Added Feature to applies to of CLassifier_Substitution_Rule

Updated reference to AS5506B
Added classifier substitution match checking for refinements of
subcomponents and features in component types and implementations.
Fixed inverseof in nested feature groups for flow end points
Added a test in the deprecated method getAadl2LinkingService to be the
same as the getPropertiesLinkingService.
Added automatic update of plugin_resources. It will do so on every
startup, but only for files that are not read-only.
May want to let user know that this is being done.