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<html><head><meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1"><title>mia-3ddistance</title><link rel="stylesheet" type="text/css" href="progref.css"><meta name="generator" content="DocBook XSL Stylesheets V1.79.1"><link rel="home" href="index.html" title="Mia Program Reference"><link rel="up" href="SecProcessingofseriesof2Dimagesina3Dfashionoutofcore.html" title="Processing of series of 2D images in a 3D fashion (out-of-core)"><link rel="prev" href="Secmia2dstackfilter.html" title="mia-2dstackfilter"><link rel="next" href="Secmiamultihist.html" title="mia-multihist"></head><body bgcolor="white" text="black" link="#0000FF" vlink="#840084" alink="#0000FF"><div class="navheader"><table width="100%" summary="Navigation header"><tr><th colspan="3" align="center">mia-3ddistance</th></tr><tr><td width="20%" align="left"><a accesskey="p" href="Secmia2dstackfilter.html">Prev</a> </td><th width="60%" align="center">Processing of series of 2D images in a 3D fashion (out-of-core)</th><td width="20%" align="right"> <a accesskey="n" href="Secmiamultihist.html">Next</a></td></tr></table><hr></div><div class="section"><div class="titlepage"><div><div><h3 class="title"><a name="Secmia3ddistance"></a>mia-3ddistance</h3></div></div></div><h4><a name="idp8642"></a>Sysnopis:</h4><div class="cmdsynopsis"><p><code class="command">mia-3ddistance</code>  {-i <em class="replaceable"><code>string</code></em>} {-r <em class="replaceable"><code>string</code></em>} {-o <em class="replaceable"><code>string</code></em>} [
          <em class="replaceable"><code>options</code></em>
        ...]</p></div><h4><a name="idp8653"></a>Description:</h4><p>This program takes two binary masks as input and evaluates the distance of one mask with respect to the other in voxel space. The output is given as text file with the coordinates of the source voxels and their distance to the reference mask. Correction for voxel size must be done after processing.</p><h4><a name="idp8655"></a>Options:</h4><h4><a name="idp8656"></a>File IO</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-i, --in-file=(input, required); string</span></dt><dd><p>input image(s) that contain the source pixel mask</p></dd><dt><span class="term">-r, --ref-file=(input, required); string</span></dt><dd><p>reference mask to evaluate the distance from</p></dd><dt><span class="term">-o, --out-file=(output, required); string</span></dt><dd><p>output file name</p></dd></dl></div><h4><a name="idp8670"></a>Help &amp; Info</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-V, --verbose=warning; dict</span></dt><dd><p>verbosity of output, print messages of given level and higher priorities. Supported priorities starting at lowest level are:</p><div class="informaltable"><table class="informaltable" border="0"><colgroup><col class="c1"><col class="c2"></colgroup><tbody><tr><td align="left" valign="top">info:</td><td align="left" valign="top">Low level messages</td></tr><tr><td align="left" valign="top">trace:</td><td align="left" valign="top">Function call trace</td></tr><tr><td align="left" valign="top">fail:</td><td align="left" valign="top">Report test failures</td></tr><tr><td align="left" valign="top">warning:</td><td align="left" valign="top">Warnings</td></tr><tr><td align="left" valign="top">error:</td><td align="left" valign="top">Report errors</td></tr><tr><td align="left" valign="top">debug:</td><td align="left" valign="top">Debug output</td></tr><tr><td align="left" valign="top">message:</td><td align="left" valign="top">Normal messages</td></tr><tr><td align="left" valign="top">fatal:</td><td align="left" valign="top">Report only fatal errors</td></tr></tbody></table></div></dd><dt><span class="term">--copyright=(); bool</span></dt><dd><p>print copyright information</p></dd><dt><span class="term">-h, --help=(); bool</span></dt><dd><p>print this help</p></dd><dt><span class="term">-?, --usage=(); bool</span></dt><dd><p>print a short help</p></dd><dt><span class="term">--version=(); bool</span></dt><dd><p>print the version number and exit</p></dd></dl></div><h4><a name="idp8721"></a>Processing</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">--threads=-1; int</span></dt><dd><p>Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).</p></dd></dl></div><h4><a name="idp8727"></a>Test</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">--self-test</span></dt><dd><p>run a self test</p></dd></dl></div><h4><a name="idp8733"></a>Example:</h4><p>Evaluate the distance of the mask given in the images srcXXXX.png to the mask given in refXXXX.png and save the result to distances.txt</p><pre class="screen">mia-3ddistance -i srcXXXX.png -r refXXXX.png -o distances.txt</pre><h4><a name="idp8736"></a>Author(s):</h4><p>Gert Wollny</p></div><div class="navfooter"><hr><table width="100%" summary="Navigation footer"><tr><td width="40%" align="left"><a accesskey="p" href="Secmia2dstackfilter.html">Prev</a> </td><td width="20%" align="center"><a accesskey="u" href="SecProcessingofseriesof2Dimagesina3Dfashionoutofcore.html">Up</a></td><td width="40%" align="right"> <a accesskey="n" href="Secmiamultihist.html">Next</a></td></tr><tr><td width="40%" align="left" valign="top">mia-2dstackfilter </td><td width="20%" align="center"><a accesskey="h" href="index.html">Home</a></td><td width="40%" align="right" valign="top"> mia-multihist</td></tr></table></div></body></html>

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