Description Usage Arguments Details Value Examples
This function loads Atlantis outputfiles (netcdf)
1 2 | convert_atlantis_output(model_path, filename, select_groups, select_variable,
biomasspools, aggregate_layers = T)
|
model_path |
Path of the ATLANTIS directory |
filename |
Name of the ouputfile which shall be read in |
select_variable |
ATLANTIS variables which shall be loaded! Only one variable can be loaded at a time! "Only 'N', 'Nums', 'ResN' and 'StructN' |
aggregate_layers |
Specifies of layers shall be aggregated or not? Currently only T is available. |
select_groups |
Vector of groups for which ouput shall be loaded. Should be derived from "functionalGroups.csv" using the column Name. |
biomasspools |
Vector of biomasspool names as given in functionalGroups.csv! |
This functions converts the ATLANTIS output to a dataframe which can be processed in R.
Dataframe in long format with the following informations: Species, timestep, polygon, agecl and value
1 | load_atlantis_output(model_path = "Z://Atlantis//ATLANTIS NSmodel", filename = "outputNorthSea.nc", select_variable = "ResN", biomasspools = c("large_crabs", "small_epifauna", "sessile_epifauna", "epifaunal_macrobenthos"))
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