Sun, 20 Dec 2009

Rcpp and inline example

Following up on yesterday's Rcpp 0.7.0 release, here is a quick example of why the new feastures can be so useful.

The following R code defines a character variable gslrng. This variable contains a short C++ code segment, which is then transformed by the function cfunction into a function of two arguments assigned to funx:

    ## now use Rcpp to pass down a parameter for the seed, and a vector size
    gslrng <- '
       int seed = RcppSexp(s).asInt();
       int len = RcppSexp(n).asInt();

       gsl_rng *r;
       std::vector<double> v(len);

       r = gsl_rng_alloc (gsl_rng_default);

       gsl_rng_set (r, (unsigned long) seed);
       for (int i=0; i<len; i++) {
           v[i] = gsl_rng_get (r);

       return RcppSexp(v).asSexp();

    ## turn into a function that R can call
    ## compileargs redundant on Debian/Ubuntu as gsl headers are found anyway
    funx <- cfunction(signature(s="numeric", n="numeric"),
                      includes="#include <gsl/gsl_rng.h>",
                      libargs="-lgsl -lgslcblas")
    print(funx(0, 5))

The signature argument to cfunction defines two variables s and n -- which the C++ function then reads in from R and converts to two integers seed and len. seed is used to initialize the random-number generator, and len draws are then taken and stored in the STL vector v which returned at the end.

As the R level, we now have a function of two arguments returning a vector of RNG draws of the given lenth and using the given seed.

Also note how we tell cfunction to add the GSL include line, specify that we want to compile and link against Rcpp and provide -I and -L arguments to compile and link with the GSL. (The include statement is not needed as the compiler would have found them in /usr/include anyway, but it shows how to set this if needed.)

Finally, we simply call our freshly compiled, linked and loaded C++ function with arguments zero for the seed and five for the length, and print the results vector returned to R from C++.

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