Branch: refs/heads/develop
  Home:   https://github.com/cytoscape/cytoscape-gui-distribution
  Commit: 7764498768d0eebaf83f22230f27f5a11570da19
      
https://github.com/cytoscape/cytoscape-gui-distribution/commit/7764498768d0eebaf83f22230f27f5a11570da19
  Author: Unknown <[email protected]>
  Date:   2017-12-15 (Fri, 15 Dec 2017)

  Changed paths:
    M assembly/src/main/filtered-resources/etc/system.properties
    M assembly/src/main/resources/etc/custom.properties
    A assembly/src/main/resources/etc/jetty.xml

  Log Message:
  -----------
  Changes to prevent writing to protected directories in the install

The jetty feature generates it's own config file if it isn't present, so I 
double checked that the file generated on my version didn't contain any 
system-specific settings (it didn't) and made it part of the Cytoscape 
distribution. We can revisit that file later if there's something we need Jetty 
to do, but for now, it works with the default settings.

Karaf now generates a karad.pid file whenever it starts, so I had to add a 
setting in custom.properties that sets the location to the generated 
CytoscapeConfiguration directory.

Karaf's shell scripts are somewhat more distributed now, and required a change 
to include several, and not the single one it used to be.


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