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Bug 843 - Limitation to trackmate
Limitation to trackmate
Status: RESOLVED LATER
Product: Fiji
Classification: Unclassified
Component: Plugins
unspecified
PC Linux
: P4 normal
Assigned To: ImageJ Bugs Mailing List
Depends on:
Blocks:
 
Reported: 2014-07-07 21:08 CDT by Joao Mamede
Modified: 2015-03-23 17:37 CDT
3 users (show)

See Also:
Description Joao Mamede 2014-07-07 21:08:31 CDT 
Hello, 
I tried using trackMate with sucess and I can track the particles within the hyperstack files from bioformats. I can then analyse everything in the channel I tracked my particles (mean intensity for example). 
I there anyway of using the same track in another color or open window to analyse the particles?
I could copy the track overlay but then I can't get any data from it. Is that a limitation or I'm not finding the feature?
thanks for trackMate and best regards!

Information about your version of Java:

  os.arch => amd64
  os.name => Linux
  os.version => 3.13.0-24-generic
  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.X11GraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => gnome
  file.separator => /

The up-to-date check says: REMIND_LATER

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to: /home/jmamede/Fiji.app/java/linux-amd64/jdk1.6.0_24//jre
  imagej.dir => /home/jmamede/Fiji.app

Information about the version of each plugin:

Activated update sites:
ImageJ: http://update.imagej.net/ (last check:20140702184308)
Fiji: http://fiji.sc/update/ (last check:20140702114334)
Comment 1 Jean-Yves Tinevez 2014-08-24 13:17:38 CDT 
Hi Joao
Unfortunately right now TrackMate does not do that. I measure features only from the channel it tracked. You have two paths:

- You create your own spot analyzer that targets a specific channel
http://fiji.sc/How_to_write_your_own_spot_feature_analyzer_algorithm_for_TrackMate

- As someone told me he did, you can manually edit the xml file to load an image file containing the 2nd channel, then call the action to recompute all features.

Best
jy
Comment 2 Joao Mamede 2014-11-26 11:31:56 CST 
Thanks Jean-Yves!
Comment 3 Curtis Rueden 2015-03-23 17:37:00 CDT 
Closing as "LATER" to indicate this feature may be supported in the future, but is not currently.