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mcgibbon/sympl: v0.4.0

Jeremy McGibbon; JoyMonteiro; Nick Weber; erol512; T. Chor

v0.4.0

  • Stepper, DiagnosticComponent, ImplicitTendencyComponent, and TendencyComponent base classes were modified to include functionality that was previously in ScalingWrapper, UpdateFrequencyWrapper, and TendencyInDiagnosticsWrapper. The functionality of TendencyInDiagnosticsWrapper is now to be used in Stepper and TendencyStepper objects.
  • Composites now have a component_list attribute which contains the components being composited.
  • TimeSteppers now have a prognostic_list attribute which contains the prognostics used to calculate tendencies.
  • TimeSteppers from sympl can now handle ImplicitTendencyComponent components.
  • Added a check for netcdftime having the required objects, to fall back on not using netcdftime when those are missing. This is because most objects are missing in older versions of netcdftime (that come packaged with netCDF4) (closes #23).
  • TimeSteppers should now be called with individual Prognostics as args, rather than a list of components, and will emit a warning when lists are given.
  • TimeSteppers now have input, output, and diagnostic properties as attributes. These are handled entirely by the base class.
  • TimeSteppers now allow you to put tendencies in their diagnostic output. This is done using first-order time differencing.
  • Composites now have properties dictionaries.
  • Updated basic components to use new component API.
  • Components enforce consistency of output from array_call with properties dictionaries, raising ComponentMissingOutputError or ComponentExtraOutputError respectively if outputs do not match.
  • Added a priority order of property types for determining which aliases are returned by get_component_aliases.
  • Fixed a bug where TendencyStepper objects would modify the arrays passed to them by TendencyComponent objects, leading to unexpected value changes.
  • Fixed a bug where constants were missing from the string returned by get_constants_string, particularly any new constants (issue #27)
  • Fixed a bug in NetCDFMonitor which led to some aliases being skipped.
  • Modified class checking on components so that components which satisfy the component's API will be recognized as instances using isinstance(obj, Class). Right now this only checks for the presence and lack of presence of component attributes, and correct signature of call. Later it may also check properties dictionaries for consistency, or perform other checks.
  • Fixed a bug where ABCMeta was not being used in Python 3.
  • Added initialize_numpy_arrays_with_properties which creates zero arrays for an output properties dictionary.
  • Added reference_air_temperature constant.
  • Fixed bug where degrees Celcius or Fahrenheit could not be used as units on inputs because it would lead to an error.
  • Added combine_component_properties as a public function.
  • Added some unit helper functions (units_are_same, units_are_compatible, is_valid_unit) to public API.
  • Added tracer-handling funcitonality to component base classes.
Breaking changes
  • Implicit, Timestepper, Prognostic, ImplicitPrognostic, and Diagnostic objects have been renamed to TendencyStepper, Stepper, TendencyComponent, ImplicitTendencyComponent, and DiagnosticComponent. These changes are also reflected in subclass names.
  • inputs, outputs, diagnostics, and tendencies are no longer attributes of components. In order to get these, you should use e.g. input_properties.keys()
  • properties dictionaries are now abstract methods, so subclasses must define them. Previously they defaulted to empty dictionaries.
  • Base classes now raise InvalidPropertyDictError when output property units conflict with input property units (which probably indicates that they're wrong).
  • Components should now be written using a new array_call method rather than call. call will automatically unwrap DataArrays to numpy arrays to be passed into array_call based on the component's properties dictionaries, and re-wrap to DataArrays when done.
  • TimeSteppers should now be written using a _call method rather than call. call wraps _call to provide some base class functionality, like putting tendencies in diagnostics.
  • ScalingWrapper, UpdateFrequencyWrapper, and TendencyInDiagnosticsWrapper have been removed. The functionality of these wrappers has been moved to the component base types as methods and initialization options.
  • 'time' now must be present in the model state dictionary. This is strictly required for calls to DiagnosticComponent, TendencyComponent, ImplicitTendencyComponent, and Stepper components, and may be strictly required in other ways in the future
  • Removed everything to do with directional wildcards. Currently '*' is the only wildcard dimension. 'x', 'y', and 'z' refer to their own names only.
  • Removed the combine_dimensions function, which wasn't used anywhere and no longer has much purpose without directional wildcards
  • RelaxationTendencyComponent no longer allows caching of equilibrium values or timescale. They must be provided through the input state. This is to ensure proper conversion of dimensions and units.
  • Removed ComponentTestBase from package. All of its tests except for output caching are now performed on object initialization or call time.
  • "" matches are now enforced to be the same across all quantities of a component, such that the length of the "" axis will be the same for all quantities. Any missing dimensions that are present on other quantities will be created and broadcast to achieve this.
  • dims_like is obsolete as a result, and is no longer used. dims should be used instead. If present, dims from input properties will be used as default.
  • Components will now raise an exception when call of the component base class (e.g. Stepper, TendencyComponent, etc.) if the init method of the base class has not been called, telling the user that the component init method should make a call to the superclass init.

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