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1 2 3 | <html><head><meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1"><title>mia-3dfluid</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="SecRegistrationComparisonandTransformationof3Dimages.html" title="Registration, Comparison, and Transformation of 3D images"><link rel="prev" href="Secmia3ddeform.html" title="mia-3ddeform"><link rel="next" href="Secmia3dforce.html" title="mia-3dforce"></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-3dfluid</th></tr><tr><td width="20%" align="left"><a accesskey="p" href="Secmia3ddeform.html">Prev</a> </td><th width="60%" align="center">Registration, Comparison, and Transformation of 3D images</th><td width="20%" align="right"> <a accesskey="n" href="Secmia3dforce.html">Next</a></td></tr></table><hr></div><div class="section"><div class="titlepage"><div><div><h3 class="title"><a name="Secmia3dfluid"></a>mia-3dfluid</h3></div></div></div><h4><a name="idp11208"></a>Sysnopis:</h4><div class="cmdsynopsis"><p><code class="command">mia-3dfluid</code> {-i <em class="replaceable"><code>io</code></em>} {-r <em class="replaceable"><code>io</code></em>} {-o <em class="replaceable"><code>io</code></em>} [
<em class="replaceable"><code>options</code></em>
...]</p></div><h4><a name="idp11219"></a>Description:</h4><p>This program is used for non-rigid registration based on fluid dynamics as described in: Wollny, G. and Kruggel, F., 'Computational cost of non-rigid registration algorithms based on fluid dynamics', IEEE Transactions on Medical Imaging, 11(8), pp. 946-952, 2002, doi:10.1109/TMI.2002.803113. It uses SSD as the sole registration criterion.</p><h4><a name="idp11221"></a>Options:</h4><h4><a name="idp11222"></a>File-IO</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-i, --in-image=(input, required); io</span></dt><dd><p>input image. For supported file types see <a class="xref" href="SecPlugintype3dimageio.html" title="Plugin type: 3dimage/io">Plugin type: 3dimage/io</a></p></dd><dt><span class="term">-r, --ref-image=(input, required); io</span></dt><dd><p>reference image . For supported file types see <a class="xref" href="SecPlugintype3dimageio.html" title="Plugin type: 3dimage/io">Plugin type: 3dimage/io</a></p></dd><dt><span class="term">-o, --out-transformation=(output, required); io</span></dt><dd><p>output transformation comprising the registering transformation field. For supported file types see <a class="xref" href="SecPlugintype3dtransformio.html" title="Plugin type: 3dtransform/io">Plugin type: 3dtransform/io</a></p></dd><dt><span class="term">-d, --out-image=(output); io</span></dt><dd><p>save deformed image. For supported file types see <a class="xref" href="SecPlugintype3dimageio.html" title="Plugin type: 3dimage/io">Plugin type: 3dimage/io</a></p></dd></dl></div><h4><a name="idp11244"></a>Help & 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="idp11295"></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="idp11301"></a>Registration parameters</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">--disable-multigrid</span></dt><dd><p>disable multi-grid processing</p></dd><dt><span class="term">--disable-fullres</span></dt><dd><p>disable processing on the full resolution image</p></dd><dt><span class="term">--lambda=1; float</span></dt><dd><p>elasticy constantelasticy constant</p></dd><dt><span class="term">--mu=1; float</span></dt><dd><p>elasticy constantelasticy constant</p></dd><dt><span class="term">-s, --start-size=16; int</span></dt><dd><p>initial multigrided sizeinitial multigrided size</p></dd><dt><span class="term">-m, --method=sora; dict</span></dt><dd><p>method for solving PDE</p><div class="informaltable"><table class="informaltable" border="0"><colgroup><col class="c1"><col class="c2"></colgroup><tbody><tr><td align="left" valign="top">sor:</td><td align="left" valign="top">successive overrelaxation</td></tr><tr><td align="left" valign="top">sora:</td><td align="left" valign="top">Gauss Southwell relexation</td></tr></tbody></table></div></dd><dt><span class="term">--step=0.8; float</span></dt><dd><p>Initial stepsizeInitial stepsize</p></dd><dt><span class="term">-p, --interpolator=bspline:d=3; factory</span></dt><dd><p>image interpolator kernelimage interpolator kernel. For supported plug-ins see <a class="xref" href="SecPlugintype1dsplinekernel.html" title="Plugin type: 1d/splinekernel">Plugin type: 1d/splinekernel</a></p></dd><dt><span class="term">--relax=1; float</span></dt><dd><p>overrelaxation factor vor method soroverrelaxation factor vor method sor</p></dd><dt><span class="term">--maxiter=10; int</span></dt><dd><p>maximum iterationsmaximum iterations</p></dd><dt><span class="term">--epsilon=0.01; float</span></dt><dd><p>truncation conditiontruncation condition</p></dd><dt><span class="term">--matter=4; float</span></dt><dd><p>intensity above which real matter is assumed (experimental)intensity above which real matter is assumed (experimental)</p></dd></dl></div><h4><a name="idp11363"></a>Example:</h4><p>Register image test.v to image ref.v and write the deformation vector field regfield.v. Start registration at the smallest size above 16 pixel.</p><pre class="screen">mia-3dfluid -i test.v -r ref.v -o regfield.v -s 16</pre><h4><a name="idp11366"></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="Secmia3ddeform.html">Prev</a> </td><td width="20%" align="center"><a accesskey="u" href="SecRegistrationComparisonandTransformationof3Dimages.html">Up</a></td><td width="40%" align="right"> <a accesskey="n" href="Secmia3dforce.html">Next</a></td></tr><tr><td width="40%" align="left" valign="top">mia-3ddeform </td><td width="20%" align="center"><a accesskey="h" href="index.html">Home</a></td><td width="40%" align="right" valign="top"> mia-3dforce</td></tr></table></div></body></html>
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