Reached CPU time limit in R

Question

I was running anova of two lme objects (linear mixed effect model in the nlme R package), and loop over ~15,000 times (comparisons). However, I encountered an error which says:

Error in pdConstruct.pdMat(object, value, form, nam, data) : 
  reached CPU time limit

What does this tell me? Is it because of the computational capacity of my computer, or it is inherent in the algorithm in R? Thanks!

Answer 1

I would look at the source code for pdConstruct , as it may have a call to setTimeLimit . Take a look at the help page for the latter to see how you might change the limit.