Creates post-processing output for Atlantis
Source:R/compare_spatial_vars.R
compare_spatial_vars.RdCreates post-processing output for Atlantis
Usage
compare_spatial_vars(
param.dir,
run.dirs,
run.names,
ref.data,
init.data,
out.dir,
out.name,
param.ls,
data.type = "proportion",
comparison.type = "difference",
ref.years,
speciesCodes = NULL,
plot = T
)Arguments
- param.dir
string. Path to location of atlantis parameter files
- run.dirs
character vector of paths to location of atlantis output files
- run.names
character vector of run names corresponding to run.dirs
- ref.data
dataframe that contains reference spatial data with format (polygon|species|var.name|statistic|ref.value)
- init.data
dataframe that contains initial spatial data with format (polygon|species|var.name|statistic|init.value)
- out.dir
string. path to desired location of post-processed output
- out.name
string. name for output file prefix
- param.ls
list generated from get_atl_paramfiles()
- data.type
which type of data is being compared: 'proportion','value'
- comparison.type
which type of comparison should be made: 'difference','scalar'
- ref.years
numeric vector with first and last year (years from start) for comparison period
- speciesCodes
character vector. List of species to make plots for. Defaul = NULL (All species)
- plot
logical. do you want to generate a plot