NOTICE! This is a static HTML version of a legacy Fiji BugZilla bug.

The Fiji project now uses GitHub Issues for issue tracking.

Please file all new issues there.

Bug 464 - Bio-Formats Importer throws exception opening .zvi files
Bio-Formats Importer throws exception opening .zvi files
Status: RESOLVED INVALID
Product: Fiji
Classification: Unclassified
Component: Other
unspecified
PC Windows
: P2 major
Assigned To: ImageJ Bugs Mailing List
Depends on:
Blocks:
 
Reported: 2012-08-11 01:02 CDT by Andrew Olson
Modified: 2012-08-25 01:03 CDT
1 user (show)

See Also:

Description Andrew Olson 2012-08-11 01:02:27 CDT
I updated Fiji this week (Windows 32-bit OS, ImageJ version 1.47a, Java 1.6.0_16 (32-bit)), and now when I try to open Zeiss AxioVision .zvi files, the program throws an exception:

java.lang.NoSuchMethodError: loci.formats.meta.MetadataStore.setImageAcquiredDate(Ljava/lang/String;I)V
	at loci.formats.in.ZeissZVIReader.initFile(ZeissZVIReader.java:581)
	at loci.formats.FormatReader.setId(FormatReader.java:1105)
	at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:480)
	at loci.plugins.in.ImportProcess.execute(ImportProcess.java:144)
	at loci.plugins.in.Importer.showDialogs(Importer.java:139)
	at loci.plugins.in.Importer.run(Importer.java:77)
	at loci.plugins.LociImporter.run(LociImporter.java:79)
	at ij.IJ.runUserPlugIn(IJ.java:185)
	at ij.IJ.runPlugIn(IJ.java:152)
	at ij.IJ.runPlugIn(IJ.java:141)
	at HandleExtraFileTypes.openImage(HandleExtraFileTypes.java:375)
	at HandleExtraFileTypes.run(HandleExtraFileTypes.java:53)
	at ij.IJ.runUserPlugIn(IJ.java:185)
	at ij.IJ.runPlugIn(IJ.java:152)
	at ij.IJ.runPlugIn(IJ.java:141)
	at ij.io.Opener.openWithHandleExtraFileTypes(Opener.java:413)
	at ij.io.Opener.openImage(Opener.java:288)
	at ij.io.Opener.openImage(Opener.java:309)
	at ij.io.Opener.open(Opener.java:138)
	at ij.io.Opener.openAndAddToRecent(Opener.java:224)
	at ij.plugin.DragAndDrop.openFile(DragAndDrop.java:176)
	at ij.plugin.DragAndDrop.run(DragAndDrop.java:152)
	at java.lang.Thread.run(Thread.java:619)

I don't have this problem with the updated Fiji on my 64-bit Windows machine.
Comment 1 Melissa Linkert 2012-08-14 04:47:52 CDT
This same issue was reported on fiji-devel a couple of weeks ago:

http://groups.google.com/group/fiji-devel/tree/browse_frm/thread/7eb9b4d0208e7bf8/d62398a683ae2cdd?hide_quotes=no&pli=1

Running the updater is supposed to fix it as far as I can see, but it is important to make sure that all copies of loci_tools.jar are removed.  Can you please make sure that the updater has been run and that there are no loci_tools.jar files in your plugins folder?

(And please note that this is not a problem with Bio-Formats itself, but rather with recent changes to how the Bio-Formats files are included in Fiji.)

Comment 2 Johannes Schindelin 2012-08-25 01:03:03 CDT
From a mail response (forcing me to mark this issue invalid since we simply will not have any way to reproduce anymore):

Thanks for the response. The updater has been run (and re-run, to no avail). Following your suggestion, I found and deleted loci_tools.jar from the plugins folder. It did not fix the problem, however. Still getting an exception when I try to open .zvi files.

I gave up and deleted the previous Fiji installation and started fresh, and this solved the problem.

Andrew