SSplotSPR {r4ss}

Plot Spawning Potential Ratio (SPR) quantities.

Description

Plot time series of SPR, 1-SPR, the chosen SPR ratio and the phase plot.

Usage

SSplotSPR(
  replist,
  add = FALSE,
  plot = TRUE,
  print = FALSE,
  uncertainty = TRUE,
  subplots = 1:4,
  forecastplot = FALSE,
  col1 = "black",
  col2 = "blue",
  col3 = "green3",
  col4 = "red",
  sprtarg = "default",
  btarg = "default",
  labels = c("Year", "SPR", "1-SPR", "Relative fishing intensity",
    "Relative spawning output"),
  pwidth = 6.5,
  pheight = 5,
  punits = "in",
  res = 300,
  ptsize = 10,
  cex.main = 1,
  plotdir = "default",
  verbose = TRUE
)

Arguments

replist

A list object created by SS_output().

add

add to existing plot (not yet implemented)

plot

plot to active plot device?

print

print to PNG files?

uncertainty

include plots showing uncertainty?

subplots

vector controlling which subplots to create Numbering of subplots is as follows:

1. timeseries of SPR,

2. timeseries of 1 - SPR,

3. timeseries of SPR ratio (as specified in the starter file), and

4. phase plot of Biomass ratio vs SPR ratio (as specified in the starter file).

forecastplot

Include forecast years in plot?

col1

first color used

col2

second color used

col3

third color used

col4

fourth color used

sprtarg

F/SPR proxy target. "default" chooses based on model output, where models which have SPR_report_basis = 0 or 1 specified in the starter file will use the SPR target specified in the forecast file. Models which have SPR_report_basis = 2 will use SPR at MSY for the SPR target and models which have the SPR_report_basis = 3 will use SPR at Btarget for the SPR target in these plots. Zero or negative values of sprtarg input here will cause no horizontal line to be plotted.

btarg

target depletion to be used in plots showing depletion. May be omitted by setting to NA. "default" chooses based on model output.

labels

vector of labels for plots (titles and axis labels)

pwidth

width of plot

pheight

height of plot

punits

units for PNG file

res

Resolution of plots printed to files. The default is res = 300.

ptsize

point size for PNG file

cex.main

character expansion for plot titles

plotdir

directory where PNG files will be written. by default it will be the directory where the model was run.

verbose

report progress to R GUI?

Author(s)

Ian Stewart, Ian Taylor

See Also

SS_plots(), SS_output()