I am using simulated annealing, as implemented in R's package GenSa (function GenSA), to search for values of input variables that result in "good values" (compared to some baseline) of a highly dimensional function. I noticed that setting maximum number of calls of the objective function has no effect on the running time. Am I doing something wrong or is this a bug? 
Here is a modification of the example given in GenSA help file. 
library(GenSA)
Rastrigin <- local({ 
  index <- 0  
  function(x){    
    index <<- index + 1    
    if(index%%1000 == 0){
      cat(index, "   ")
    }    
    sum(x^2 - 10*cos(2*pi*x)) + 10*length(x)    
  }  
})
set.seed(1234)
dimension <- 1000
lower <- rep(-5.12, dimension)
upper <- rep(5.12, dimension)
out <- GenSA(lower = lower, upper = upper, fn = Rastrigin, control = list(max.call = 10^4))
Even though the max.call is specified to be 10,000, GenSA calls the objective function more than 46,000 times (note that the objective is called within a local environment in order to track the number of calls). The same problem rises when trying to specify the maximum running time via max.time.