On Thu, Jun 17, 2010 at 3:41 PM, hari jayaram <harijay@gmail.com> wrote:
In my tests obj01 is the object created from a selection and then the
property set for that object. But it seems that this does not just
create a cylindrical helix for just that object.

For some reason the cartoon_cylindrical_helices property is not
handled the way other set properties are and that the object alone is
not allowed to have a different value than the rest of the molecules.

I just tried this with MacPyMOL 1.2 using objects loaded directly from two different PDB files and it worked, so I suspect there is some issue with how you are creating the object.  The only settings that I've encountered so far that can only be applied globally are ray-tracing parameters.