They are deprecated starting in Java 9, which probably won't be updated to any time soon, but it's nice to fix these as they are seen.

Replaced OrderedProperties implementation with an existing open source one. Eliminates a lot of warnings.

The author claimed it fully implemented the methods in Properties, but it did not fully implement the methods of the HashTable base class. So I had to tweak a couple of lines elsewhere to work with the new implementation.

A  few other implementers needed to implement some now-abstract methods, or switch to use the public methods.

As it was before, throwable messages would just get printed. Slf4j has its own built-in throwable handling; notably, the stacktraces are captured.

I included the logback jars so something actually shows up in the console. Those, and the slf4j jar, are only needed for the HowTo.
Note that the log levels don't quite line up, so nothing is logged to trace, and the fatal messages are logged to error with a "FATAL: " prefix.

Creation API and State Update

See merge request !44

Add higher cmake min requirement

Fix CSV file generation from C#/Python

Scenarios via Java are working
Still need to : Update C# and Python, as well as convert Java engine interface over to their style

Allows systems to override loaded state based on new configuration options

Hemorhagic Shock

See merge request !43

Replace == 0 with IsZero

Tuned pneumothorax a little.

Support other compartments for stablization config
 - Update Renal Stenosis with this
Remove WaterAbsorption from some scenarios
Shorten BasicStandard
Separate flags for nervous feedback with a more formal approach for systems to understand what other systems are doing
Make irreversable states fatal

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

Update GI to separate water from substances to better control each independently
Update System Validation json readability
Update Validation and Data tables for Glucose/Insulin updates
Add some handy comments to system init/setup methods
Improve Baroreceptor communication between Nervous and CV (not sure I like CV looking at Nervous config params)

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

Added serialization support for all new Nervous variables

# Conflicts:
#	cdm/cpp/properties/SEScalar.cpp
#	cdm/cpp/properties/SEScalar.h
#	cdm/cpp/utils/ConfigParser.cpp
#	cdm/cpp/utils/DataTrack.cpp
#	cdm/java/com/kitware/physiology/utilities/csv/CSVContents.java
#	data/Data.xlsx
#	engine/cpp/controller/Controller.cpp
#	engine/cpp/controller/Engine.cpp
#	engine/cpp/controller/Substances.cpp
#	engine/cpp/physiology/BloodChemistry.cpp
#	engine/cpp/physiology/Cardiovascular.cpp
#	engine/cpp/physiology/Cardiovascular.h
#	engine/cpp/physiology/Gastrointestinal.cpp
#	engine/cpp/physiology/Nervous.cpp
#	engine/cpp/physiology/Nervous.h
#	engine/cpp/physiology/Renal.cpp
#	engine/cpp/physiology/Saturation.cpp
#	engine/cpp/physiology/Tissue.cpp
#	engine/cpp/physiology/Tissue.h
#	test/config/DebugRun.config
#	test/config/PatientVerification.config
#	test/config/ScenarioVerification.config
#	test/driver/cpp/main.cpp
#	test/scenarios/patient/BasicStandard.json