Logging improvements

 * More REEF classes on the DriverSide now log their instantiation. This is helpful when debugging issues of multiple instantiations.
 * We now have our very own logging formatter. It prints the sequence number instead of a timestamp and also produces more dense log output.
Remove cmd files used by Streaming

Move those files to Reef-InternalApplications as they are used by by
streaming project there
move run.sh to bin folder
Merge pull request #758 from Microsoft-CISL/RemoveCmdFiles

Remove cmd files and move run.sh to bin folder
Merge pull request #757 from Microsoft-CISL/weimer_logging

Logging improvements
Merge branch 'master' of github.com:Microsoft-CISL/REEF into weimer_749

Conflicts:
	reef-common/src/main/java/com/microsoft/reef/runtime/common/driver/client/ClientConnection.java