Dear everyone,
the problem I have is the following:
I load a structure in an applet and I check in a hash some residues that I
put in wireframe by default. Since this second command is sent by
jmolScriptWait just after jmolApplet, it does not succeed as the applet
takes time to be built. There is a partial solution here
http://jmol.sourceforge.net/jslibrary/index.en.html#jmolApplet but I cannot
make it work, it reads:
*Note*:
It takes some time to build the applet, so if you put some immediate action
like jmolScript() or jmolLoadInline() right after the jmolApplet() line, it
will probably fail because it will be called before the applet has finished
loading. There are two alternatives that will work:
- Put the commands inside the call to jmolApplet() (its 2nd argument,
script).
- Have the browser wait until the applet reports to be finished. To do
so, put this at the end of the script sent with applet creation: javascript
appletLoaded(); and define a JavaScript function calledappletLoaded() (or
any other name you like) that will trigger any further commands.
I try the second solution since I have to check the residues in the hash, so
I do the following (instead of the putting the residue in wireframe I alert
the state, so I can see if the applet has already loaded):
<script type=\"text/javascript\">
function JmolCargado(res){
if (res){
var state=jmolGetPropertyAsString(\"stateInfo\");
alert(res + ' --- ' + state);
}
}
</script>
$JMOL = "<script type=\"text/javascript\">
jmolInitialize(\"Jmol-12new\", true);
jmolSetAppletColor(\"white\");
var jmolcmds = [
\"load $jmolfile\",
\"set frank off; select all; hbonds off; spin off; wireframe off; spacefill
off; trace off; set ambient 40; set specpower 40; slab off; ribbons off;
cartoons off; label off; monitor off\",
\"set isosurfacePropertySmoothing TRUE\",
\"set showAxes true\",
\"frame all\",
\"display all\",
\"select 1.1; cartoon; set propertyColorScheme 'bwr'; color atoms property
temperature ABSOLUTE $range\",
\"set perspectiveModel 10\",
\"set zoomLarge off\",
\"move 0 0 0 50 0 0 0 0 2\",
\"script Jmol-12new/myJMOLfunctions.spt\",
\"javascript appletLoaded()\"
];
jmolApplet([450,450], jmolcmds.join(\"; \"));
</script>";
foreach ($AllResidues as $residue){
if (array_key_exists($residue, $SelectedResiduesHash)){
echo "<script type=\"text/javascript\">JmolCargado(\"$residue\")</script>";
}
It works just partially... I have 3 residues in $SelectedResiduesHash so I
get 3 alerts (plus one of the line javascript appletLoaded() I don't know
why, but I filter it in the javascript function with if(res)); however, the
first alert prints a 'null' as the variable 'state' value, which highlights
the fact that the command is run BEFORE the applet actually finishes
loading. I would really appreciate some help on this... Thanks to everyone!
Daniel
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