hbonds -- I'm not seeing this problem at http://www.stolaf.edu/academics/chemapps/jmol/docs/examples-11/new.htm
load 1dry hbonds calculate and then a click to create a new resizable applet definitely shows the hbonds. which isosurface is not showing? I'm seeing them show up in the saved state, at least in the preliminarly Jmol 11.1.28 on the St. Olaf site. Can you be more specific? On 3/31/07, Frieda Reichsman <[EMAIL PROTECTED]> wrote: > Hi Bob, > > OK, have checked this. Sorry it took a while. > > Not fixed in 11.1.27: > Isosurface is created but not shown. > Hydrogen bonds created and appear, but not rendered as per additional > commands (i.e., thicker, black). > > Fixed in 11.27: > Backbone does seem to get turned off appropriately now. > Background applet color is reproduced correctly. > > Frieda > > > > > On Mar 24, 2007, at Mar 24, 6:03 PM, Bob Hanson wrote: > > Frieda, can you verify that these are or are not fixed in 11.1.27, please. > > On 3/21/07, Frieda Reichsman <[EMAIL PROTECTED]> wrote: > > > > On Mar 21, 2007, at 2:21 PM, [EMAIL PROTECTED] wrote: > from the Jmol application (not applet): > write state "somefile.spt" > then, at your leisure: > script "somefile.spt" > > should get you back EXACTLY where you left off. If it doesn't I want to > know! > > A couple of things that were not reproduced exactly with write state in Jmol > 11.1.18: > > - background applet color was black instead of white. > - incomplete rendering of hydrogen bonds created/modified with the connect > command > - backbone trace applied through most of the model was extended into an area > where it had not been present, when the state script was called after a > script that had the entire backbone in trace (i.e., it did not turn the > trace off in that area. I don't know whether a state script is intended to > work from a "blank slate" or whether it should be able to follow any other > script.) > - problem with isosurface, I think it did not appear. I know I wound up > putting it in by hand. > > Frieda > > > > /////////////////////////////////////////// > > > > > Frieda Reichsman, PhD > > Molecules in Motion > > Interactive Molecular Structures > > http://www.moleculesinmotion.com > > > > > /////////////////////////////////////////// > > > ------------------------------------------------------------------------- > Take Surveys. Earn Cash. Influence the Future of IT > Join SourceForge.net's Techsay panel and you'll get the chance to share your > opinions on IT & business topics through brief surveys-and earn cash > http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV > _______________________________________________ > Jmol-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > > > ------------------------------------------------------------------------- > Take Surveys. Earn Cash. Influence the Future of IT > Join SourceForge.net's Techsay panel and you'll get the chance to share your > opinions on IT & business topics through brief surveys-and earn cash > http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV > _______________________________________________ > Jmol-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > /////////////////////////////////////////// > > > > > Frieda Reichsman, PhD > > Molecules in Motion > > Interactive Molecular Structures > > http://www.moleculesinmotion.com > > > > > /////////////////////////////////////////// > > > ------------------------------------------------------------------------- > Take Surveys. Earn Cash. Influence the Future of IT > Join SourceForge.net's Techsay panel and you'll get the chance to share your > opinions on IT & business topics through brief surveys-and earn cash > http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV > _______________________________________________ > Jmol-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/jmol-users > > ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys-and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
