For such a large chunk of code, you might profit greatly from constructing an R package containing your functions. This will avoid the need to parse in the entire set every time, since the functions will be "pre-parsed" during the package installation.
-G On Jun 2, 2008, at 5:45PM , Duncan Murdoch wrote: > On 02/06/2008 5:28 PM, Dennis Fisher wrote: > > Colleagues, > > > > I have a script that contains ~ 10,000 lines of code. Most of it is > > written as small functions. However, for various reasons, the final > > function is ~1500 lines of code. I realize that this may not be > > optimal but the code evolved that way and breaking it into smaller > > pieces is complicated because of the passing of arguments. I have > > "cat(date())" statements at various places in the code so that I can > > track the actions as the script is executed. > > > > I am running version 2.7.0 on a quad processor Mac and I call the > > script from the OS: R --slave < Script.R > > > > It takes ~ 5 seconds for R to read the first 8000 lines of code (as > > indicated by the time difference between the first record of the > file > > and the date issued immediately before the large function). Then, > > reading the large function (1500 lines) takes ~ 1 minute. I have > > improved the delay by moving some of the code from the large > function. > > > > I don't understand why the second portion of the code is read so > much > > slower than the first. In that the code is a function, I presume > that > > nothing within the function is executed until the function is > called. > > > > Does anyone have any experience with this issue? > > I haven't seen this sort of thing. I just wrote a (very simple and > repetitive) 4000 line function and R read it in 4 seconds. I think > you'll need to post the actual function somewhere to see if your one > minute timing is reproducible. > > It's possible that it happens because R is short of memory, and > needs to > do a lot of swapping and garbage collection for the big function; > trying > to load that function and do nothing else except print the timings > might > be informative. > > Duncan Murdoch > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting- > guide.html > and provide commented, minimal, self-contained, reproducible code. > Gregory R. Warnes, Ph.D. Associate Professor Center for Biodefence Immune Modeling and Department of Biostatistics and Computational Biology University of Rochester [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
