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<h2>Prerequisite packages</h2>
<p>
To download, build and run the <code>shasta</code> software on a
Ubuntu (16.04, 18.04, 20.04) or macOS (10.14, 10.15) machine, the following packages are required:
<table>
<tr>
<th>Package
<th>Ubuntu package name
<th>Needed<br>to build<br>from<br>source?
<th>Needed<br>to run<br>assembly?
<th>Used by<br>http server?
<th>Comments
<tr>
<td>Git
<td>git
<td>
<td>
<td>
<td>Only needed to get the source code from GitHub.
<tr>
<td>The g++ compiler
<td>g++
<td style='text-align:center'>✔
<td style='text-align:center'>✔
<td style='text-align:center'>✔
<td>Runtime libraries only needed at run time.
<tr>
<td>Cmake
<td>cmake
<td style='text-align:center'>✔
<td>
<td>
<td>
<tr>
<td>The Boost libraries
<td>libboost-dev
<td style='text-align:center'>✔
<td>
<td>
<td>
<tr>
<td>Graphviz
<td>graphviz
<td>
<td>
<td style='text-align:center'>✔
<td>Used for graph layout.
<tr>
<td>Blast
<td>ncbi-blast+
<td>
<td>
<td style='text-align:center'>✔
<td>Used by the http server for interactively computing alignments.
<tr>
<td>Python 3
<td>python3
<td style='text-align:center'>✔
<td style='text-align:center'>✔
<td style='text-align:center'>✔
<td>
<tr>
<td>pip3
<td>pip3
<td>
<td>
<td>
<td>Only needed to install <code>pybind11</code> (see below)
<tr>
<td>Pybind11
<td>pybind11 (pip3 package)
<td style='text-align:center'>✔
<td>
<td>
<td>Used to provide Python bindings to C++ code.
<tr>
<td>The png library
<td>libpng-dev
<td style='text-align:center'>✔
<td style='text-align:center'>✔
<td style='text-align:center'>✔
<td>Used to display marker alignments in the http server. But it is a dependency of <code>shasta.so</code>, so it must be installed whether it is used or not.
<tr>
<td>SeqAn 2.4.0
<td>
<td style='text-align:center'>✔
<td>
<td>
<td>See <code>InstallPrerequisites-Ubuntu.sh</code> & <code>InstallPrerequisites-macOS.sh</code> for installation from GitHub.
<tr>
<td>SPOA 3.4.0
<td>
<td style='text-align:center'>✔
<td>
<td>
<td>See <code>InstallPrerequisites-Ubuntu.sh</code> & <code>InstallPrerequisites-macOS.sh</code> for installation from GitHub.
</table>
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