From: Erik N. <nel...@gm...> - 2012-11-27 17:23:28
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I use pymol to generate images of simple polymers by loading their coordinates as .pdb files. The 'polymer .pdb' files contain only alpha carbon coordinates. I connect them using the ribbon_trace option, and color them by varying b-factors in the .pdb file. I had created many different movies and figures this way, and I saved the sessions as .pse files. Just recently, I went back to view some of these sessions and they just loaded as blank screens. I tried creating more images as before - using the ribbon_trace option to connect the atoms - but it no longer works. I'm pretty sure I didn't change any options in pymol, so I'm wondering if pymol somehow updated itself, or some update of my mac airbook affected the pymol program. Neither of these seems very likely. What went wrong? Is there a way I can fix this? A more general question. It seems like there must be a better way to visualise a polymer, say as a ball an stick image. Is there a more straight forward way of doing this in pymol? Thanks, Erik -- Erik Nelson Howard Hughes Medical Institute 6001 Forest Park Blvd., Room ND10.124 Dallas, Texas 75235-9050 p : 214 645 5981 f : 214 645 5948 |