Global ChainView::GetResidueList () const: Residue list may be unordered. Is it the responsibility of the method building the view to have them ordered or is it our job?
Global EntityVisitor::VisitBond (const BondHandle &b): not implemented for views
Global EntityVisitor::VisitTorsion (const TorsionHandle &t): Not implemented for views
Global ResidueImpl::FindAtom (const String &aname) const: make the return type a AtomImplList, since there may be several atoms with the given name.