[ome-users] bug in Bio-Formats with LEI file

[Stéphane Dallongeville]

Hi,

Just wanted to report this problem : trying to opening a multi serie LEI 
file with LOCI i obtained the following error message :

java.lang.IndexOutOfBoundsException: Index: 1, Size: 1
     at java.util.ArrayList.RangeCheck(ArrayList.java:547)
     at java.util.ArrayList.get(ArrayList.java:322)
     at ome.xml.model.Pixels.getChannel(Pixels.java:573)
     at 
loci.formats.ome.OMEXMLMetadataImpl.setLightPathEmissionFilterRef(OMEXMLMetadataImpl.java:9731)
     at 
loci.formats.meta.FilterMetadata.setLightPathEmissionFilterRef(FilterMetadata.java:1686)
     at 
loci.formats.in.LeicaReader.parseInstrumentData(LeicaReader.java:1410)
     at loci.formats.in.LeicaReader.initFile(LeicaReader.java:695)
     at loci.formats.FormatReader.setId(FormatReader.java:1360)

The same dataset converted to LIF does open correctly so i guess it is 
just a problem with metadata retrieving from the LEI reader.
I uploaded the sample to the FTP, it's named "3c x40 correct.zip", it's 
an archive containing both the LEI and LIF file.
Thanks.

-- 
Stephane Dallongeville
Unité d'Analyse d'Images Biologiques
CNRS URA 2582
Institut Pasteur
25 rue du Dr Roux - 75015 Paris - France

Tel: +33 (0)1 45 68 86 90
Fax: +33 (0)1 40 61 33 30

http://www.bioimageanalysis.org/