Frieda wrote: > I seem to be finding that the "color group" command is broken in Jmol > 10.00.24 and 10.00.22.
I agree ... it is broken. > It works fine in the 10.00 application and applet. Looks to me like it was broken in the 10.00 release as well ... not that it really matters. I have fixed this and it is in the 10.00.32 prerelease. color <object> monomer was also broken. Frieda ... note that I think that you may want to be using 'color <object> monomer' instead of 'color <object> group' 'group' uses the position of the group (residue) relative to its chain as defined in the .pdb file. 'monomer' uses the position of the monomer relative to the polymer. The 'monomer/polymer' mechanism should be more robust than the 'group/chain' ... an example: Let's say that you have a chain that is cleaved into separate chunks. Using group/chain they will still be considered a single chain. Jmol recognizes this broken chain as two separate polymers, so using monomer/polymer the coloring will correctly show the two polymers. Note that Jmol will not currently 'merge' two (or more) chains that are bonded to form a single polymer. Miguel ------------------------------------------------------- SF.Net email is Sponsored by the Better Software Conference & EXPO September 19-22, 2005 * San Francisco, CA * Development Lifecycle Practices Agile & Plan-Driven Development * Managing Projects & Teams * Testing & QA Security * Process Improvement & Measurement * http://www.sqe.com/bsce5sf _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
