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Debugging

If you faced problem with running QuimP, there are several possibilities to get extensive debugging information. It will be required to start Fiji application from command line and that may differ between systems. Examples below are for Linux based systems.

  • In console go to Fiji.app folder and type.
    • ./ImageJ-linux64 -Dlogback.configurationFile=quimp-logback.xml
  • If you want to save logs to file, you can use stream redirection:
    • ./ImageJ-linux64 -Dlogback.configurationFile=quimp-logback.xml &>file 
  • There is additional (and optional) switch to get even more detailed logs:
    • ./ImageJ-linux64 -Dlogback.configurationFile=quimp-logback.xml -Dquimpconfig.superDebug="true" &>file

If Fiji must be run with additional options passed to it from command line (e.g. path to system Java), one can combine all in the folowing way:

  • ./ImageJ-linux64 -Dlogback.configurationFile=quimp-logback.xml -Dquimpconfig.superDebug="true" -- --java-home $JAVA_HOME &>file (refere to http://imagej.net/Java_Options)

The name of runnable file (ImageJ-linux64 in above examples) can be also different for your installation.