Jason Grout wrote: > Carlo Hamalainen wrote: >> On Wed, Sep 16, 2009 at 7:46 PM, Jason Grout >> <jason-s...@creativetrax.com> wrote: >>> R has a C interface for lots of functions (like the distribution >>> functions that I wanted today). I imagine that a stats module would use >>> Cython to call the C functions for these sorts of things, but then use >>> rpy2 for the rest of the interaction with R. >> Which distribution functions did you want? Are these of any use? >> http://trac.sagemath.org/sage_trac/ticket/6827 >> > > > I tried generating lots of normally distributed values after applying > the patch. It seems that scipy was the winner by far for speed: > > sage: a=RealDistribution('gaussian', 2) > sage: %timeit [a.get_random_element() for _ in range(1000)] > 100 loops, best of 3: 2.87 ms per loop > sage: import scipy.stats > sage: %timeit scipy.stats.norm.rvs(0,2,size=1000) > 1000 loops, best of 3: 252 µs per loop > sage: %timeit r.rnorm(1000,0,2).sage() > 10 loops, best of 3: 37 ms per loop >
Actually, using rpy2 (and R 2.9.2), the new R<->Python interface, we can get much closer to the scipy timing: sage: import rpy2 sage: import rpy2.robjects as robjects sage: %timeit numpy.array(robjects.r.rnorm(int(1000),int(0),int(2))) 1000 loops, best of 3: 782 µs per loop lgautier, feel free to correct my example to make it faster! My draft of an updated R and rpy2 spkg is at http://sage.math.washington.edu/home/jason/r-2.9.2.spkg. There are unchecked-in changes in the spkg, and I just ignored a bunch of old patches to R because I wasn't sure they applied anymore, so the spkg is not finished. Andrew, if you want to take the spkg and work with William to make sure that it is a good spkg (e.g., the appropriate patches get pulled over from the old spkg, etc.), go right ahead! I think someone like William or one of the other spkg experts around here will do much better than me at untangling the old patches and figuring out if we need to have them anymore. Jason -- Jason Grout --~--~---------~--~----~------------~-------~--~----~ To post to this group, send an email to sage-devel@googlegroups.com To unsubscribe from this group, send an email to sage-devel-unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/sage-devel URL: http://www.sagemath.org -~----------~----~----~----~------~----~------~--~---
