read.plot.F.C.out: Read and plot output from Fortran and C simulation programs

In seem: Simulation of Ecological and Environmental Models

Description

Reads output file generated by the simulation programs and plots graphics

Usage

read.plot.cerio.out(file.out.name,sens=F,pdfout=F)
read.plot.river.out(file.out.name,sens=F,pdfout=F)
read.plot.forsucc.out(file.out.name,sens=F,pdfout=F)
read.plot.zelig.out(fileout,spp,grp1,grp2,pdfout=F)
read.plot.semi.out(fileout,spp,label,pdfout=F,plotmarkov=F,ctd=F)

Arguments

file.out.name	name of output file to be read
sens	logical variable to decide whether the output includes sensitivity analysis
pdfout	logical variable to decide whether to produce PDF output
fileout	name of output file to be read
spp	array with codes for species
grp1	array with members of group 1 of species
grp2	array with members of group 2 of species
label	character string for label of plot
plotmarkov	optional logical to decide whether to plot the embedded Markov chain
ctd	optional logical variable to decide how to plot

Details

zelig: produces two figures, one for stand aggregates and one for basal area by species.

forsucc: produces two figures, one for basal area and the other for density. semi: produces two figures, one for Markov chain dynamics and one for semi-Markov dynamics.

Value

From cerio, river, and forsucc:

t	time sequence
x	state variable
val.par	values of parameters
label.var	labels for variables

From semi:

X	output from embedded Markov chain projection
out	output from semi-Markov simulator

From zelig: None

Note

Review documentation on how to use cerio.F, semi.F, zelig.F, river.C, and forsucc.C

The zelig model used here is based on the 2.3 version by D.L. Urban.

Author(s)

Miguel F. Acevedo [e-mail]

References

Acevedo M.F. 2012. Simulation of Ecological and Environmental Models. CRC Press.

Acevedo, M.F., S. Pamarti, M. Ablan, D.L. Urban, and A. Mikler. 2001. Modeling forest landscapes: Parameter estimation from gap models over heterogeneous terrain. Simulation 77:53-68.

Acevedo, M.F., D.L. Urban, and M. Ablan, M. 1995. Transition and gap models of forest dynamics. Ecological Applications 5:1040-1055.

See Also

Interface functions .Fortran, .C, Wrappers F and C functions cerio.F, semi.F, zelig.F, river.C, forsucc.C

Examples

## Not run: 
is.loaded("cerio", PACKAGE="seem")

fileout <- cerio.F("chp10","cerio")
x <- read.plot.cerio.out(fileout,pdfout=TRUE)

is.loaded("river", PACKAGE="seem")
fileout <- river.C("chp14","river-sens")
x <- read.plot.river.out(fileout,sens=TRUE)

spp <- c("Post oak", "Black jack oak", "Winged elm", "GreenAsh",
         "CedarElm", "Hackberry", "BurOak", "Pecan")
grp1 <- c(1:3); grp2 <- c(4:8) #upland 3 spp and bottomland 5 spp

is.loaded("zelig", PACKAGE="seem")
fileout <- zelig.F("chp16","gbc")
x <- read.plot.zelig.out(fileout,spp, grp1, grp2)

fileout <- forsucc.C("chp16","forsucc") # forsucc is fileprefix
x <- read.plot.forsucc.out(fileout, sens=FALSE)

spp <- c("Role1", "Role2", "Role3", "Role4")
fileprefix <- "rolesm"; label <- "Semi-Markov Order 1" 
fileout <- semi.F("chp16",fileprefix)
x <- read.plot.semi.out(fileout, spp, label)

## End(Not run)

seem documentation built on April 14, 2017, 9:12 p.m.