[ImageJ-bugs] [Bug 1250] New: Issue using Bioformats to read ZVI files

[bugzilla at fiji.sc]

http://fiji.sc/bugzilla/show_bug.cgi?id=1250

            Bug ID: 1250
           Summary: Issue using Bioformats to read ZVI files
           Product: Fiji
           Version: unspecified
          Hardware: Macintosh
                OS: Mac OS
            Status: NEW
          Severity: normal
          Priority: P4
         Component: Plugins
          Assignee: imagej-bugs at imagej.net
          Reporter: ctrkate at gmail.com
                CC: ctrkate at gmail.com

Hello, 

The problem I'm currently having is that, although I hadn't updated FIJI
recently, and was using this exact same version of the program to open ZVI
files a few weeks ago, suddenly, FIJI can't open my files.  When I drag and
drop, the familliar Bioformats Options window pops up, everything is set the
same way it was when it was working before.  Then, once I hit 'OK', a second
window which I've never seen before pops up asking me to how I'd like to group
the list of files; by dimension, by name, or by file type.  However, no matter
which option I chose, the file doesn't open, I just get an error message,
something about a 'null pointer'.  

This is different but may be related to the bug that others have reported,
where FIJI opens the ZVI file, but the channel colors are wrong.  I was having
the problem a few weeks ago, but seemed to be able to fix it by playing around
with the color channels settings.  

I'd appreciate any help you could give me on this matter, thanks!

Kathleen

Information about your version of Java:

  os.arch => x86_64
  os.name => Mac OS X
  os.version => 10.10.5
  java.version => 1.6.0_65
  java.vendor => Apple Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_65-b14-466.1-11M4716
  java.vm.name => Java HotSpot(TM) 64-Bit Server VM
  java.vm.version => 20.65-b04-466.1
  java.vm.vendor => Apple Inc.
  java.vm.info => mixed mode
  java.awt.graphicsenv => apple.awt.CGraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => null
  file.separator => /

The up-to-date check says: REMIND_LATER

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to:
/System/Library/Java/JavaVirtualMachines/1.6.0.jdk/Contents/Home/
  imagej.dir => /Applications/Fiji.app

Information about the version of each plugin:

Activated update sites:
ImageJ: http://update.imagej.net/ (last check:20160217090804)
Fiji: http://update.fiji.sc/ (last check:20160218075537)
Bio-Formats: http://sites.imagej.net/Bio-Formats/ (last check:20160314202643)
GDSC: http://sites.imagej.net/GDSC/ (last check:20160314062358)
GDSC-SMLM: http://sites.imagej.net/GDSC-SMLM/ (last check:20160310054351)

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