Emilio Xavier Esposito wrote on 05/06/2011 08:44 AM:
...
> I have also noticed that some packages (pdb2pka; part of the pdb2pqr
> package http://www.poissonboltzmann.org/pdb2pqr/ ) cannot find
> portions of numpy (also installed) during compiling.

That does not seem to be a SL issue so much as a pdb2pqr issue.

Have you tried their "Getting Help" resources?

http://www.poissonboltzmann.org/pdb2pqr/mailing-lists

Phil