Nothing
#
# vim:set ff=unix expandtab ts=2 sw=2:
# This test function is automatically produced by the python script:/home/mm/SoilR/RPackages/SoilR/pkg/inst/tests/Rexample.py
test.op=function(){
c1=1
k1=9/10
t_start=0
t_end=2
tn=100
tol=.02/tn
#print(tol)
timestep=(t_end-t_start)/tn
t=seq(t_start,t_end,timestep)
A=new(
"ConstLinDecompOp",
matrix(
nrow=1,
ncol=1,
c(
-k1
)
)
)
inputrates=new("TimeMap",t_start,t_end,function(t){return(matrix(
nrow=1,
ncol=1,
c(
0
)
))})
Y=matrix(ncol=1,nrow=length(t))
Y[,1]=c1*exp(-9*t/10)
R=matrix(ncol=1,nrow=length(t))
R[,1]=9*c1*exp(-9*t/10)/10
meanTransitTime=1/k1
mod=GeneralModel(
t,
A,
c(
c1
),
inputrates,
deSolve.lsoda.wrapper
)
Yode=getC(mod)
Rode=getReleaseFlux(mod)
meanTransitTimeode=getMeanTransitTime(
A,
c(
c1
)
)
TTDode=getTransitTimeDistributionDensity(
A,
c(
c1
),
t
)
#begin plots
lt1=2
lt2=4
pdf(file="runit.automatic.op.pdf",paper="a4")
m=matrix(c(1,2,3),3,1,byrow=TRUE)
layout(m)
plot(t,Y[,1],type="l",lty=lt1,col=1,ylab="Concentrations",xlab="Time")
lines(t,Yode[,1],type="l",lty=lt2,col=1)
legend(
"topright",
c(
"anylytic sol for pool 1",
"numeric sol for pool 1"
),
lty=c(lt1,lt2),
col=c(1,1)
)
plot(t,R[,1],type="l",lty=lt1,col=1,ylab="Respirationfluxes",xlab="Time",ylim=c(min(R),max(R)))
lines(t,Rode[,1],type="l",lty=lt2,col=1)
legend(
"topright",
c(
"anylytic sol for pool 1",
"numeric sol for pool 1"
),
lty=c(lt1,lt2),
col=c(1,1)
)
plot(t,TTDode,type="l",lty=lt1,col=1,ylab="TransitTimeDistributionDensity",xlab="Time")
dev.off()
# end plots
# begin checks
checkEquals(
Y,
Yode,
"test numeric solution for C-Content computed by the ode mehtod against analytical",
tolerance = tol,
)
checkEquals(
R,
Rode,
"test numeric solution for Respiration computed by the ode mehtod against analytical",
tolerance = tol,
)
#print(meanTransitTime)
#print(meanTransitTimeode)
checkEquals(
meanTransitTime,
meanTransitTimeode,
"test numeric solution for the mean transit Tiye computed by the ode mehtod against analytical value taken from manzoni et al",
tolerance = tol,
)
}
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