[ImageJ-bugs] [Bug 1139] New: Reading CZI series image returns empty image while all the metadata are ok

[bugzilla at fiji.sc]

http://fiji.sc/bugzilla/show_bug.cgi?id=1139

            Bug ID: 1139
           Summary: Reading CZI series image returns empty image while all
                    the metadata are ok
           Product: Fiji
           Version: unspecified
          Hardware: PC
                OS: Windows
            Status: NEW
          Severity: critical
          Priority: P5
         Component: Bio-Formats
          Assignee: imagej-bugs at imagej.net
          Reporter: sebrhode at googlemail.com

Created attachment 255
  --> http://fiji.sc/bugzilla/attachment.cgi?id=255&action=edit
Empty thumbnails inside import dialog.

Hi,

I downloaded today's version of Fiji and tried to open a CZI series file via
BioFormats 5.1.3 (contains 8 series) as I did many time before. But when the
window opens, where one can select which series to open, all the thumbnails are
black (see screenshot).

The XML metadata see to be OK, but the resulting import image contains only
zeros. This used to work before without any problems and as far as I remember
it wasa even no problem with BF 5.1.3 some days ago...

The CZI image can be found here:

https://dl.dropboxusercontent.com/u/623476/Tiles1_CH%3D2_Z%3D3_T%3D2_B2_B4_SingleCZI.czi











Information about your version of Java:

  os.arch => amd64
  os.name => Windows 7
  os.version => 6.1
  java.version => 1.6.0_24
  java.vendor => Sun Microsystems Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_24-b07
  java.vm.name => Java HotSpot(TM) 64-Bit Server VM
  java.vm.version => 19.1-b02
  java.vm.vendor => Sun Microsystems Inc.
  java.vm.info => mixed mode
  java.awt.graphicsenv => sun.awt.Win32GraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => windows
  file.separator => \

The up-to-date check says: REMIND_LATER

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to:
c:\Users\Public\DOCUME~1\FIJI_2~1/java/win64/jdk1.6.0_24//jre
  imagej.dir => c:\Users\Public\DOCUME~1\FIJI_2~1

Information about the version of each plugin:

Activated update sites:
ImageJ: http://update.imagej.net/ (last check:20150722045527)
Fiji: http://fiji.sc/update/ (last check:20150724215809)

-- 
You are receiving this mail because:
You are the assignee for the bug.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://imagej.net/pipermail/imagej-bugs/attachments/20150811/60b15c03/attachment.html>