[ome-users] NumberFormatException import .zvi file

[Curtis Rueden]

Hi Susan,

I downloaded the latest trunk build of the loci_tools.jar and placed it in
> the plugins folder and re-ran ImageJ.  The LOCI Bioformats Importer gives
> the same error on that zvi file that OMERO.insight does.
>

Strange; I checked the source code and it should not be generating this
error. Would you be willing to send us the problematic file for us to use
for debugging? Once we have the problem solved in Bio-Formats, the next
version of OMERO.importer will also incorporate the fix -- or I can provide
you with instructions on how to update your existing version of
OMERO.importer if you like.

-Curtis

On Wed, Sep 24, 2008 at 3:48 PM, Susan Wilson <smwilson at hpc.unm.edu> wrote:

> Hi again,
> I downloaded the latest trunk build of the loci_tools.jar and placed it in
> the plugins folder and re-ran ImageJ.  The LOCI Bioformats Importer gives
> the same error on that zvi file that OMERO.insight does.
>
> Susan
>
> On Sep 24, 2008, at 2:20 PM, Curtis Rueden wrote:
>
> Hi Susan,
>
> That exception looks like a bug in Bio-Formats to me. Are you able to
> import the ZVI file into ImageJ using the Bio-Formats Importer plugin (
> http://www.loci.wisc.edu/ome/formats-imagej.html) with the latest trunk
> build (http://www.loci.wisc.edu/ome/formats-download.html)?
>
> -Curtis
>
> On Wed, Sep 24, 2008 at 3:09 PM, Susan Wilson <smwilson at hpc.unm.edu>wrote:
>
>> Hi,
>>
>> Runniing Beta3.0.1 all around.  This is the error I get when I attempt
>> to import a .zvi file:
>>
>> java.lang.NumberFormatException: For input string: "9/17/2008 7:05:39
>> PM"
>>        at
>> java
>> .lang.NumberFormatException.forInputString(NumberFormatException.java:
>> 48)
>>        at java.lang.Long.parseLong(Long.java:412)
>>        at java.lang.Long.parseLong(Long.java:461)
>>        at
>> loci.formats.in.ZeissZVIReader.initMetadata(ZeissZVIReader.java:623)
>>        at loci.formats.in.ZeissZVIReader.initFile(ZeissZVIReader.java:513)
>>        at loci.formats.FormatReader.setId(FormatReader.java:216)
>>        at loci.formats.ImageReader.setId(ImageReader.java:565)
>>        at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:71)
>>        at loci.formats.ChannelFiller.setId(ChannelFiller.java:186)
>>        at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:71)
>>        at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:61)
>>        at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:71)
>>        at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:181)
>>        at
>> ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:
>> 355)
>>        at
>> ome.formats.importer.ImportHandler.importImages(ImportHandler.java:
>> 172)
>>        at
>> ome.formats.importer.ImportHandler.access$0(ImportHandler.java:106)
>>        at ome.formats.importer.ImportHandler$1.run(ImportHandler.java:87)
>>
>> Also, I may be crazy, but the documentation for OMERO.insight does not
>> match what I am seeing.  This error is on my MAC to OMERO.server on
>> debian.  I downloaded and ran both (linux) importer and insight on the
>> localhost debian host and got the same importer error and the same
>> insight application.  Help/About shows Beta3.0.1, which is the server
>> I am running, but insight has no categories, no "Browse Button"...
>> And importer won't import the zvi on either platform.
>>
>> Thanks.
>> Susan
>> _______________________________________________
>> ome-users mailing list
>> ome-users at lists.openmicroscopy.org.uk
>> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>>
>
>
>
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