParaView and TTK can use it):</h5>
<code> · VTK_SMP_IMPLEMENTATION_TYPE=OpenMP</code> (changed from the default
"Sequential")<br>
Note, after hitting 'c' to configure, cmake will now set a number of variables for you, including <code>OpenMP_CXX_FLAGS</code>, <code>OpenMP_CXX_LIBRARY</code>, <code>OpenMP_C_FLAGS</code>, <code>OpenMP_C_LIBRARY</code><br>
<br>
<h5>(iii) OSPRay (which requires TBB):</h5>
<code> · PARAVIEW_USE_OSPRAY=ON</code><br>
<code> · OSPRAY_INSTALL_DIR=/opt/local/lib</code> (this variable will show up and need to be set after setting <code>PARAVIEW_USE_OSPRAY=ON</code> and hitting 'c' to reconfigure.)<br>
<br>
<h5>(iv) TBB as the SMP implementation (which isn't necessary, but if you do not want to use OpenMP and you've installed OSPRay, then you have TBB too):</h5>
<code> · VTK_SMP_IMPLEMENTATION_TYPE=TBB</code> (changed from the default
"Sequential")<br>
Note, hitting 'c' to configure, cmake will also set <code>VTKm_ENABLE_TBB=ON</code> and should find all include dirs and libraries for TBB in /opt/local if you've installed it correctly.<br>
<br>
After specifying the above options, press 'c' to configure (wait a minute) and then press 't' for advanced mode to double check the above paths and/or fill in any flags that did not appear the first time. You may need to press 'c' again, which fills in some more paths. Once cmake is finished configuring, you should finalize everything by pressing 'g' to generate and exit.<br><br>
If you prefer to just run <code>cmake</code> as opposed to <code>ccmake</code> or <code>cmake-gui</code>, the following summarizes five possible installations:
<h5>(i) Basic </h5>
<code>$ cmake \<br>
-DCMAKE_BUILD_TYPE=Release \<br>
-DPARAVIEW_ENABLE_PYTHON=ON \<br>
-DVTK_PYTHON_VERSION=3 \<br>
..
</code><br>
<h5>(ii) Sequential + ffmpeg</h5>
<code>$ cmake \<br>
-DCMAKE_BUILD_TYPE=Release \<br>
-DPARAVIEW_ENABLE_PYTHON=ON \<br>
-DVTK_PYTHON_VERSION=3 \<br>
-DPARAVIEW_ENABLE_FFMPEG=ON \<br>
-DVTK_SMP_IMPLEMENTATION_TYPE=Sequential \<br>
..
</code><br>
<h5>(iii) OpenMP + ffmpeg</h5>
<code>$ cmake \<br>
-DCMAKE_BUILD_TYPE=Release \<br>
-DPARAVIEW_ENABLE_PYTHON=ON \<br>
-DVTK_PYTHON_VERSION=3 \<br>
-DPARAVIEW_ENABLE_FFMPEG=ON \<br>
-DVTK_SMP_IMPLEMENTATION_TYPE=OpenMP \<br>
..
</code><br>
<h5>(iv) OSPRay + TBB + ffmpeg</h5>
<code>$ cmake \<br>
-DCMAKE_BUILD_TYPE=Release \<br>
-DPARAVIEW_ENABLE_PYTHON=ON \<br>
-DVTK_PYTHON_VERSION=3 \<br>
-DPARAVIEW_ENABLE_FFMPEG=ON \<br>
-DVTK_SMP_IMPLEMENTATION_TYPE=TBB \<br>
-DPARAVIEW_USE_OSPRAY=ON \<br>
-DOSPRAY_INSTALL_DIR=/opt/local/lib \<br>
..
</code><br>
<h5>(v) OSPRay + OpenMP + ffmpeg</h5>
<code>$ cmake \<br>
-DCMAKE_BUILD_TYPE=Release \<br>
-DPARAVIEW_ENABLE_PYTHON=ON \<br>
-DVTK_PYTHON_VERSION=3 \<br>
-DPARAVIEW_ENABLE_FFMPEG=ON \<br>
-DVTK_SMP_IMPLEMENTATION_TYPE=OpenMP \<br>
-DPARAVIEW_USE_OSPRAY=ON \<br>
-DOSPRAY_INSTALL_DIR=/opt/local/lib \<br>
..
