Configuration class Encapsulates all configuration parameters for the package, with validation. The same object is used for all workflows (evaluation, export, plots), with workflow-specific validation methods.

Public fields

stics_exe: Path to STICS executable (required if init_workspace = TRUE)
usms_workspace: Path to USMs workspace (required if init_workspace = TRUE)
metadata_file: Path to metadata file (required if init_workspace = TRUE)
eval_workspace: Path to evaluation workspace (required)
output_dir: Path to output directory for export workflow (required for export)
run_simulations: Logical. Whether to run simulations or just prepare the workspace.
init_workspace: Logical. Whether to initialize the evaluation workspace (run simulations, prepare metadata, etc.) or assume it's already set up.
parallel: Logical. Whether to run simulations in parallel (only if init_workspace = TRUE).
verbose: Integer. Verbosity level (0 = silent, 1 = info, 2 = debug).
cores: Integer or NA. Number of CPU cores to use for parallel processing (only if parallel = TRUE). NA means auto-detect.
percentage: Numeric. Percentage of simulations to consider for export and plots (between 0 and 100).
reference_version: Character or NULL. If specified, the version in the evaluation workspace to use as reference for export and plots. Must be present in the workspace.
species: Character vector or NULL. If specified, only these species will be included in export and plots.
usms: Character vector or NULL. If specified, only these USMs will be included in export and plots.
var2exclude: Character vector or NULL. If specified, these variables will be excluded from export and plots.

Methods

`Configuration$new()`

Create a Configuration object. Values are validated against a declarative schema.

Usage

Configuration$new(...)

Arguments

...: Named configuration fields. Must match names defined in config_schema$fields. Unspecified fields use their default values. Invalid or unknown fields will trigger validation errors.

`Configuration$validate_eval()`

Validate configuration for evaluation workflow

Usage

Configuration$validate_eval()

`Configuration$validate_export()`

Validate configuration for export

Usage

Configuration$validate_export()

`Configuration$validate_plots()`

Validate configuration for plots

Usage

Configuration$validate_plots()

`Configuration$clone()`

The objects of this class are cloneable with this method.

Usage

Configuration$clone(deep = FALSE)

Arguments

deep: Whether to make a deep clone.