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Bug 611 - Cannot Open Leica .lif files in FIJI InvocationTargetException caused by ArrayIndexOutofBoundsException
Cannot Open Leica .lif files in FIJI InvocationTargetException caused by Arra...
Status: RESOLVED MOVED
Product: Fiji
Classification: Unclassified
Component: Bio-Formats
unspecified
PC Windows
: P5 normal
Assigned To: Melissa Linkert
Depends on:
Blocks:
 
Reported: 2013-05-21 14:18 CDT by Alan
Modified: 2013-08-15 15:15 CDT
1 user (show)

See Also:


Attachments
Returned Exception upon attempting to open .lif (1.84 KB, text/plain)
2013-05-21 14:18 CDT, Alan

Description Alan 2013-05-21 14:18:08 CDT
Created attachment 103
Returned Exception upon attempting to open .lif

From a fresh install of FIJI on Windows 7 64bit, I cannot open the Leica .lif files without an InvocationTargetException upon the Finding Image Offsets stage. The ArrayIndexOutofBoundsException is at loci.formats.in.LIF.reader and at loci.plugins.in.ImportProcess. 

The exception is from Array index out of range: 96
Comment 1 Melissa Linkert 2013-05-22 10:52:03 CDT
Could you please upload one of the files that exhibits this problem to http://qa.openmicroscopy.org.uk/qa/upload/ ?
Comment 2 Alan 2013-05-22 11:37:18 CDT
The file has been uploaded to http://qa.openmicroscopy.org.uk/qa/upload/
Comment 3 Melissa Linkert 2013-05-22 12:36:46 CDT
Moved to the official issue tracker for Bio-Formats; see https://trac.openmicroscopy.org.uk/ome/ticket/10952
Comment 4 Curtis Rueden 2013-08-15 15:15:15 CDT
As of today, we now have a dedicated Bio-Formats update site for daily builds. By enabling this update site, your Fiji will gain access to the latest Bio-Formats bugfixes, including the one which addresses this bug report.

To use it:

* Help > Update Fiji
* Click "Manage update sites"
* Check "Bio-Formats daily builds"
* Click "Close"

Five files should appear on the list with "Status/Action" of "Update it".

* Click "Apply changes"
* Restart Fiji
* Help > About Plugins > LOCI Plugins...

The dialog should now show a build date of "14 August 2013" or later.

Please let us know how it works for you!