DoProjectPlots: Make plots from Rebuilder program

In r4ss: R Code for Stock Synthesis

Make plots from Rebuilder program

Description

Make a set of plots based on output from Andre Punt's Rebuilder program.

Usage

DoProjectPlots(
  dirn = "C:/myfiles/",
  fileN = c("res.csv"),
  Titles = "",
  ncols = 200,
  Plots = list(1:25),
  Options = list(c(1:9)),
  LegLoc = "bottomright",
  yearmax = -1,
  Outlines = c(2, 2),
  OutlineMulti = c(2, 2),
  AllTraj = c(1, 2, 3, 4),
  AllInd = c(1, 2, 3, 4, 5, 6, 7),
  BioType = "Spawning biomass",
  CatchUnit = "(mt)",
  BioUnit = "(mt)",
  BioScalar = 1,
  ColorsUsed = "default",
  Labels = "default",
  pdf = FALSE,
  pwidth = 6.5,
  pheight = 5,
  lwd = 2
)

Arguments

dirn	Directory (or vector of directories) where rebuilder output files are stored.
fileN	Vector of filenames containing rebuilder output. Default=c("res.csv").
Titles	Titles for plots when using multiple filenames. Default="".
ncols	Number of columns to read in output file (fileN). Default=200.
Plots	List to get specific plots (currently 1 through 8). Default=list(1:25). If there are multiple files, supply a list of vectors, e.g. list(c(1,5),c(2:5))
Options	List to get specific strategies in the trajectory plots. Default=list(c(1:9)).If there are multiple files, supply a list of vectors, e.g. list(c(1,5),c(2:5))
LegLoc	Location for the legend (for plots with a legend). Default="bottomright".
yearmax	Maximum year to show in the plots. Set negative to show all years. Default=-1.
Outlines	Number of rows, columns for some of the plots. Default=c(2,2).
OutlineMulti	Number of rows, columns for other plots. Default=c(2,2).
AllTraj	Vector of trajectories to show. Default=c(1,2,3,4).
AllInd	Vector of individual plots to show. Default=c(1,2,3,4,5,6,7).
BioType	Label for biomass type. Default="Spawning biomass".
CatchUnit	Units of catch. Default="(mt)".
BioUnit	Units of biomass. Default="(mt)".
BioScalar	Scalar for biomass plot. Default=1.
ColorsUsed	Optional vector for alternative line colors. Default="default".
Labels	Optional vector for alternative legend labels. Default="default".
pdf	Option to send figures to pdf file instead of plot window in Rgui. Default=FALSE.
pwidth	Width of the plot window or PDF file (in inches). Default=7.
pheight	Height of the plot window or PDF file (in inches). Default=7.
lwd	Line width for many of the plot elements. Default=2.

Author(s)

Andre Punt, Ian Taylor

Examples

## Not run: 
# example with one file
DoProjectPlots(
  dirn = "c:/myfiles/", Plots = 1:8,
  Options = c(1, 2, 3, 4, 5, 9), LegLoc = "bottomleft"
)

# example with multiple files
# Plots - set to get specific plots
# Options - set to get specific strategies in the trajectory plots

Titles <- c("Res1", "Res2", "Res3")
Plots <- list(c(1:9), c(6:7))
Options <- list(c(7:9, 3), c(5, 7))
DoProjectPlots(
  fileN = c("res1.csv", "res2.csv"), Titles = Titles, Plots = Plots,
  Options = Options, LegLoc = "bottomleft", yearmax = -1,
  Outlines = c(2, 2), OutlineMulti = c(3, 3), AllTraj = c(1:4),
  AllInd = c(1:7), BioType = "Spawning numbers", BioUnit = "(lb)",
  BioScalar = 1000, CatchUnit = "(lb)",
  ColorsUse = rep(c("red", "blue"), 5),
  Labels = c("A", "B", "C", "D", "E", "F")
)

## End(Not run)

r4ss documentation built on May 28, 2022, 1:11 a.m.