e2e_extract_start: Extract the values of all the state variables at the end of a...
In StrathE2E2: End-to-End Marine Food Web Model

Description Usage Arguments Details Value See Also Examples

The function saves the state of the model at the end of a run (using the e2e_run() function) for use as initial conditions in future runs. This enables, for example, the model to be run for a long time to attain a stationary state, and then restarted in that state.

1	e2e_extract_start(model, results, csv.output = TRUE)

`model`	R-list object defining the model configuration compiled by the e2e_read() function.
`results`	R-list object generated by the e2e_run() function.
`csv.output`	Logical. If TRUE then enable writing of csv output files (default=FALSE).

Initial conditions for a model run are held in the /Param folder of the Model/Variant path specified in the e2e_read() function call used to define a run. By default, the function attampts to write the model end-state file back to this /Param folder. However, the package folders are read-only so if e2e_read() has been specified to load an internally provided Model/Variant then the output will revert to the currently specified results folder instead. To fix this, copy the required package model to a user workspace using the e2e_copy() function and re-run.

The new initial conditions file will have a name initial_values-*.csv, where * is the model.ident text identifier specified in e2e_read() To source the new initial conditions in a subsequent model run, edit the MODEL_SETUP.csv file in the required /Models/Variant folder

Table of state variable values from the end of a run formatted as required for input to a new model run as initial conditions. By selecting csv.output=TRUE these data are also returned as a csv file to the Param folder of the current model, unless this is one of the North Sea model versions within the package.

e2e_read, e2e_run

# Example which generates an initial values object from an internal North Sea model but
# does not attempt to save it back to the Parameters folder of the model setup. Just
# run for 1 year in this example:
    model <- e2e_read("North_Sea", "2003-2013")
    results <- e2e_run(model, nyears=1)
    new_initial <- e2e_extract_start(model,results,csv.output=FALSE)
    new_initial

# Dummy example to illustrate the process of saving initial values
# data back into the model Param folder:
# Assumes that the model setup is held in models.path="Folder/Models". Replace this
# with your own relative path to your user library of models:
#    model <- e2e_read("Modelname","Variantname",models.path="Folder/Models",model.ident="new")
#    results <- e2e_run(model, nyears=30)
#    new_initial <- e2e_extract_start(model,results,csv.output=TRUE)
# The new initial values file will be written back into Folder/Models/Param with 
# the identitifer "new"