Angel wrote: >> As regards the bad display, select single motif display and then >> Catmat: 48,48,50 . Glu 50 is screwed up. >> > > That looks that an alternate position (Alt) problem; there are e.g. > [Glu]50:A.CD%A and [Glu]50:A.CD%B, and Jmol is drawing both. > I have not used Alt locations, but I know it's been dealt with; > make sure to > read the doc for that. > > Yes! Using the pop-up menu: "Configurations", you have A, B and C; > check > "A" and your funny Glu is gone.
Ah, that's the problem. But although I confirm that selecting Configuration A from the pop-up does the trick I cannot for the life of me get it to work as a script, either in the console or on the page. I checked http://www.stolaf.edu/academics/chemapps/jmol/docs/examples-11/ altloc.htm but "conformation A" does nothing for me. It seems to be 'taking' in the script, because if I load the page that way, I no longer have conformation options on the menu. Any idea what I'm doing wrong? The script was of the type: jmolRadio("echo; restrict (81,82,83) AND protein AND NOT (*.H,*.H?,*.H??, *.H???, *.?H, *.?H?, *.?H??, *.?H???); centre selected; wireframe 0.3; zoom 5000; select [CU], [ZN]; spacefill; ", "", ""); and I've tried 'conformation A' just anywhere it could go. Regarding the jmolSetCheckboxGroup A, Angel replied to my comment: > >> As regards the jmol.js bug, check All Motifs and then uncheck any of >> the ones below. All remains checked. >> > > That is so by design, David; quoting the doc: > "Whenever one of the followers is checked or unchecked, its > siblings are > examined; if all have the same state, the leader will be checked or > unchecked accordingly." > > I know that's debatable, but since there is no "grey" state for a > checkbox, > one choice or the other must be taken. Bob took this. If you > uncheck all > siblings individually, the master wll automatically unckeck. I think the decision was wrong. I would - it was not the one in my original Master/Slave implementation. If all checkboxes are not checked, then it seems to me illogical for the 'leader' - entitled 'All' to be checked. It also seems inconsistent with the rest of the behaviour. However, I can always restore my Master/Slave version to the latest version of Jmol.js, or perhaps give up using JmolCheckboxes for JmolScript (only just discovered it - needed if you want to drive several scripts from one button) and drive it from my own external .js file, which would be easier to maintain. Thanks again for everyone's forbearance. David ------------------------------------------------------------------------- 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-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
