Commits on May 18, 2022

1. Add new CLIMAParameters interface …

   Enable get_parameter_values to deal with array-valued parameters
   
   - `get_parameter_values` extracts the requested parameter values and returns
     them as an array. The returned array contains the values corresponding
     to the given list of parameter names (unless a single scalar  parameter is
     requested, in which case the function returns a float), regardless of whether
     these parameters are all of the same type.
   - E.g., given a list of parameter names ["scalar_param", "array_param"] with
     `scalar_param` having a scalar value and `array_param` being array-valued,
     the first element of the returned array will be a float, and the second
     element will be an array
   - Added more tests to `toml_consistency.jl` to check if parsing, extracting,
     and writing of array-valued parameters works. Also added a test for
     `merge_override_default_values`
   
   Enforce types and move `array_parameters.toml` to test folder
   
   Add V0 of TOML file parsing for UQ parameters
   
   Add functionality to write parameter ensembles to toml files
   
   Move docstrings above functions
   
   Add improvements and updates
   
   - save_parameter_ensemble now creates a separate subdirectory for
     each ensemble member, while the name of the saved parameter file
     after each ensemble Kalman update is the same for all members.
     Example:
       iteration_01/member_01/test_parameters.toml
       iteration_01/member_02/test_parameters.toml
       etc
   - correct saving of multidimensional parameters using parameter slices
   
   Move dict version of `write_log_file` from file_parsing.jl to file_parsing_uq.jl
   
   Within the CES API, `write_log_file` will take a parameter dictionary as input
   (rather than a parameter struct containing a parameter dictionary, as in the
   running-the-climate-model API). Since the two APIs will go separate ways in the
   future, the CES version of `write_log_file` should be located in
   `file_parsing_uq.jl`.
   
   added typo-checks for overrides, provides warnings or error on parameter logs
   
   slightly more revealing test
   
   documentation and guides
   
   Modify parsing of UQ parameters to work with new `ParameterDistribution` API
   
   Make tests work
   
   Add regularization flags
   
   Revise based on Ollie's comments, and remove print commands from tests
   
   moved toml and old files into directories
   
   parameter box example (as test set)
   
   Improve create_parameter_struct interface
   
   warn_else_error -> warn_or_error, and docs update
   
   Fix some docs, minor adjustments
   
   Apply formatter
   
   WIP
   
   Refactor

   

   odunbar authored and charleskawczynski committed May 18, 2022
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