<html>
<head>
<base href="http://fiji.sc/bugzilla/" />
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<body><table border="1" cellspacing="0" cellpadding="8">
<tr>
<th>Bug ID</th>
<td><a class="bz_bug_link
bz_status_NEW "
title="NEW - Issue with opening 14 bit images"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=1033">1033</a>
</td>
</tr>
<tr>
<th>Summary</th>
<td>Issue with opening 14 bit images
</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>ann.wheeler@igmm.ed.ac.uk
</td>
</tr>
<tr>
<th>CC</th>
<td>ann.wheeler@igmm.ed.ac.uk
</td>
</tr></table>
<p>
<div>
<pre>Pretty much all of the images we acquire are 14 bit. However Fiji is opening
them as 16 bit unsigned images and autoscaling. The issue is when we are
quantifying it is automatically rescaling the images. Seems like Fiji thinks it
is very helpful if it re- autoscales the image we just unscaled.
The workaround is frustrating, in the Brightness and Contrast - Set display
range I would like to have an option in the Unsigned 16 bit option for 14 bit
images. There appear to be 8, 12, 15 and 16 bit options here but not 14 bit and
all of our Coolsnap HQ2's and our Andor xIon EMCCD cameras acquire in the 14
bit range (For the EMCCD cameras this is to do with how NIS handles them). What
I have to do is select 16 bit unsigned and then in the 'set option' enter the
14 bit range. EVERY TIME!!! Since I manage a facility of 200 users I'm sure the
reader can imagine how popular this is. If this pretty simple tweak could be
supported I would be most grateful.
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: REMIND_LATER
Information relevant to JAVA_HOME related problems:
JAVA_HOME is set to:
\\Mvm-igmm-h213\z$\FIJI-W~1\FIJI-W~1\Fiji.app/java/win64/jdk1.6.0_24//jre
imagej.dir => \\Mvm-igmm-h213\z$\FIJI-W~1\FIJI-W~1\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:20150319171059)
Fiji: <a href="http://fiji.sc/update/">http://fiji.sc/update/</a> (last check:20150319202456)
Cookbook: <a href="http://sites.imagej.net/Cookbook/">http://sites.imagej.net/Cookbook/</a> (last check:20150302220629)
Files not up-to-date:
c3f8675e (OBSOLETE_UNINSTALLED) 20141216163551 jars/Jama.jar
b6bf3817 (OBSOLETE_UNINSTALLED) 20141216163611 jars/edu_mines_jtk.jar
986cfcf5 (OBSOLETE_UNINSTALLED) 20141216163621
jars/imglib2-algorithms-2.0.0-beta-26.jar
ce6460d3 (OBSOLETE_UNINSTALLED) 20141216163621
jars/imglib2-algorithms-gpl-2.0.0-beta-26.jar
673fae25 (OBSOLETE_UNINSTALLED) 20141216163621
jars/imglib2-algorithms-legacy-2.0.0-beta-26.jar
51eadb2a (OBSOLETE_UNINSTALLED) 20141216163621
jars/imglib2-meta-2.0.0-beta-26.jar
25895ad6 (OBSOLETE_UNINSTALLED) 20141216163622
jars/imglib2-ops-2.0.0-beta-26.jar
8c636e50 (OBSOLETE_UNINSTALLED) 20141216163624 jars/jai_codec.jar
717dd8e0 (OBSOLETE_UNINSTALLED) 20141216163625 jars/jai_core.jar
1ad3be0d (LOCAL_ONLY) 20141216163637 jars/jpedalSTD.jar
f416387c (LOCAL_ONLY) 20150223132413 plugins/SIMcheck-0.9.5.jar</pre>
</div>
</p>
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