R help - Mar 2005 - Warning: number of items to replace is not a multiple of replacement length

Lyle W. Konigsberg wrote:
> I feel like a complete dolt, as I know this question has been asked by 
> others on a fairly regular basis, but I'm going in circles trying to
get
> the following to work:
> 
> id.prob<-function (tt)
> {
> library(mvtnorm)
> #===========================> Makeham<-function(tt)
> {
> a2=0.030386513
> a3=0.006688287
> b3=0.039047537
> t<-tt-20
> h.t<-a2+a3*exp(b3*t)
> S.t<-exp(-a2*t+a3/b3*(1-exp(b3*t)))
> return(S.t*h.t)
> }
> #==========================> trans<-function (age)
> {
> indic=c(2,2)
> lage=log(age)
>
xpars=c(2.1862908,7.5528077,8.5806697,2.3319461,8.8959507,9.1380187,0.3720293)
> 
> beta<-c(0,0)
> alpha1<-c(0,0)
> alpha2<-c(0,0)
> beta[1]<-xpars[1]
> alpha1[1]<-xpars[2]
> alpha2[1]<-xpars[3]
> beta[2]<-xpars[4]
> alpha1[2]<-xpars[5]
> alpha2[2]<-xpars[6]
> corr<-matrix(rep(0,4),nc=2)
> corr[1,1]=1
> corr[2,2]=1
> corr[1,2]=xpars[7]
> corr[2,1]=corr[1,2]
> 
> LLK<-0
> L<-c(0,0)
> R<-c(0,0)
> 
> for(j in 1:2){
>   if(indic[j]==1){
>     L[j]<--Inf
>     R[j]<-alpha1[j]-beta[j]*lage}
>   if(indic[j]==2){
>     L[j]<-alpha1[j]-beta[j]*lage
>     R[j]<-alpha2[j]-beta[j]*lage}
>   if(indic[j]==3){
>     L[j]<-alpha2[j]-beta[j]*lage
>     R[j]<-Inf}
> }
> 
>   LLK<-pmvnorm(lower=L,upper=R,corr=corr)[1]
> 
> return(LLK)
> }
> 
> #==========================> 
> tot<-Makeham(tt)*trans(tt)
> return(tot)
> }
> 
> 
> And then:
> 
>  > id.prob(20)
> [1] 0.0001417763
>  > id.prob(21)
> [1] 0.00018078
>  > id.prob(20:21)
> [1] 0.0001417763 0.0001375794
> Warning messages:
> 1: number of items to replace is not a multiple of replacement length
> 2: number of items to replace is not a multiple of replacement length
> 3: number of items to replace is not a multiple of replacement length
> 4: number of items to replace is not a multiple of replacement length

Please read some introductory literature regarding the S / R language!
Your code is not vectorizable at all.


In
   tot <- Makeham(tt)*trans(tt)

Makeham has length 2 and works (I guess), but in  trans(tt) you have

   lage=log(age)

which has length 2, but you get also length 2 in

   R[j]<-alpha1[j]-beta[j]*lage}

but assign it to a scalar value.


> Ultimately I need to be able to integrate this function, which isn't 
> going to happen (correctly) if I've messed-up writing the function.  
> Thanks for any advice on this.
> 
> Regards,
> Lyle W. Konigsberg
> Professor of Anthropology
> University of Tennessee
> Knoxville, TN
> LyleK at utk.edu
> 
> ______________________________________________
> R-help at stat.math.ethz.ch mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide! 
> http://www.R-project.org/posting-guide.html

I feel like a complete dolt, as I know this question has been asked by 
others on a fairly regular basis, but I'm going in circles trying to get 
the following to work:

id.prob<-function (tt)
{
library(mvtnorm)
#===========================Makeham<-function(tt)
{
a2=0.030386513
a3=0.006688287
b3=0.039047537
t<-tt-20
h.t<-a2+a3*exp(b3*t)
S.t<-exp(-a2*t+a3/b3*(1-exp(b3*t)))
return(S.t*h.t)
}
#==========================trans<-function (age)
{
indic=c(2,2)
lage=log(age)
xpars=c(2.1862908,7.5528077,8.5806697,2.3319461,8.8959507,9.1380187,0.3720293)
beta<-c(0,0)
alpha1<-c(0,0)
alpha2<-c(0,0)
beta[1]<-xpars[1]
alpha1[1]<-xpars[2]
alpha2[1]<-xpars[3]
beta[2]<-xpars[4]
alpha1[2]<-xpars[5]
alpha2[2]<-xpars[6]
corr<-matrix(rep(0,4),nc=2)
corr[1,1]=1
corr[2,2]=1
corr[1,2]=xpars[7]
corr[2,1]=corr[1,2]

LLK<-0
L<-c(0,0)
R<-c(0,0)

for(j in 1:2){
   if(indic[j]==1){
     L[j]<--Inf
     R[j]<-alpha1[j]-beta[j]*lage}
   if(indic[j]==2){
     L[j]<-alpha1[j]-beta[j]*lage
     R[j]<-alpha2[j]-beta[j]*lage}
   if(indic[j]==3){
     L[j]<-alpha2[j]-beta[j]*lage
     R[j]<-Inf}
}

   LLK<-pmvnorm(lower=L,upper=R,corr=corr)[1]

return(LLK)
}

#==========================
tot<-Makeham(tt)*trans(tt)
return(tot)
}


And then:

 > id.prob(20)
[1] 0.0001417763
 > id.prob(21)
[1] 0.00018078
 > id.prob(20:21)
[1] 0.0001417763 0.0001375794
Warning messages:
1: number of items to replace is not a multiple of replacement length
2: number of items to replace is not a multiple of replacement length
3: number of items to replace is not a multiple of replacement length
4: number of items to replace is not a multiple of replacement length

Ultimately I need to be able to integrate this function, which isn't going 
to happen (correctly) if I've messed-up writing the function.  Thanks for 
any advice on this.

Regards,
Lyle W. Konigsberg
Professor of Anthropology
University of Tennessee
Knoxville, TN
LyleK at utk.edu