Sort entities in the application tree by their ID
Delete deprecated code from BrooklynLauncher
Delete deprecated ManagementContext methods

- instead access them via managementContext.getEntityManager()
Delete deprecated AbstractCombiningEnricher
Delete deprecated SshMachineLocation.addConfig
Delete deprecated code in TestApplication
Deleted deprecated WebClusterDatabaseExampleAltJava
Delete deprecated code from AbstractSoftwareProcessSshDriver
Delete deprecated "cluster" flag in AbstractController
Delete deprecated groovy simple-web-cluster examples
Deleted deprecated JBoss6ServerFactory
Delete deprecated TomcatServerFactory
QA web-app: remove use of JBoss7Server
Delete deprecated JBoss7ServerFactory
fix error where apidoc breaks due to error in UsageApi
Merge pull request #1051 from aledsage/tidy/delete-deprecated-20131124

Delete more deprecated code
Fix name of machine mutex in installJava() method and update to use DynamicTasks
Add logging of jclouds messages to separate file
Merge pull request #1054 from grkvlt/fix/install-java-mutex

Fix name of machine mutex in installJava() method
Also move jclouds.ssh out of the debug.log file to jclouds.log