Maybe that's why you need a cluster... Rather than spend labor time making the code faster, just buy a faster machine (assuming Amdahl's law doesn't bite you). Especially for some specialized domain areas, there may not be more labor time available to buy, at any price.
I don't know how sophisticated they are, but python does do some sort of compilation, just like matlab and octave do, it's just done on the fly. So it's not like you're going to interpret the inside of the loop over and over again. On 11/8/12 5:52 AM, "Skylar Thompson" <skylar.thomp...@gmail.com> wrote: >On 11/08/12 02:35, Tim Cutts wrote: >> On 8 Nov 2012, at 10:10, Andrew Holway <andrew.hol...@gmail.com> wrote: >> >> >>> It's all a bit academic now (ahem) as the MPI component is a Perl >>> program, and Perl isn't supported on BlueGene/Q. :-( >>> >>> huh? perl mpi? >>> >>> Interpreted language? High performance message passing interface? >>> >>> confused. >>> >> Welcome to the wonderful world of bioinformatics and genomics "high >>performance" computing. Didn't you know that perl, python, ruby and >>java are all much faster than C and FORTRAN? Apparently it's a >>well-known fact, and what would I, a mere system administrator, know >>otherwise? >> >> Sarcasm mode off now. >> >> Tim >> >> >I guess if your development time is sufficiently shorter than the >equivalent compiled code, it could make sense. In Genome Sciences here >at University of Washington, the grad students are taught Python and R, >and there's a number of people who love the Python MPI bindings. We also >have some C MPI users, but it's not as popular as Python. > >I supposed what you can say is, for the right application, Python MPI >certainly is faster than serial Python. > >Skylar >_______________________________________________ >Beowulf mailing list, Beowulf@beowulf.org sponsored by Penguin Computing >To change your subscription (digest mode or unsubscribe) visit >http://www.beowulf.org/mailman/listinfo/beowulf _______________________________________________ Beowulf mailing list, Beowulf@beowulf.org sponsored by Penguin Computing To change your subscription (digest mode or unsubscribe) visit http://www.beowulf.org/mailman/listinfo/beowulf
