Bug in Image5D

Posted by Steffen Dietzel-2 on Oct 13, 2009; 11:27am
URL: http://imagej.273.s1.nabble.com/flattening-a-layer-from-z-stacks-of-thick-uneven-tissue-tp3690504p3690508.html

Dear list,

I came across a bug in the plugin Image5D and I am wondering if
somebody on the list would be able to look into it it.

The bug shows up with large data sets when I want to transform the
5D-Stack into an RGB-stack.
I have two channels, each e.g. 1000x1000 px, 92 slices. What I need
is an RGB-stack in which one channel has a pink-violett color, the
other yellowish-green (I want to make cyan-red 3D images (anaglyph
images) with another programm, thus I need two colors which both have
red and cyan components. I wouldn't know how to do such a 3D-stack
with two channels in ImageJ).

Opening the images and assigning colors in Imag5D works fine.
However, when I transform the 5D-stack into RGB, the resulting stack
shows problems.
- The first slice of the RGB stack shows the image that was last
shown in Image5D. A problem which of course can be avoided by going
to the top of the 5D-stack.
- More serious, several slices of the RGB-stack show the same
content, and some slices are even composed of different z-sections:
the upper part from one, the lower part from another slice.

My assumption is that maybe some parallel threads are not finished in
the expected order and that this occurs only under heavy load, i.e.
when large files are used. Unfortunately I do not know Java, so I
hope that there is somebody on this list who might fix this otherwise
so helpfull tool - or could provide other hints how I could reach my goal.

Best regards

Steffen