Re: Phansalkar threshold bug

Posted by ctrueden on Jul 01, 2016; 1:48pm
URL: http://imagej.273.s1.nabble.com/Phansalkar-threshold-bug-tp5016717p5016792.html

Hi Gabriel,

> Be warned that when I switched to the Java8 update site, an old
> install (using Java 1.6) stopped working and had to download a new
> install of Fiji again, which includes the Java 8 jdk.
>
> So, in resume, it is probably best to install Fiji again (which now
> includes Java 1.8) to make sure that you have the latest fix.

Yes, downloading a new Fiji bundle is the simplest solution.

However, you certainly can update an existing Fiji installation if you
prefer. But you need to make sure it is running Java 8 _before_ you enable
the Java-8 update site. For more details, see:

http://imagej.net/2016-05-10_-_ImageJ_HOWTO_-_Java_8,_Java_6,_Java_3D#Upgrading_an_old_installation

> In Fiji the version number is handled automatically and is currently
> 1.16.3 (elsewhere it is 1.7 as stated in the source code).

You could unify this: remove the hardcoded version in the source code, in
favor of calling org.scijava.util.VersionUtils.getVersion(Class) to
retrieve the version from the JAR manifest or POM.

Regards,
Curtis

--
Curtis Rueden
LOCI software architect - http://loci.wisc.edu/software
ImageJ2 lead, Fiji maintainer - http://imagej.net/User:Rueden
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On Fri, Jul 1, 2016 at 5:21 AM, Gabriel Landini <[hidden email]>
wrote:

> On Thursday 23 Jun 2016 09:24:55 I wrote:
> > There was a bug fixed in the computation of the Phansalkar local
> threshold
> > method. This affected the file I provide in my page, the one installed by
> > default in plain IJ and the one in Fiji. It does not affect the
> ImageJ-ops
> > version.
> >
> > Wayne updated the class in the download package he provides, it was also
> > pushed into the Fiji repository (so it should appear as an update soon)
> and
> > it was also updated in my page.
> >
> http://www.mecourse.com/landinig/software/autothreshold/autothreshold.html
>
> Hi, Just to update on this subject for those using Fiji.
> The fix for Fiji is now available as an update, but note the the plugin is
> now
> available from the Java8 update site (so you need to subscribe to it to
> receive the fix).
> If you stay with 1.6 it appears that it is not possible to receive the
> update.
>
> Be warned that when I switched to the Java8 update site, an old install
> (using
> Java 1.6) stopped working and had to download a new install of Fiji again,
> which includes the Java 8 jdk.
>
> So, in resume, it is probably best to install Fiji again (which now
> includes
> Java 1.8) to make sure that you have the latest fix.
>
> In Fiji the version number is handled automatically and is currently 1.16.3
> (elsewhere it is 1.7 as stated in the source code).
>
> Cheers
>
> Gabriel
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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