Make QueryDefinition & QueryResult protected res
Ability to associate a user with patient queries
Add READ operation and improve documentation
Merge master into permission_checks

Conflicts:
	src/main/groovy/org/transmartproject/core/querytool/QueryResult.groovy
Add QueryResult::getUsername()
Merge master into permission_checks
Remove .orig file accidentally committed
Revert "Ability to associate a user with patient queries"

This reverts commit aa6ad66c192a1e12d2876c013e1ae07ac56a007c.
Add overload to QueriesResource::runQuery()
Merge pull request #18 from thehyve/permission_checks

Changes to support control on patient set creation and retrieval