Made changes so that uploading custom certificate works for ssvm.
1. Reboot ssvm only when private key is passed meaning the server cert is passed. This is because while uploading the server cert is the last to be uploaded. And we want to propagate the entire chain once uploading is done.
2. Change the SecStorageSetupCommand sent to ssvm so that it also carries the root cert apart from having the chain and the server cert and key.
3. Change ssvm agent code to be able to configure root cert to the java key store.
4. Change ssvm configure ssl script to insert the chain certs correctly.
5. Fix order of chain certificates for apache webserver in SSVM
6. Remove double encoding and decoding for uploadCustomCertificate API from UI and server code respectively, so that API call without UI works fine
7. Java 1.7 - disable using SNI since copyTemplate doesnt work for SSL.
All (almost) files belonging to the systemvm aer now centralize in the systemvm directory. The code for the separate functions is still in the services directory. This will make the code easier to understand and makes it clear that the systemvm is a separate item. It alos means that it can be excluded from the build entirely by not adding the systemvm profile, this will speed up the compiles somewhat.
