Posted by
Aryeh Weiss on
Feb 02, 2015; 4:42pm
URL: http://imagej.273.s1.nabble.com/Latest-Bio-Formats-in-Fiji-tp5009834p5011409.html
Hi Mark
Thank you for your quick reply.
On 2/2/15 4:51 PM, Mark Hiner wrote:
> Hi Aryeh,
>
> Thanks for following up on the ImageJ list.
>
> For reference:
> - the closed ticket[1]
> - commit on develop[2] (Bio-Formats 5.1.x)
>
> >On the OME tracking system, this bug is said to be resolved. If so,
> then the corrected bioformats is not yet distributed on the fiji
> update sites.
>
> Fiji uses Bio-Formats 5.0.x, with the dev version[3] available from
> the Bio-Formats development update site[4]. This fix will become part
> of core Fiji when there's a 5.1.0 release.
>
> >I also downloaded the appropriate jar files from
> >ci.openmicroscopy.org/view/Bio-Formats/job/BIOFORMATS-5.1-latest/lastSuccessfulBuild/artifact/artifacts/
> <
http://ci.openmicroscopy.org/view/Bio-Formats/job/BIOFORMATS-5.1-latest/lastSuccessfulBuild/artifact/artifacts/>
>
> I believe this was the correct place to pull artifacts from to test
> the ND2 fix, but you should not use 5.0.x jars with 5.1.x. If you want
> to try 5.1.x, you should replace everything in
> Fiji.app/jars/bio-formats with its 5.1.x equivalent.
>
I replaced all of the files. The 5.1 gpl file did not work at all with
the 5.0.6 files -- it threw an exception. So I downloaded the entire
5.1.x set and replaced all of the files in jars/bioformats. This worked
in the sense that it did not throw an exception, but it produced the
same incorrect loading of the multifield ND2 file.
Best regards,
--aryeh
--
Aryeh Weiss
Faculty of Engineering
Bar Ilan University
Ramat Gan 52900 Israel
Ph: 972-3-5317638
FAX: 972-3-7384051
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