diag_footprints: Compares the redistribution footprints for groups in the...

In sgaichas/atlantisdiagnostics: Process Atlantis model output and implements model performance diagnostics

Compares the redistribution footprints for groups in the model

Description

Determine if Groups have the sam footprint for timestep redistribution Horizontal redistribution proportions (FXXX_SY and recruit_hdist) and vertical distributions (vertDAY,vertNIGHT, recruit_vdistrib) are used to compare the spatial extent of the groups.

Usage

diag_footprints(paramList, speciesCodes = NULL)

Arguments

paramList	A list of parameter files (Output of get_atl_paramfiles())
speciesCodes	A character string of the species/group name of interest. Default is NULL (All species)

Value

A data frame. The columns are:

group	Species/Group name
adultJuv	Logical value indicating if the adult and juvenile spatial distributions are the same
recruitJuv	Logival value indicating if the juvenile and recruit spatial distributions are the same

See Also

Other diagnostics: diag_cohortBiomass(), diag_fleet_catch(), diag_maxsize(), diag_persistence(), diag_reasonability(), diag_temp_thresholds()

Examples

## Not run: 
# Declare paths to files required
paramList <- list()
paramList$bgm.file <- "Full path to bgm file"
paramList$biol.prm <- "Full path to biology prm file"
paramList$run.prm <- "Full path to run prm file"
paramList$groups.file <- "Full path to group csv file"
# check for any species that maybe impacted by temperature
diag_footprints(paramList,speciesCodes=NULL)

# check for HERRING and WHITE HAKE
diag_footprints(paramList,speciesCodes=c("HER","WHK"))

## End(Not run)

sgaichas/atlantisdiagnostics documentation built on June 13, 2025, 6:11 a.m.