> Hmmpfam is less impressive, mainly because it spends less time in > the core routines, but as far as I know hmmsearch is the most > important program anyway. Any idea what the speed up is for hmmpfam (which is actually what we are interested in)? Elia > > > > Sean Eddy has also confirmed that he will be including this altivec > > optimization in the next official version of HMMer, whenever that is released. In the > > meantime I've put my optimized version at > > > > http://csb.stanford.edu/lindahl/altivec/ > > > > Since it is licensed under the GPL anybody can use and distribute it. > > Benchmark data from Erik is enclosed in PDF form. > > BioTeam has built a double-clickable Mac OS X package installer for this > code but I've been a slacker and have yet to put it on our website. > Interested parties should email me directly if they want the package > version of these binaries. > > -Chris > > > Elia ******************************** * http://www.fugu-sg.org/~elia * * tel: +65 6874 1467 * * mobile: +65 9030 7613 * * fax: +65 6779 1117 * ********************************