improve default ipc file locations

When transport is IPC, the default location for the IPC files
should be in the security dir.  This ensures that is the case
for both the `ipython kernel` and `ipython notebook` cases.
It already made sense in `ipython [qt]console`.
fix default heartbeat location when transport is ipc
ip/transport live in KernelManager now

remove them as configurables in the Application objects
don't limit ports to 1024
Merge pull request #2811 from minrk/ipc_defaults

Still more KernelManager cleanup

Finish up some more work from #2775

closes #2722

- [x] ip/transport configurables only live on KernelManager objects, not ConsoleApp
- [x] fix default ipc paths in `ipython kernel` and `ipython notebook` cases
- [x] fix ipc file cleanup in a few more cases
- [x] add `--transport` alias for all appropriate entry points