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1128.html
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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
<html xmlns="http://www.w3.org/1999/xhtml">
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<head>
<title>
#1128 (Unify ImgLib2 Histogram implementations)
– ImageJ
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<p style="margin: 0.4em">
NOTICE! This is a static HTML version of a legacy ImageJ Trac ticket.
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<div id="content" class="ticket">
<h1 id="trac-ticket-title">
<a href="1128.html">Ticket #1128</a>
<span class="status">(closed task: fixed)</span>
</h1>
<div id="ticket">
<div class="date">
<p>Opened 2012-04-19T12:53:47-05:00</p>
<p>Last modified 2013-05-28T10:43:54-05:00</p>
</div>
<h2 class="summary searchable">Unify ImgLib2 Histogram implementations</h2>
<table class="properties">
<tr>
<th id="h_reporter">Reported by:</th>
<td headers="h_reporter" class="searchable">
curtis
</td>
<th id="h_owner">Owned by:</th>
<td headers="h_owner">
aivar
</td>
</tr>
<tr>
<th id="h_priority">
Priority:
</th>
<td headers="h_priority">
critical
</td>
<th id="h_milestone">
Milestone:
</th>
<td headers="h_milestone">
<strike>imagej2-b7-ndim-data</strike>
</td>
</tr><tr>
<th id="h_component">
Component:
</th>
<td headers="h_component">
ImgLib2
</td>
<th id="h_version">
Version:
</th>
<td headers="h_version">
2.0.0-beta1
</td>
</tr><tr>
<th id="h_severity">
Severity:
</th>
<td headers="h_severity">
serious
</td>
<th id="h_keywords">
Keywords:
</th>
<td headers="h_keywords" class="searchable">
</td>
</tr><tr>
<th id="h_cc">
Cc:
</th>
<td headers="h_cc" class="searchable">
christian.dietz@…, Martin.Horn@…
</td>
<th id="h_blockedby">
Blocked By:
</th>
<td headers="h_blockedby">
</td>
</tr><tr>
<th id="h_blocking">
Blocking:
</th>
<td headers="h_blocking">
<a class="closed" href="1398.html" title="Recommended architecture changes [ndim-data]">#1398</a>
</td>
<th>
</th>
<td>
</td>
</tr>
</table>
<div class="description">
<h3 id="comment:description">
Description
</h3>
<div class="searchable">
<p>
There are currently multiple implementations of a histogram throughout ImgLib2 and KNIP. There is <a class="ext-link" href="https://github.com/imagej/imglib/blob/master/imglib2/algorithms/core/src/main/java/net/imglib2/algorithm/stats/Histogram.java"><span class="icon"> </span>one in net.imglib2.algorithm.stats</a>, as well as another in [net.imglib2.script.analysis].<br />
</p>
<p>
We need to fix up the net.imglib2.algorithm.stats.Histogram implementation to be flexible enough to cover all use cases. For example, it needs to support using any Iterable<T> rather than only Img<T> or RealCursor<T>.<br />
</p>
</div>
</div>
</div>
<div>
<h2 class="foldable">Change History</h2>
<div id="changelog">
<div class="change" id="trac-change-1">
<h3 class="change">
<span class="threading">
<span id="comment:1" class="cnum">
<a href="#comment:1">comment:1</a>
</span>
</span>
Changed 2012-06-01T15:40:46-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Blocking</strong>
<em>1203</em> added
</li>
</ul>
<div class="comment searchable">
</div>
</div>
<div class="change" id="trac-change-2">
<h3 class="change">
<span class="threading">
<span id="comment:2" class="cnum">
<a href="#comment:2">comment:2</a>
</span>
</span>
Changed 2012-07-12T17:27:03-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>imagej-2.0.0-beta3</em> to <em>imagej-2.0.0-beta4</em>
</li>
</ul>
<div class="comment searchable">
</div>
</div>
<div class="change" id="trac-change-3">
<h3 class="change">
<span class="threading">
<span id="comment:3" class="cnum">
<a href="#comment:3">comment:3</a>
</span>
</span>
Changed 2012-08-03T13:40:13-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>imagej-2.0.0-beta4</em> to <em>imagej-2.0.0-beta5</em>
</li>
</ul>
<div class="comment searchable">
</div>
</div>
<div class="change" id="trac-change-4">
<h3 class="change">
<span class="threading">
<span id="comment:4" class="cnum">
<a href="#comment:4">comment:4</a>
</span>
</span>
Changed 2012-08-22T12:40:10-05:00 by bdezonia
</h3>
<div class="comment searchable">
<p>
Note that there is a Histogram2D class in imglib2 OPS<br />