</code><br>
<br><br>
<h4>b) Build</h4>
Now you can start the compilation process by entering the following command,
where <code>N</code> is the number of available cores on your system (this will
take a <b>LONG</b> time):<br><br>
<code>$ make -jN</code><br><br>
<h4>c) Installation</h4>
Once the build is finished, we recommend that you do <strong>not</strong> use
<code>make install</code>. We will work directly in the build directory for
the source tree instead of trying to package up a MacOS .app file in
<code>/Applications</code>. We'll need to manually make a directory for
this:<br><br>
<code>$ mkdir
~/ttk/ParaView-v5.6.0/build/bin/paraview.app/Contents/MacOS/plugins</code><br>
</p>
<p>
<h3>6. Configuring, building and installing TTK</h3>
<h4><a name="ttkConfig">a)</a> Configuration</h4>
To enter the configuration menu of TTK's build, enter the following
commands:<br><br>
<code>$ cd ~/ttk/ttk-0.9.7/</code><br>
<code>$ mkdir ttk_install</code> (for installing standalone apps)<br>
<code>$ mkdir build</code><br>
<code>$ cd build</code><br>
<code>$ ccmake ..</code><br><br>
The configuration window opens. Press 'c' to configure, and you'll see that it
cannot yet find ParaView. First, we'll fix this:<br><br>
<code> · ParaView_DIR=~/ttk/ParaView-v5.6.0/build/</code><br><br>
Press 'c' again to configure (you can ignore the warnings). Also note that
<code>VTK_DIR</code> should automatically be set to the homebrew installation
of VTK (<code>/usr/local/lib/cmake/vtk-8.1</code>). Next, change:<br><br>
<code> · CMAKE_BUILD_TYPE=Release</code><br>
<code> · CMAKE_INSTALL_PREFIX=~/ttk/ttk-0.9.7/ttk_install</code
><br>
(this is where standalone apps and
other TTK components are installed)<br>
<code> · TTK_INSTALL_PLUGIN_DIR=<br>~/ttk/ParaView-v5.6.0/build/bin/paraview.app/Contents/MacOS/plugins</code><br>
(this is where ParaView plugins are
installed)<br>
<code> · PYTHON_NUMPY_INCLUDE_DIR=<br>/usr/local/lib/python3.7/site-packages/numpy/core/include</code><br>
(this should be where
homebrew's python3 installs numpy, which our CMake script does not yet
detect)<br>
<br>
If you are an advanced user and you do not wish to activate TTK's ParaView
support, set the CMake variable <code>TTK_BUILD_PARAVIEW_PLUGINS</code> to
<code>OFF</code>.
Examples showing how to use TTK libraries from your
own VTK code can be found
<a target="new"
href="https://github.com/topology-tool-kit/ttk/tree/dev/examples/vtk-c%2B%2B"
>on this page</a>.<br>
Press 'c' to reconfigure (again takes a few seconds) and then press 'g' to
generate.<br><br>
If you are an advanced user and you do not even wish to activate TTK's VTK
support, set the CMake variables
<!-- NOT NEEDED AFTER RELEASE 0.9.7 -->
<code>TTK_BUILD_STANDALONE_APPS</code> and
<!-- END OF NOT NEEDED -->
<code>TTK_BUILD_VTK_WRAPPERS</code> to <code>OFF</code>.
Examples showing how to use TTK libraries from your own
C++ code can be found
<a target="new"
href="https://github.com/topology-tool-kit/ttk/tree/dev/examples/c%2B%2B"
>on this page</a>.<br>
Press 'c' to reconfigure (again takes a few seconds) and then press 'g' to
generate.<br><br>
<!--Note that you can enable building certain portions of TTK at this time
as well by switching the flags associated with each (e.g.
