Create empty MizerParams object of the right size

Sets up a valid MizerParams object with all the slots initialised and given dimension names, but with some slots left empty. This function is to be used by other functions to set up full parameter objects.

emptyParams(
  species_params,
  no_w = 100,
  min_w = 0.001,
  max_w = NA,
  min_w_pp = NA,
  no_w_pp = NA
)

Arguments

species_params	A data frame of species-specific parameter values.
no_w	The number of size bins in the consumer spectrum.
min_w	Sets the size of the eggs of all species for which this is not given in the w_min column of the species_params dataframe.
max_w	The largest size of the consumer spectrum. By default this is set to the largest w_inf specified in the species_params data frame.
min_w_pp	The smallest size of the plankton spectrum.
no_w_pp	No longer used

Value

An empty but valid MizerParams object

Details

See newMultispeciesParams for a function that fills the slots left empty by this function.

A size grid is created so that the log-sizes are equally spaced. The spacing is chosen so that there will be no_w fish size bins, with the smallest starting at min_w and the largest starting at max_w. For w_full additional size bins are added below min_w, with the same log size. The number of extra bins is such that min_w_pp comes to lie within the smallest bin.

The species_params slot of the returned MizerParams object may differ slightly from the data frame supplied as argument to this function in the following ways:

• Default values are set for w_min, w_inf, alpha, gear, interaction_p.

• The egg sizes in w_min are rounded down to lie on a grid point.

Note that the other characteristic sizes of the species, like w_mat and w_inf, are not modified to lie on grid points.