</p>
</div>
<div class="trac-lastedit ">
Last edited 2012-10-03T16:43:12-05:00
by bdezonia
</div>
</div>
<div class="change" id="trac-change-5">
<h3 class="change">
<span class="threading">
<span id="comment:5" class="cnum">
<a href="#comment:5">comment:5</a>
</span>
</span>
Changed 2012-09-07T13:04:44-05:00 by aivar
</h3>
<ul class="changes">
<li>
<strong>Owner</strong>
changed from <em>curtis</em> to <em>aivar</em>
</li><li>
<strong>Status</strong>
changed from <em>new</em> to <em>assigned</em>
</li>
</ul>
<div class="comment searchable">
<p>
These histogram implementations mix the basic idea of making a histogram with a means of traversing the image.<br />
</p>
<p>
The core value to histogram bin assignment should be refactored to use the new Binning class:<br />
</p>
<p>
<a class="ext-link" href="https://github.com/imagej/imglib/blob/master/imglib2/core/src/main/java/net/imglib2/Binning.java"><span class="icon"> </span>https://github.com/imagej/imglib/blob/master/imglib2/core/src/main/java/net/imglib2/Binning.java</a> <br />
</p>
<p>
Unfortunately the extant histogram variants involve a pass through the image. This is not very efficient if you want to find the image minimum and maximum and then build a histogram of values in that range. I added a ticket <a class="closed ticket" href="1384.html" title="enhancement: Create ImageStatistics class (closed: wontfix)">#1384</a>.<br />
</p>
</div>
</div>
<div class="change" id="trac-change-6">
<h3 class="change">
<span class="threading">
<span id="comment:6" class="cnum">
<a href="#comment:6">comment:6</a>
</span>
</span>
Changed 2012-09-07T13:06:01-05:00 by aivar
</h3>
<ul class="changes">
<li>
<strong>Blocked By</strong>
<em>1384</em> added
</li>
</ul>
<div class="comment searchable">
</div>
</div>
<div class="change" id="trac-change-7">
<h3 class="change">
<span class="threading">
<span id="comment:7" class="cnum">
<a href="#comment:7">comment:7</a>
</span>
</span>
Changed 2012-10-03T16:42:56-05:00 by bdezonia
</h3>
<div class="comment searchable">
<p>
Christian mentioned that there is also an OpsHistogram class in imglib2 OPS.<br />
</p>
</div>
</div>
<div class="change" id="trac-change-8">
<h3 class="change">
<span class="threading">
<span id="comment:8" class="cnum">
<a href="#comment:8">comment:8</a>
</span>
</span>
Changed 2012-10-10T15:31:34-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>imagej-2.0.0-beta6</em> to <em>imagej-2.0.0-beta7</em>
</li>
</ul>
<div class="comment searchable">
</div>
</div>
<div class="change" id="trac-change-9">
<h3 class="change">
<span class="threading">
<span id="comment:9" class="cnum">
<a href="#comment:9">comment:9</a>
</span>
</span>
Changed 2013-03-05T12:28:37-06:00 by bdezonia
</h3>
<ul class="changes">
<li>
<strong>Blocking</strong>
<em>1398</em> added; <em>1203</em> removed
</li><li>
<strong>Blocked By</strong>
<em>1384</em> removed
</li>
</ul>
<div class="comment searchable">
<p>
I have been doing some work on this for our most recent beta on imglib's histogram-stuff branch. Soon I'll share with others and solicit feedback.<br />
</p>
</div>
</div>
<div class="change" id="trac-change-10">
<h3 class="change">
<span class="threading">
<span id="comment:10" class="cnum">
<a href="#comment:10">comment:10</a>
</span>
</span>
Changed 2013-03-05T12:29:49-06:00 by bdezonia
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>imagej2-b8-analysis</em> to <em>imagej2-b7-ndim-data</em>
</li>
</ul>
<div class="comment searchable">
</div>
</div>
<div class="change" id="trac-change-11">
<h3 class="change">
<span class="threading">
<span id="comment:11" class="cnum">
<a href="#comment:11">comment:11</a>
</span>
</span>
Changed 2013-05-28T10:43:54-05:00 by bdezonia
</h3>
<ul class="changes">
<li>
<strong>Status</strong>
changed from <em>assigned</em> to <em>closed</em>
</li><li>
<strong>Resolution</strong>
set to <em>fixed</em>
</li>
</ul>
<div class="comment searchable">
<p>
The histogram changes I made are in Imglib's master branch in the Imglib2 algorithms subproject in the histogram subpackage. Further work is needed by users of Imglib to utilize the new histogram classes. Clsogin this ticket.<br />
</p>
</div>
</div>
</div>
</div>
</div>
</div>
</body>
</html>