Hi chin,
On Sun, 16 Mar 2014, chin wrote:
> There is a plugin named DNA_Cell_Cycle(both java and class files) which
> I obtained from MBF Collection by Tony Collins. It seems a useful tool
> for cell cycle analysis. But while I tried to run this plugin on a
> DAPI-stained image, an exception popped up:
>
> ImageJ 1.48s; Java 1.6.0_20 [64-bit]......
> java.lang.NullPointerException
> at DNA_Cell_Cycle.run(DNA_Cell_Cycle.java:85)
The respective line reads like this:
Rectangle r = imp.getRoi().getBoundingRect();
Since there is a call to imp.getMask() above, "imp" cannot be null, but it
means that getRoi() returns null.
Now, Wayne Rasband tries very hard to keep ImageJ 1.x releases
backwards-compatible, but in particular the MBF plugins have been the
subject of quite a few breakages due to changes in ImageJ 1.x. In Fiji, we
include a few of the MBF plugins and aim to ensure that they work with
newer ImageJ 1.x versions, too, sometimes regression fixes are required.
The DNA Cell Cycle plugin is not among these plugins, I am sorry to inform
you.
The safest thing would therefore be to test whether the plugin works when
you run it in the ImageJ version that was current when it was released.
From the time stamp in
http://imagej.net/plugins/mbf/mbf-plugins.zip --
2009-09-04 10:28 -- it looks as if 1.43f (from 24 August 2009) is that
version.
Unfortunately, this version predates the work done by Curtis Rueden and
myself to put ImageJ 1.x into the standardized Maven format. So I rebuilt
this version and attached the .jar file here:
https://github.com/imagej/ImageJA/releases/tag/v1.43f(There is ij-1.43f.jar, the source .zip and the source .tar.gz file; you
will want the ij-1.43f.jar file)
Can you test whether that works for you?
Ciao,
Johannes
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