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116.html
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116.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">
<!-- See: http://trac.edgewall.org/wiki/TracInterfaceCustomization -->
<head>
<title>
#116 (Document Bio-Formats usage with FARSIGHT)
– ImageJ
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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="116.html">Ticket #116</a>
<span class="status">(closed task: fixed)</span>
</h1>
<div id="ticket">
<div class="date">
<p>Opened 2010-06-28T16:12:17-05:00</p>
<p>Last modified 2011-01-14T15:14:21-06:00</p>
</div>
<h2 class="summary searchable">Document Bio-Formats usage with FARSIGHT</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">
hinerm
</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>biweekly-2010: Dec-13 to Dec-23</strike>
</td>
</tr><tr>
<th id="h_component">
Component:
</th>
<td headers="h_component">
FARSIGHT
</td>
<th id="h_version">
Version:
</th>
<td headers="h_version">
</td>
</tr><tr>
<th id="h_severity">
Severity:
</th>
<td headers="h_severity">
non-issue
</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">
</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">
</td>
<th>
</th>
<td>
</td>
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</table>
<div class="description">
<h3 id="comment:description">
Description
</h3>
<div class="searchable">
<p>
We have instructions for compiling Bio-Formats for use with ITK, but we would also like to document more specifically which FARSIGHT modules can make use of Bio-Formats, and current limitations (unsupported image types, architectures, etc.), including screenshots.<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 2010-06-28T16:14:35-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Status</strong>
changed from <em>new</em> to <em>accepted</em>
</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 2010-07-12T15:41:21-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>biweekly-2010: Jun-28 to Jul-09</em> to <em>biweekly-2010: Jul-12 to Jul-23</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 2010-07-20T15:00:14-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Priority</strong>
changed from <em>major</em> to <em>critical</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 2010-07-26T10:30:45-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>biweekly-2010: Jul-12 to Jul-23</em> to <em>biweekly-2010: Jul-26 to Aug-06</em>
</li>
</ul>
<div class="comment searchable">
</div>
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<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 2010-08-16T11:28:06-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>biweekly-2010: Jul-26 to Aug-06</em> to <em>biweekly-2010: Aug-09 to Aug-20</em>
</li>
</ul>
<div class="comment searchable">
</div>
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<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 2010-08-23T12:07:18-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Milestone</strong>
changed from <em>biweekly-2010: Aug-09 to Aug-20</em> to <em>biweekly-2010: Aug-23 to Sep-03</em>
</li>
</ul>
<div class="comment searchable">
<p>
I updated to the latest codebase (FTK, ITK, and VTK), got FARSIGHT to compile, and updated the CMake cache files in the FTK codebase accordingly. Next, I need to make some updates to the bf-itk project. Then I can take some screenshots documenting how Bio-Formats works in the FARSIGHT tools.<br />
</p>
</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 2010-08-24T14:39:16-05:00 by curtis
</h3>
<div class="comment searchable">
<p>
See also ticket <a class="closed ticket" href="169.html" title="task: Update bf-itk to work under the new project structure (closed: fixed)">#169</a>.<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 2010-09-17T17:50:22-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Owner</strong>
changed from <em>curtis</em> to <em>hiner</em>
</li><li>
<strong>Status</strong>
changed from <em>accepted</em> to <em>assigned</em>
</li><li>
<strong>Milestone</strong>
changed from <em>biweekly-2010: Sep-07 to Sep-17</em> to <em>biweekly-2010: Sep-20 to Oct-01</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 2010-09-22T13:15:28-05:00 by curtis
</h3>
<ul class="changes">
<li>
<strong>Owner</strong>
changed from <em>hiner</em> to <em>hinerm</em>
</li>
</ul>
<div class="comment searchable">
</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 2010-10-12T09:08:26-05:00 by hinerm
</h3>
<ul class="changes">
<li>
<strong>Status</strong>
changed from <em>assigned</em> to <em>accepted</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 2011-01-14T15:14:21-06:00 by hinerm
</h3>
<ul class="changes">
<li>
<strong>Status</strong>
changed from <em>accepted</em> to <em>closed</em>
</li><li>
<strong>Resolution</strong>
set to <em>fixed</em>
</li>
</ul>
<div class="comment searchable">
<p>
Step-by-step tutorials with images documenting the use of Bio-Formats with FARSIGHT modules (Nucleus Editor and Trace Editor) can now be found here:<br />
<a class="ext-link" href="http://www.farsight-toolkit.org/wiki/FARSIGHT_Tutorials/Building_Software/Bio-Formats"><span class="icon"> </span>http://www.farsight-toolkit.org/wiki/FARSIGHT_Tutorials/Building_Software/Bio-Formats</a><br />
</p>
<p>
The main limitation found concerns FARSIGHT, in that images must have an 8-bit unsigned pixel type. This was documented in ticket 246.<br />
</p>
</div>
</div>
</div>
</div>
</div>
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</body>
</html>