I think I have found a possible bug in the polyhedra command. By way of example, if I load this CIF at chemapps:
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://scripts.iucr.org/cgi-bin/sendcif?hb0009 and try polyhedra BONDS {aluminium} I get script ERROR: TypeError: a.equals is not a function J.shapespecial.Polyhedra set generate Whereas doing the same with previous versions of Jmol worked. Cheers Simon Quoting si...@publcif.co.uk: > Otis: > > In my case its the "alert where Jmol formerly died without alert" > problem you describe. > > I can live with alerts for failing scripts (i.e. they shouldn't fail > in the first place if I do my job properly), > but it is now clear that its not just one of my scripts that is > failing with Jmol 14.4 (though they worked with previous versions). > > Looks like it may take some time to identify exactly where the > problems are... > > Thanks for the info anyway. > > Cheers > > Simon > > > Quoting Otis Rothenberger <osrot...@chemagic.com>: > >> Simon, >> >> I was seeing this where the script WAS completing after the alert >> box was dismissed. Bob correctly pointed out that I was running some >> Bootstrap related scripts that imposed JavaScript ?use strict.? When >> I removed this from the Bootstrap related scripts, the problem >> disappeared. >> >> However, like you, I continue to see these alert boxes where the >> script has an error where previous versions of Jmol would have died >> without the alert. One example of this is the following: >> >> Jmol.evaluateVar(jmolApplet0, "'hexane'.find('SMILES','CCC') > 0?) >> >> I know the script is ridiculous, but it happened because of an >> answer key error. Earlier versions of Jmol did not throw an error >> alert with this script. >> >> To summarize, I was seeing two problems - one seems to be corrected >> by editing ?use strict? out of my Bootstrap .js files. The other >> problem, alert where Jmol formerly died without alert, seems to >> remain. >> >> Otis >> >> -- >> Otis Rothenberger >> o...@chemagic.com >> http://chemagic.com >> >>> On Oct 16, 2015, at 7:12 AM, si...@publcif.co.uk wrote: >>> >>> Just installed this. >>> >>> For some of my pages I now get alerts boxes popping up saying: >>> >>> TypeError: a.equals is not a function try/catch path: >>> 0 function (b,d) >>> args[0]=TypeError: a.equals is not a function >>> args[1]=function (){a.instantialize(this,arguments)} >>> 1 JS.ScriptEval.executeCommands(a,b) >>> args[0]=false >>> args[1]=true >>> 2 JS.ScriptEval.resumeEval(a) >>> args[0]=[JS.ScriptContext object] >>> 3 function () >>> >>> This occurs when running a script that renders polyhedra. >>> >>> Apart from the fact that a script that has worked for years now >>> seems to fail, >>> why does an alert box popup rather than just the messages being >>> written to the console? >>> >>> Do I need to set something to turn off alerts in this version of Jmol? >>> >>> I'll try to figure out exactly what causes the script to fail, but in >>> the meantime any help with preventing the alert boxes would be >>> appreciated. >>> >>> Thanks >>> >>> Simon Westrip >>> >>> >>> >>> >>> >>> Quoting Robert Hanson <hans...@stolaf.edu>: >>> >>>> I have recompiled Jmol 14.4.0 with a newly signed certificate. >>>> >>>> This is important only if your site uses the Jmol Java applet. >>>> >>>> This applet will not work again until this update is installed. Your >>>> current applet will fail indicating that its certificate has been revoked. >>>> This fixes that issue. If you want, you may be able to just extract the >>>> jsmol/java directory from Jmol.zip and copy the JAR files to your site to >>>> the same directory. But I recommend you upload the entire package. >>>> >>>> You can see proper operation of the Java applet at >>>> >>>> http://chemapps.stolaf.edu/jmol/jsmol/jsmol.htm?_USE=SIGNED >>>> >>>> I am very sorry for this inconvenience. >>>> >>>> Bob >>>> >>>> -- >>>> Robert M. Hanson >>>> Larson-Anderson Professor of Chemistry >>>> Chair, Department of Chemistry >>>> St. Olaf College >>>> Northfield, MN >>>> http://www.stolaf.edu/people/hansonr >>>> >>>> >>>> If nature does not answer first what we want, >>>> it is better to take what answer we get. >>>> >>>> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 >>>> >>> >>> >>> >>> ------------------------------------------------------------------------------ >>> _______________________________________________ >>> Jmol-users mailing list >>> Jmol-users@lists.sourceforge.net >>> https://lists.sourceforge.net/lists/listinfo/jmol-users >>> >>> >> >> >> >> >> ------------------------------------------------------------------------------ >> _______________________________________________ >> Jmol-users mailing list >> Jmol-users@lists.sourceforge.net >> https://lists.sourceforge.net/lists/listinfo/jmol-users >> > > > > ------------------------------------------------------------------------------ > _______________________________________________ > Jmol-users mailing list > Jmol-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/jmol-users > ------------------------------------------------------------------------------ _______________________________________________ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
