Dear all, using the latest prerelease version of jmol, prerelease 11.6.RC15, I have questions on two issues that I've found difficult for a while:
1) (minor) For two initially unconnected atoms, connect (atomno=70) (atomno=111) hbond orange radius 0.05 does not work. Doing first connect (atomno=70) (atomno=111) hbond and then connect (atomno=70) (atomno=111) hbond orange radius 0.05 produces the desired result. Any reason why the original command does not work out of the box? 2) Regarding cartoons (ribbons etc) - I have found it excessively tedious to get a ribbon into what is obviously a helix in a structure of mine. Doing this based on an xyz file is obviously impossible. Converting first to a .pdb file, then hand-editing the pdb file to get CA's and CB's right gets the ribbon for me correctly in one structure, but not in another (exactly same procedure). Questions: What exact information does jmol even require to safely produce a ribbon? For me, this was a rather frustrating "guessing in the dark experience. Empirically, it's - a pdb file - numbered residues, perhaps their names - correctly specified CA's and CB's - ??? what else? Is there any reason why a ribbon should not be producable by "simply" specifying the atoms to be connected from within jmol itself? Having such a feature available would be a great help .... thanks & best wishes V. Blum ------------------------------------------------------------------------- This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK & win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100&url=/ _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
