Posted by
Mario Faretta on
Oct 13, 2009; 2:18pm
URL: http://imagej.273.s1.nabble.com/flattening-a-layer-from-z-stacks-of-thick-uneven-tissue-tp3690504p3690513.html
Hi,
just my five cents to the discussion: I also noticed the problem with both
Windows (XP Service Pack3, last ImageJ release g Java 1.6.0 but noticed also
with previous version) and Mac OS X (10.4.11, ImageJ 1.43 g and previous
realeses Java 1.5.0_19).
I noticed the behaviour quite frequently when managing large amount of data.
Not Being a Java expert and/or investigated systematically I always bypassed
it by tricks (using color merge in the stack function after reconstructing the
channel stacks using the Hypervolume shuffling plugin).
Hope it helps
Mario
Robert Baer (
[hidden email]) wrote:
>
> > - 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.
>
> It would be helpful if you provide your OS, Java version, etc. The problem
> could reside in the plugin or in Java. Is it reproducible on more than one
> OS?
>
> I don't know if it is related, but on Windows Vista I was having problems
> with frames of my stacks fractionating into scambled pieces. This problem
> seemed to resolve itself when I installed the latest Java rather than the
> release candidate that is installed with the downloaded ImageJ. Based on
> myexperience, an unsophisticated suggestion would be to at least try the
> most recent Java for your OS. I leave it to others to provide more direct
> advice.
>
>
> > 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
> >
>
--
Mario Faretta
Department of Experimental Oncology
European Institute of Oncology
c/o IFOM-IEO Campus for Oncogenomics
via Adamello 16
20139 Milan
Italy
Phone: ++39-02574303054
email:
[hidden email]
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