I got a bug in pymol with .pl file produced by pdbsum clefts (see this link, http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl?pdbcode=1fcc&template=clefts.html&pdbcode=1fcc&r=speedfill
open the rasmol format clefts file, it will open in .pl formate), which produces 3D coordinates with perl script to make different colors in the surface clefts based on the cleft volume and depth. when i download it as .pl file and it can be open by pymol or rasmol, the problem is the clefts which are shown in different colors by perl script is not working. what i am getting is all the clefts are colored in
same, so i cant able to distinguish the clefts depth by color difference, here the problem is the perl coding for making colors is not recognized by the pymol or rasmol programs.
can anyone help out on this bug.