[Bioperl-l] Performance of Bio::Species

Hilmar Lapp hlapp at gmx.net
Tue Nov 21 14:56:18 EST 2006


On Nov 21, 2006, at 2:37 PM, Sendu Bala wrote:

> I don't know if I should hold up release of 1.5.2 for it. Now that  
> you've
> reported on it I'm leaning toward yes, since the new Bio::Species
> implementation is one of the major new features of 1.5.2 and it  
> ought to
> work well.

I disagree to some extent. This is a developer release, so not  
everything is expected to work perfectly.

What's not desirable is if fixing this required another entire  
redesign of the API, so that every dev release introduces different API.

The thing is, you'll really only get trouble reports once you put it  
out and people start using it in anger. Don't expect to make it  
perfect before.

>
> Anyway, for the memory leak I have some ideas I haven't tried yet; I
> don't know if my efforts will solve the speed issue though.

The memory leak sounds more concerning to me. Under which  
circumstances would it crash a script or blow throuhg all of say  
1-2GB when it should have taken only a tenth of that.

	-hilmar

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: Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :
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