[ome-devel] Bio-Formats Exporter

[Melissa Linkert]

Hi Rubén,

> Does the Zeiss importer support multiple .lsm files?. I tried with a LSM 510 dataset that is multi-file (see the error below)

Yes, datasets with multiple .lsm files are supported.  The error that
you mention was fixed about one week ago, so updating to a recent trunk
build should allow you to convert the supplied dataset.

Regards,
-Melissa

On Wed, Jul 28, 2010 at 02:16:46PM +0200, Rubén Muñoz wrote:
> Hi Melissa, 
> 
> Does the Zeiss importer support multiple .lsm files?. I tried with a LSM 510 dataset that is multi-file (see the error below)
> 
> I have uploaded the dataset to the SFTP server as  lowresH2Bmcherry2.mdb.zip
> 
> New Zeiss ZEN software systems is also able to export multi-file .lsm. 
> In case that this is not implemented I am interested to help with it.
> 
> Regards,
> 
> Ruben
> 
> bfconvert lowresH2Bmcherry2.mdb test.ome.tif
> lowresH2Bmcherry2.mdb
> "loci.formats.in.CRIReader" is not valid.
> initFile
> Reading LSM metadata for series #0
> tilePositionOffset: 0 
> Unknown Binning value 'null' will be stored as "Other"
> Unknown LaserMedium value '' will be stored as "Other"
> Unknown LaserType value 'Krypton 413' will be stored as "Other"
> imagenames.add(_L1_R1)
> getImageCount() 1 0
> Exception in thread "main" java.lang.ArithmeticException: / by zero
> 	at loci.formats.in.ZeissLSMReader.initMetadata(ZeissLSMReader.java:941)
> 	at loci.formats.in.ZeissLSMReader.initFile(ZeissLSMReader.java:411)
> 	at loci.formats.FormatReader.setId(FormatReader.java:1067)
> 	at loci.formats.ImageReader.setId(ImageReader.java:644)
> 	at loci.formats.tools.ImageConverter.testConvert(ImageConverter.java:188)
> 	at loci.formats.tools.ImageConverter.main(ImageConverter.java:291)
>