EJBs and persistence units in a web application nested in an ear are not detected

When a web application (war) is nested in an ear file any ejbs or persistence units in the web application are not detected.

Also, a standalone web application deployed via the DeploymentLoader will not detect nested ejbs or persistence units. Currently, the only way to deploy web applications is in Tomcat and the TomcatWebAppDeployer doesn't use DeploymentLoader for standalone web applications.