Dear All,
I am using google perftools to profile C++ called with Rcpp (following the
very neat blog http://pj.freefaculty.org/blog/?p=140 by Paul E. Johnson).
This is an example of the output I get from the google perftools (after
sorting the output), when I focus on function "Algorithm5M" (the one
called from R).
12025 7.0% 83.5% 12028 7.0% __copy_m (inline)
9283 5.4% 95.6% 13687 8.0% std::vector::size (inline)
78442 45.8% 45.8% 82709 48.2% std::vector::operator[] (inline)
0 0.0% 100.0% 152024 88.7% Rf_ReplIteration
0 0.0% 100.0% 171437 100.0% bcEval
0 0.0% 100.0% 171437 100.0% do_begin
0 0.0% 100.0% 171437 100.0% do_dotcall
0 0.0% 100.0% 171437 100.0% do_eval
0 0.0% 100.0% 171437 100.0% do_set
0 0.0% 100.0% 171437 100.0% do_subset
0 0.0% 100.0% 171437 100.0% forcePromise
0 0.0% 100.0% 171437 100.0% FORCE_PROMISE (inline)
0 0.0% 100.0% 171437 100.0% getvar (inline)
0 0.0% 100.0% 171437 100.0% Rf_applyClosure
0 0.0% 100.0% 171437 100.0% Rf_DispatchOrEval
0 0.0% 100.0% 171437 100.0% Rf_eval
52626 30.7% 76.5% 171437 100.0% Algorithm5M
I guess that things such as Rf_eval, Rf_applyClosure, etc, should show in
100% of the profiling samples (the 5th column). In other words, in terms
of improving my code, I can forget about all those 100% lines. However, I
was surprised by Rf_ReplIteration. I was expecting it to either show up in
100% of the samples, or show up in a lot fewer.
Am I doing something silly when using Rcpp and calling my function (i.e.,
that 87% reflects that I could be using it more efficiently), or is this
something I should expect (I am happy to provide full examples, etc, but I
didn't want to fill up the list with unnecessary stuff, especially since I
think my confusion is due to my not understanding something about
Rf_ReplIteration).
Best,
R.
--
Ramon Diaz-Uriarte
Department of Biochemistry, Lab B-25
Facultad de Medicina
Universidad Autónoma de Madrid
Arzobispo Morcillo, 4
28029 Madrid
Spain
Phone: +34-91-497-2412
Email: rdia...@gmail.com
ramon.d...@iib.uam.es
http://ligarto.org/rdiaz
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