Altitude definitions

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hMSL
gps.hmsl is height in mm above mean sea level (height above geoid)
gps altitude
gps.lla_pos.alt is height in mm above WGS84 reference ellipsoid
ground alt
ground altitude (above hMSL) defined by flightplan


JSBsim uses GEOCENTRIC instead of GEODETIC latitude and altitude see FlightGear CoordinateSystem