On May 8, 2007, at 7:57 PM, Bob Hanson wrote: > Timothy Driscoll wrote: > >> hi Bob, >> >> I think isosurface command, or at least the cavity variety, might be >> broken. this no longer works for me: >> >> isosurface cavsurf1 select(bspocket1) ignore(not bspocket1) cavity >> 0.7 10 >> > No. The following works for me: > > load =1dry > isosurface s1 select(protein) ignore (not protein) cavity 0.7 10 > > > Does that not work for you in the application? > > The only thing I can think of is that there is something odd about > that > bspocket1 definition. Maybe send me the saved state script. If you try > yours with "protein" instead of "bspocket1" does it work? >
it looks like a problem between cavity and the 'load files' feature. for example, this fails: load files "1S1T.pdb" "1S1U.pdb" isosurface s1 select(protein) ignore(not protein) cavity 1.2 10 but variations of regular surface commands work ok: load files "1S1T.pdb" "1S1U.pdb" isosurface s1 select(protein) ignore(not protein) solvent load files "1S1T.pdb" "1S1U.pdb" isosurface s1 select(model=1 and hetero) ignore(not (model=1 and hetero) solvent tim -- Timothy Driscoll em: [EMAIL PROTECTED] Virginia Bioinformatics Institute ph: 540-231-3007 Bioinformatics I: M-1 im: molvisions Washington St., Blacksburg, VA 24061 04-16-07. We will not forget you. ------------------------------------------------------------------------- This SF.net email is sponsored by DB2 Express Download DB2 Express C - the FREE version of DB2 express and take control of your XML. No limits. Just data. Click to get it now. http://sourceforge.net/powerbar/db2/ _______________________________________________ Jmol-developers mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-developers
