[ome-users] Bio-Formats CZI stitching issue

[Stephane Dallongeville]

Dear Bio-Formats team,

I got an error when i try to open a CZI dataset through TileStitcher.
I uploaded the dataset as 2.czi on your sample database.

The error i obtain is the following one :

<<
java.lang.NullPointerException
     at ome.units.quantity.Length.compareTo(Length.java:150)
     at ome.units.quantity.Length.compareTo(Length.java:35)
     at 
java.util.ComparableTimSort.countRunAndMakeAscending(ComparableTimSort.java:290)
     at java.util.ComparableTimSort.sort(ComparableTimSort.java:157)
     at java.util.ComparableTimSort.sort(ComparableTimSort.java:146)
     at java.util.Arrays.sort(Arrays.java:472)
     at loci.formats.TileStitcher.setId(TileStitcher.java:290)
     at 
plugins.kernel.importer.LociImporterPlugin.openReader(LociImporterPlugin.java:897)
     at 
plugins.kernel.importer.LociImporterPlugin.open(LociImporterPlugin.java:814)
 >>

It looks like the Plane X,Y position informations from Metadata are not 
correctly retrieved for series #1, #2, #3 (time based position instead 
of spacial position) but series #0 is ok, because of that positions 
become not anymore comparable which make that exception to appear.

Note that I tested with last Bio-Formats version.

Best,

-- 
Stephane Dallongeville
Unité d'Analyse d'Images Biologiques
CNRS UMR 3691
Institut Pasteur
25 rue du Dr. Roux
75724 Paris cedex 15 (FRANCE)

Tel: +33 (0)1 45 68 87 01
Fax: +33 (0)1 40 61 33 30

http://www.bioimageanalysis.org/