[ome-users] Sporadic errors on *.lsm images - any prior reports?

Woodbridge, Mark R m.woodbridge at imperial.ac.uk
Sun Sep 19 11:29:04 BST 2010

Hi Ron,

I get an ArrayIndexOutOfBoundsException when importing your file into OMERO 4.2 so perhaps one for the devlopers to investigate. We haven't had problems with any other lsm files.

From: ome-users-bounces at lists.openmicroscopy.org.uk [ome-users-bounces at lists.openmicroscopy.org.uk] On Behalf Of Taylor, Ronald C [ronald.taylor at pnl.gov]
Sent: 19 September 2010 06:45
To: ome-users at lists.openmicroscopy.org.uk
Subject: [ome-users] Sporadic errors on *.lsm images -  any prior reports?

Hello folks,

We are using OMERO 4.2.0 on our Mac server. One of our scientists is importing Zeiss LSM files (see http://en.wikipedia.org/wiki/LSM_(Zeiss) ). He is seeing sporadic errors upon import. Some files show up fine, others come in as completely dark images.

All of the files come from the same microscope and the same software. So - this is a mystery to us. At present, this is the only importing error we are seeing in OMERO 4.2.0 - other file types are not having any problems so far.

I have attached two LSM files - one that displays OK upon import, the other which causes an error and shows up dark. Can someone take a look in their own 4.2.0 system and see if they can duplicate the error?

Also - is this a known bug? Have other people reported errors involving LSM files?

   Ron Taylor

Ronald Taylor, Ph.D.
Computational Biology & Bioinformatics Group
Pacific Northwest National Laboratory
902 Battelle Boulevard
P.O. Box 999, Mail Stop J4-33
Richland, WA  99352 USA
Office:  509-372-6568
Email: ronald.taylor at pnl.gov

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