<html>
<head>
<base href="http://fiji.sc/bugzilla/" />
</head>
<body><table border="1" cellspacing="0" cellpadding="8">
<tr>
<th>Bug ID</th>
<td><a class="bz_bug_link
bz_status_NEW "
title="NEW - threshold "red" display wrong /treshold upper/lower values not updated"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=966">966</a>
</td>
</tr>
<tr>
<th>Summary</th>
<td>threshold "red" display wrong /treshold upper/lower values not updated
</td>
</tr>
<tr>
<th>Product</th>
<td>Fiji
</td>
</tr>
<tr>
<th>Version</th>
<td>unspecified
</td>
</tr>
<tr>
<th>Hardware</th>
<td>PC
</td>
</tr>
<tr>
<th>OS</th>
<td>Windows
</td>
</tr>
<tr>
<th>Status</th>
<td>NEW
</td>
</tr>
<tr>
<th>Severity</th>
<td>normal
</td>
</tr>
<tr>
<th>Priority</th>
<td>P4
</td>
</tr>
<tr>
<th>Component</th>
<td>Plugins
</td>
</tr>
<tr>
<th>Assignee</th>
<td>imagej-bugs@imagej.net
</td>
</tr>
<tr>
<th>Reporter</th>
<td>felix.keber@tum.de
</td>
</tr>
<tr>
<th>CC</th>
<td>felix.keber@tum.de
</td>
</tr></table>
<p>
<div>
<pre>Hello,
I was measuring areas limited to threshold on 16bit image stacks (to imagine
the data: circular gradients, white on black), updated version today. I
realized that the measured area was far smaller than the one highlighted red in
the image.
I found out that the highest possible value of the min-max-sliders of the
threshold-dialogue-box does not belong to the actual image (and also not to the
actual stack). It changes to proper values only when i use "stack histogram"
(or after that un-select "stack histogram" to get the values for the actual
slice). Closing and re-opening the threshold-dialogue-box also does not help.
The values also are not actualized when setting a new minimum/maximum value via
the sliders (using "set" updates them). However, changing the maximum slider
(just by one step) updates the look-up table, so not the entire area is
highlighted red.
The problem may occur because of changing between different image stacks. (I
was clicking around now a bit and it happens quite sometimes, but i couldn't
find out when exactly.)
I don't mind the values stay the same, this is just inconvenient -updating the
stack histogram fixes it. But i think it is a big problem that the red
highlighted region is not the thresholded region. If the the wrong value is not
too far from the true one, it is hard for the user to realize that not the
dispayed region is evaluated.
Best regards & big thanks for developing this software,
Felix
Information about your version of Java:
os.arch => amd64
os.name => Windows 7
os.version => 6.1
java.version => 1.6.0_24
java.vendor => Sun Microsystems Inc.
java.runtime.name => Java(TM) SE Runtime Environment
java.runtime.version => 1.6.0_24-b07
java.vm.name => Java HotSpot(TM) 64-Bit Server VM
java.vm.version => 19.1-b02
java.vm.vendor => Sun Microsystems Inc.
java.vm.info => mixed mode
java.awt.graphicsenv => sun.awt.Win32GraphicsEnvironment
java.specification.name => Java Platform API Specification
java.specification.version => 1.6
sun.cpu.endian => little
sun.desktop => windows
file.separator => \
The up-to-date check says: UP_TO_DATE
Information relevant to JAVA_HOME related problems:
JAVA_HOME is set to: D:\Fiji\Fiji.app/java/win64/jdk1.6.0_24//jre
imagej.dir => D:\Fiji\Fiji.app
Information about the version of each plugin:
Activated update sites:
ImageJ: <a href="http://update.imagej.net/">http://update.imagej.net/</a> (last check:20141126221327)
Fiji: <a href="http://fiji.sc/update/">http://fiji.sc/update/</a> (last check:20141125171145)
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plugins/CellEvaluator(RC)_110408/start/TestForms.class
9fbc7832 (LOCAL_ONLY) 20111005161434 plugins/Convolve_3D.class
b0398adb (LOCAL_ONLY) 20141030144727
plugins/DeconvolutionLab/DeconvolutionLab_.jar
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6e2d972f (LOCAL_ONLY) 20110131152158 plugins/Graphics/Example_Plot.class
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1f12fc21 (LOCAL_ONLY) 20130605111404 plugins/IntSeg_3D.jar
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f6bf2cd7 (LOCAL_ONLY) 20140107103743 plugins/PIV_.jar
6abd874e (MODIFIED) 20140107110340 plugins/PIV_analyser.jar
52d191ec (LOCAL_ONLY) 20141030151849 plugins/PSFGenerator.txt
f42051e2 (LOCAL_ONLY) 20111005154412 plugins/PSF_Generator.jar
68fa4608 (LOCAL_ONLY) 20140904180050 plugins/Radial_Profile.class
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plugins/Script_Editor-2.0.0-SNAPSHOT.jar
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plugins/iso/PeriodicBackgroundRemover_.class
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bd0700ae (LOCAL_ONLY) 20110403225048 plugins/iso/TouchinessIndexer_.class
7d5b3965 (LOCAL_ONLY) 20140107103745 plugins/javacv.jar
90915f54 (LOCAL_ONLY) 20140107103747 plugins/jna.jar
d3260180 (LOCAL_ONLY) 20110527180500 scripts/Record_Desktop.py
0ea7f8fc (LOCAL_ONLY) 20110527180500 scripts/Record_Window.py</pre>
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