Add serialization for mechanical ventilator, clenaning up duplicate names for equipment nodes, paths, compartments, links

More architectural refactoring for custom engines, including the initial multiplex ventilation engine

Merge branch 'feature/multiplex_ventilation' of https://gitlab.kitware.com/physiology/engine into feature/multiplex_ventilation

Still needs more cleanup and testing - lots of to-dos in comments.

Plus a little clean up while I was in python

Merge branch 'feature/multiplex_ventilation' of https://gitlab.kitware.com/physiology/engine into feature/multiplex_ventilation

Add the CardiacArrest and the MechanicalVentilation patient actions. Add
HowTo files for each.

Rework equipment actions hierarchy to a single equipment action collection, updated all equipment scenarios
Updated Scenarios
protoc generation script fixes

Continue the process of creating HowTo files for the patient conditions.
Most objects have no actions to rectify the condition. Those can be
added later.

Infrastructure Refactor

See merge request !39

Add the ChestOcclusiveDressing action to the list of available patient
actions.  Add it to the TensionPneumoThorax HowTo.

Add a new function which allows the user to advance time by a set chunk
of seconds and determine the rate that samples are taken. It will take
the number of samples which is equal to the (total time/sample rate)

# Conflicts:
#	schema/proto/pulse/engine/bind/PulseConfiguration.proto
#	sdk/CMakeLists.txt

C++ HowTo Updates

See merge request !38