[Bioperl-l] SearchIO speed up

Sendu Bala bix at sendu.me.uk
Thu Aug 10 15:23:38 EDT 2006

Chris Fields wrote:
> I agree with the thought of retaining some degree of OO.  I still  
> wonder how much object instantiation really affects speed vs. all  
> those method calls.

All the SAX-like calls you mean? I'll investigate that with my hmmpfam 
parser, since I have to come up with a new system anyway. Those methods 
are certainly the limiting step remaining, but I don't envisage another 
5x speed up is possible, so don't get your hopes up! ;)

More information about the Bioperl-l mailing list