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

[Will Moore]

Hi Ron,

  I just tried your imports on a 4.2 server and got the same error.
I also tried in on the latest trunk server and it worked fine (see  
screenshot).

So, you could wait for the 4.2.1 release or upgrade to the current  
builds from hudson
http://hudson.openmicroscopy.org.uk/job/OMERO-trunk/

Cheers,

    Will.

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On 20 Sep 2010, at 05:02, Taylor, Ronald C wrote:

>
> Mark,
>
> Thanks for giving the file a try. Question: I included two LSM files  
> in my initial email - one that works upon import, one that fails  
> (shows up as black box) after an import error. The file that you  
> tried and that failed for you was the one that I labeled as the  
> failure, right? Just want to make sure that you are replicating our  
> failure. The other file (the one labeled OK) works for you?
> Ron
>
> ___________________________________________
> 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
>
>
> -----Original Message-----
> From: Woodbridge, Mark R [mailto:m.woodbridge at imperial.ac.uk]
> Sent: Sunday, September 19, 2010 3:29 AM
> To: Taylor, Ronald C; ome-users at lists.openmicroscopy.org.uk
> Subject: RE: Sporadic errors on *.lsm images - any prior reports?
>
> 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.
>
> Mark.
> ________________________________________
> 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?
>
> Cheers,
>   Ron Taylor
> < 
> zfish_liver_displays_OK 
> .lsm 
> > 
> < 
> A4_NEU_tail_shows_error_displays_dark 
> .lsm>_______________________________________________
> ome-users mailing list
> ome-users at lists.openmicroscopy.org.uk
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users

William Moore
Wellcome Trust Centre for Gene Regulation & Expression
College of Life Sciences
MSI/WTB/JBC Complex
University of Dundee
Dow Street
Dundee  DD1 5EH
United Kingdom

Phone 01382 386364
http://openmicroscopy.org.uk