[ome-users] MetaSystems vsi file

[Melissa Linkert]

Hi John,

> I had encounter a problem opening the .vsi image from MetaSystems attached in the link below:
> https://www.dropbox.com/s/kwmca936x3nvi5j/SS1-Case-33.Ki67_M~B.vsi
> 
> When I try to open the .vsi format slide scanning data from MetaSystems using Bio-format Importer in Fiji, I got the following error message below:
>
*snip*
> Can I used Bio-format Importer to open MetaSystems .vsi file?

Thank you for reporting this, and for sending an example file.
Unfortunately, MetaSystems .vsi files are not supported at this time
(this is a different format from CellSens .vsi, which we do support).

I have opened a ticket on our issue tracking system to add support for
this data:

http://trac.openmicroscopy.org.uk/ome/ticket/12483

If you would like to be automatically notified of updates, please let me
know and I will CC you.

Regards,
-Melissa

On Mon, Jul 21, 2014 at 06:33:32PM +0800, LIM Soon Yew John (IMB) wrote:
> Dear All,
> 
> I had encounter a problem opening the .vsi image from MetaSystems attached in the link below:
> https://www.dropbox.com/s/kwmca936x3nvi5j/SS1-Case-33.Ki67_M~B.vsi
> 
> When I try to open the .vsi format slide scanning data from MetaSystems using Bio-format Importer in Fiji, I got the following error message below:
> 
> java.lang.IllegalArgumentException: Invalid series: 0
>  at loci.formats.FormatReader.seriesToCoreIndex(FormatReader.java:1196)
>  at loci.formats.FormatReader.setSeries(FormatReader.java:925)
>  at loci.formats.MetadataTools.populatePixels(MetadataTools.java:173)
>  at loci.formats.MetadataTools.populatePixels(MetadataTools.java:97)
>  at loci.formats.in.CellSensReader.initFile(CellSensReader.java:456)
>  at loci.formats.FormatReader.setId(FormatReader.java:1315)
>  at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:494)
>  at loci.plugins.in.ImportProcess.execute(ImportProcess.java:144)
>  at loci.plugins.in.Importer.showDialogs(Importer.java:141)
>  at loci.plugins.in.Importer.run(Importer.java:79)
>  at loci.plugins.LociImporter.run(LociImporter.java:81)
>  at ij.IJ.runUserPlugIn(IJ.java:199)
>  at ij.IJ.runPlugIn(IJ.java:163)
>  at ij.IJ.runPlugIn(IJ.java:152)
>  at HandleExtraFileTypes.openImage(HandleExtraFileTypes.java:421)
>  at HandleExtraFileTypes.run(HandleExtraFileTypes.java:57)
>  at ij.IJ.runUserPlugIn(IJ.java:199)
>  at ij.IJ.runPlugIn(IJ.java:163)
>  at ij.IJ.runPlugIn(IJ.java:152)
>  at ij.io.Opener.openWithHandleExtraFileTypes(Opener.java:454)
>  at ij.io.Opener.openImage(Opener.java:311)
>  at ij.io.Opener.openImage(Opener.java:334)
>  at ij.io.Opener.open(Opener.java:144)
>  at ij.io.Opener.openAndAddToRecent(Opener.java:247)
>  at ij.plugin.DragAndDrop.openFile(DragAndDrop.java:176)
>  at ij.plugin.DragAndDrop.run(DragAndDrop.java:152)
>  at java.lang.Thread.run(Thread.java:662)
> 
> Can I used Bio-format Importer to open MetaSystems .vsi file?
> 
> Best Regards and Thank You,
> John
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