TTK_BUILD_PARAVIEW_PLUGINS, TTK_BUILD_STANDALONE_APPS, etc.). -->
Finally, if you'd like to try out OpenMP (again, experimental), you would
add:<br>
<code> · TTK_ENABLE_OPENMP=ON</code><br>
<code> · OpenMP_CXX_FLAGS="-Xclang -fopenmp -I/usr/local/opt/libomp/include"</code><br>
<code> · OpenMP_CXX_LIB_NAMES=omp</code><br>
<code> · OpenMP_omp_LIBRARY=/usr/local/opt/libomp/lib/libomp.dylib</code><br>
<br>
Press 'c' to reconfigure (again takes a few seconds) and then press 'g' to
generate.<br><br>
If you prefer to just run <code>cmake</code> as opposed to <code>ccmake</code>
or <code>cmake-gui</code>, the following summarizes the two possible
installations:
<h5>(i) Basic TTK</h5>
<code>$ cmake \<br>
-DParaView_DIR=~/ttk/ParaView-v5.6.0/build/ \<br>
-DCMAKE_BUILD_TYPE=Release \<br>
-DCMAKE_INSTALL_PREFIX=~/ttk/ttk-0.9.7/ttk_install \<br>
-DTTK_INSTALL_PLUGIN_DIR=~/ttk/ParaView-v5.6.0/build/bin/paraview.app/Contents/MacOS/plugins \<br>
-DPYTHON_NUMPY_INCLUDE_DIR=/usr/local/lib/python3.7/site-packages/numpy/core/include \<br>
..
</code><br>
<h5>(ii) TTK + OpenMP</h5>
<code>$ cmake \<br>
-DParaView_DIR=~/ttk/ParaView-v5.6.0/build/ \<br>
-DCMAKE_BUILD_TYPE=Release \<br>
-DCMAKE_INSTALL_PREFIX=~/ttk/ttk-0.9.7/ttk_install \<br>
-DTTK_INSTALL_PLUGIN_DIR=~/ttk/ParaView-v5.6.0/build/bin/paraview.app/Contents/MacOS/plugins \<br>
-DPYTHON_NUMPY_INCLUDE_DIR=/usr/local/lib/python3.7/site-packages/numpy/core/include \<br>
-DTTK_ENABLE_OPENMP=ON \<br>
-DOpenMP_CXX_FLAGS="-Xclang -fopenmp -I/usr/local/opt/libomp/include" \<br>
-DOpenMP_CXX_LIB_NAMES=omp \<br>
-DOpenMP_omp_LIBRARY=/usr/local/opt/libomp/lib/libomp.dylib \<br>
..
</code><br>
<br><br>
<h4>b) Build</h4>
Now you can start the compilation process by entering the following command,
where <code>N</code> is the number of available cores on your system:<br><br>
<code>$ make -jN</code><br><br>
<h4>c) Installation</h4>
Once the build is finished, enter the following command to install your build
of TTK into your ParaView installation:<br><br>
<code>$ make install</code><br><br>
Note that in addition to copying the TTK plugins to your ParaView installation
(<code>TTK_INSTALL_PLUGIN_DIR</code>), the above command also installed a
collection of standalone TTK programs to <code>CMAKE_INSTALL_PREFIX</code>.
These can be used outside of ParaView, either as command line tools or
VTK-based graphical user interfaces. To list them:<br><br>
<code>$ ls CMAKE_INSTALL_PREFIX/bin/*Cmd</code><br>
<code>$ ls CMAKE_INSTALL_PREFIX/bin/*Gui</code><br><br>
Replacing <code>CMAKE_INSTALL_PREFIX</code> with what we used above.<br><br>
Finally, to make sure the example data files are included in the right path,
you have to manually copy the example data into the ParaView .app as
well:<br><br>
<code>$ cd ~/ttk/ttk-0.9.7/paraview/patch/data</code><br>
<code>$ mkdir -p ~/ttk/ParaView-v5.6.0/build/bin/paraview.app/Contents/share/paraview-5.6/examples</code><br>
<code>$ cp * ~/ttk/ParaView-v5.6.0/build/bin/paraview.app/Contents/share/paraview-5.6/examples</code><br>
<br>
</p>
<p>
<h3>7. Checking your TTK installation</h3>
If you applied all the above steps successfully (including step 4), you can now
open a terminal and type the following command to load your TTK-patched
ParaView:<br><br>
<code>$ cd
~/ttk/ParaView-v5.6.0/build/bin/paraview.app/Contents/MacOS/</code><br><br>
<code>$ ./paraview</code><br><br>
At this point, everything from the standard installation procedure should be accessible. Congrats!
</p>
<p>
Now, please visit our <a href="tutorials.html">tutorial</a> page to watch video
tutorials showing how to use TTK with ParaView with concrete examples and how
to
use it from your own Python or C++ code or how to extend TTK by writing up your
own module!
</p>
</div>
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