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1 2 3 | <html><head><meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1"><title>mia-2dsegmentcropbox</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="SecToolsforMyocardialPerfusionAnalysis.html" title="Tools for Myocardial Perfusion Analysis"><link rel="prev" href="Secmia2dseghausdorff.html" title="mia-2dseghausdorff"><link rel="next" href="Secmia2dsegseriesstats.html" title="mia-2dsegseriesstats"></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-2dsegmentcropbox</th></tr><tr><td width="20%" align="left"><a accesskey="p" href="Secmia2dseghausdorff.html">Prev</a> </td><th width="60%" align="center">Tools for Myocardial Perfusion Analysis</th><td width="20%" align="right"> <a accesskey="n" href="Secmia2dsegseriesstats.html">Next</a></td></tr></table><hr></div><div class="section"><div class="titlepage"><div><div><h3 class="title"><a name="Secmia2dsegmentcropbox"></a>mia-2dsegmentcropbox</h3></div></div></div><h4><a name="idp6861"></a>Sysnopis:</h4><div class="cmdsynopsis"><p><code class="command">mia-2dsegmentcropbox</code> {-i <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="idp6870"></a>Description:</h4><p>This program is used on a segmentation set and evaluates a bounding box that encloses the segmentation in all slices. This bounding box is then used to crop the original images, correct the segmentation and store a new segmentation set with the cropped images. The cropped images will be of the same type as the original images. If no segmentation is given in the set, the result is undefined.</p><h4><a name="idp6872"></a>Options:</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-i, --in-file=(input, required); string</span></dt><dd><p>input segmentation set</p></dd><dt><span class="term">-p, --override-imagepath</span></dt><dd><p>Instead of using the path of the image files as given in the segmentation set, assume the files are located in the current directory</p></dd><dt><span class="term">-o, --out-file=(output, required); string</span></dt><dd><p>output segmentation set</p></dd><dt><span class="term">-c, --cropped-base=crop; stringSTRING</span></dt><dd><p>Base name for the cropped image files, the file type and numbering will be based on the input image file type and numbering.</p></dd><dt><span class="term">-e, --enlarge=5; float</span></dt><dd><p>Enlarge the area around the obtained sbounding box by this number of pixels in each directionEnlarge the area around the obtained sbounding box by this number of pixels in each direction</p></dd></dl></div><h4><a name="idp6894"></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="idp6945"></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="idp6951"></a>Example:</h4><p>Evaluate the optimal cropping for a segmentation set segment.set and enlarge it by 3 pixels. Store the resulting set in the file cropped.set.</p><pre class="screen">mia-2dsegmentcropbox -i segment.set -o cropped.set -e 3</pre><h4><a name="idp6954"></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="Secmia2dseghausdorff.html">Prev</a> </td><td width="20%" align="center"><a accesskey="u" href="SecToolsforMyocardialPerfusionAnalysis.html">Up</a></td><td width="40%" align="right"> <a accesskey="n" href="Secmia2dsegseriesstats.html">Next</a></td></tr><tr><td width="40%" align="left" valign="top">mia-2dseghausdorff </td><td width="20%" align="center"><a accesskey="h" href="index.html">Home</a></td><td width="40%" align="right" valign="top"> mia-2dsegseriesstats</td></tr></table></div></body></html>
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