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Bug 261 - faulty TrakEM2 image stack import
faulty TrakEM2 image stack import
Status: RESOLVED FIXED
Product: Fiji
Classification: Unclassified
Component: TrakEM2
unspecified
PC Windows
: P1 major
Assigned To: ImageJ Bugs Mailing List
Depends on:
Blocks:
 
Reported: 2010-12-13 11:12 CST by leonor_grilo
Modified: 2011-04-23 10:07 CDT
1 user (show)

See Also:
Description leonor_grilo 2010-12-13 11:12:02 CST 
[I open the image stack in Fiji - the files are located in the PC hard drive. I change the image properties (unit of lenght and so on) and set the image contrast/brightnes to Auto. Then I start a new TrakEM2 project and try to load to stack and I get a blury white cross inside a square on a black background. I can scroll thought the layers but the image doesn't change. A window entitled Rapair:Untitled 0 opens saying Double-click any to repair file path along with a list of files]

Information about your version of Java - this information is useful for the Fiji developers:
  os.arch => x86
  os.name => Windows XP
  os.version => 5.1
  java.version => 1.6.0_20
  java.vendor => Sun Microsystems Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_20-b02
  java.vm.name => Java HotSpot(TM) Client VM
  java.vm.version => 16.3-b01
  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 => \
Comment 1 Albert Cardona 2010-12-13 19:43:52 CST 
(In reply to comment #0)
> [I open the image stack in Fiji - the files are located in the PC hard drive.


Dear Leonor,

Is it a:

* grayscale stack 8-bit with/without LUT
* grayscale stack 16-bit with/without LUT
* grayscale stack 32-bit with/without LUT
* RGB stack
* Composite stack, with perhaps 16-bit color channels

And it is opened as:
* virtual stack
* all in memory (regular stack)

And the file exists in:
* your local file drive
* in a network share (how is it mounted?)

And which file format? TIFF, lsm, ... ?

More information is necessary to address the problem.

Albert
Comment 2 Albert Cardona 2011-03-13 11:29:16 CDT 
Dear Leonor,

We'd appreciate further information to address the error. Thank you.

Albert



(In reply to comment #1)
> (In reply to comment #0)
> > [I open the image stack in Fiji - the files are located in the PC hard drive.
> 
> 
> Dear Leonor,
> 
> Is it a:
> 
> * grayscale stack 8-bit with/without LUT
> * grayscale stack 16-bit with/without LUT
> * grayscale stack 32-bit with/without LUT
> * RGB stack
> * Composite stack, with perhaps 16-bit color channels
> 
> And it is opened as:
> * virtual stack
> * all in memory (regular stack)
> 
> And the file exists in:
> * your local file drive
> * in a network share (how is it mounted?)
> 
> And which file format? TIFF, lsm, ... ?
> 
> More information is necessary to address the problem.
> 
> Albert
>
Comment 3 Johannes Schindelin 2011-04-23 10:07:20 CDT 
Silence is wonderful, a sign that no problems exist anymore.