Bob Hanson wrote: > load "1vwh" "alt/1VWH.cif" "alt/1VWH.cif";color altloc;restrict > none;select *;cartoon on > model 1001;conformation 1 > model 2001;conformation 2 > model 0 > > Do you see what that is doing? > >
It first loads "1VWH.cif" twice as separate models, setting "1vwh" as the name displayed. Then it colors by altloc and displays only cartoon. With "conformation 1/2" the cartoon is calculated for both conformations. And finally both models are displayed simultaneously. Very nice! But I don't understand how the conformation commands are restricted to a specific model. After loading the command "select *" selects all 4494 atoms from both models. "model 1001" doesn't change the selection. After "conformation 1" no atoms are selected any more. "model 2001" doesn't change the selection. After "conformation 2" still no atoms are selected. Another question is how the conformation numbers "1","2" correspond to the altLoc indicators? At least in the PDB format file they are "A","B" for 1VWH. Since I am not used to read mmCIF files I couldn't figure out yet if they were changed to "1","2" there. Since the following characters '*1234ABCDEFGHIJKLMNOPQRSTUVXYZ are currently used as altLoc indicators throughout the PDB database it would not be obvious how these are mapped to numbers. >> Most of the checkboxes also worked, except for 'script echo', >> 'scriptMessage' and 'viewerRefreshed'. The browser freezed with all of >> them as soon as I started a script from the list, e.g. 'load >> alt/5BIR.cif;color altloc;'. >> >> >> > I should probably take that viewerRefreshed out of there. It was a > dumb idea. > > Try that please with just scriptEcho or scriptMessage Obviously my description was not precise enough. I already tried each checkbox individually (and only individually). So only 'scriptEcho' checked -> browser freezed. Only 'scriptMessage' checked -> browser freezed. Regards, Rolf ------------------------------------------------------- Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 _______________________________________________ Jmol-developers mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-developers
