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<body><span class="vcard"><a class="email" href="mailto:jan.eglinger@uni-duesseldorf.de" title="Jan Eglinger <jan.eglinger@uni-duesseldorf.de>"> <span class="fn">Jan Eglinger</span></a>
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<a class="bz_bug_link
bz_status_NEEDSINFO "
title="NEEDSINFO - Non-functional color annotation merge"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=949">bug 949</a>
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<th>What</th>
<th>Removed</th>
<th>Added</th>
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<td style="text-align:right;">CC</td>
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<td>jan.eglinger@uni-duesseldorf.de
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<b><a class="bz_bug_link
bz_status_NEEDSINFO "
title="NEEDSINFO - Non-functional color annotation merge"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=949#c2">Comment # 2</a>
on <a class="bz_bug_link
bz_status_NEEDSINFO "
title="NEEDSINFO - Non-functional color annotation merge"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=949">bug 949</a>
from <span class="vcard"><a class="email" href="mailto:jan.eglinger@uni-duesseldorf.de" title="Jan Eglinger <jan.eglinger@uni-duesseldorf.de>"> <span class="fn">Jan Eglinger</span></a>
</span></b>
<pre>I believe this is intended behaviour. The following macro shows what I think
Claudia is describing:
run("Fluorescent Cells (400K)");
run("Split Channels");
run("Merge Channels...", "c1=C3-FluorescentCells.tif
c2=C2-FluorescentCells.tif c3=C1-FluorescentCells.tif create");
Note that in the resulting image, the channel order has changed to
[blue-green-red] from [red-green-blue] in the original image ("Fluorescent
Cells").
The ImageJ User Guide states this [*1*]:
<span class="quote">> When creating composite images, original LUTs and display ranges are preserved unless Ignore source LUTs is checked.</span >
If you want to change the colors in addition to the channel order, you need to
activate the "Ignore source LUTs" option. The following macro should produce
the result you expect (i.e. swapping the red and blue channels):
run("Fluorescent Cells (400K)");
run("Split Channels");
run("Merge Channels...", "c1=C3-FluorescentCells.tif
c2=C2-FluorescentCells.tif c3=C1-FluorescentCells.tif create ignore");
Hope that helps.
Jan
[*1*]: <a href="http://imagej.net/docs/guide/146-28.html#sub:Merge-Channels">http://imagej.net/docs/guide/146-28.html#sub:Merge-Channels</a>...</pre>
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