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This is just an initial documentation. Needs improvement.

There are two ways algorithms plugin are added to the menu. First, if an algorithm is listed in the default_menu.xml file, which is found in the configuration/ directory of a CIShell tool, it is added in the place specified by the default_menu.xml file. Secondly, if an algorithm is not listed in this file, but has specified a menu_path property in the algorithm.properties file, the menu manager CIShell service will add it to the appropriate menu, as described in the by the menu_path property's value (for example, Analysis/additions will place an algorithm on the bottom of the Analysis menu).

To add Database, Cytoscape and Science Maps plugins to

...

Sci2

  1. Getting jar files:
  2. Added these jar files to the directory plugins/ of Sci2 toolSci2directory
  3. Download the file default_menu.xml and copy it to the directory configuration/ under Sci2 directory, replacing the older version for this version.