Thanks Bob for the fast answer!
Now Jmol doesn't hang anymore, but complains about the Syntax:
$ connect (_c and within(1.6, coord, {0 0 0})) aromatic modify;
script ERROR: unexpected end of script command
----line 1 command 1 of file null:
connect ( ( _c and within ( 1.6 , coords , { 0 0 0 } ) >> ) <<
) aromatic modify
$ select (_c and within(1.6, coord, {0 0 0}))
script ERROR: unexpected end of script command
----line 1 command 1 of file null:
select ( _c and within ( 1.6 , coords , { 0 0 0 } ) >> ) <<
I'm wondering where the additional braces come from and why it changes
"coord" to "coords" (btw.: using coords bringsthe same error).
Is the use of "coord" documented anywhere? I haven't found it in the
scripting docs (chemapps.stolaf.edu/jmol/docs/?ver=11.4)
Tested with Jmol 11.3.38 and 11.3.39.
Oliver
Bob Hanson wrote:
> Oliver, it's a bug I need to fix, but use this:
>
> connect (_c and within(1.6, coord, {0 0 0})) aromatic modify;
>
> for good results (_c for carbon; add the word "coord" explicitly)
>
> Bob Hanson
>
> Oliver Stueker wrote:
>
>> Hi, i want to report a possible bug:
>>
>> When I load e.g. a benzene molecule (like attached benzene.xyz) and
>> then submit the following command on the Jmol-Console:
>>
>> connect (_carbon and within(1.6, {0 0 0})) aromatic modify;
>> or even only:
>> select carbon and within(1.6, {0 0 0});
>>
>> Jmol hangs immediately and I can't rotate the molecule anymore.
>> There's even no output on the Java Console. Only Jmol-Console
>> sometimes reports a "pending" (as far I can see only in case of the
>> Applet).
>>
>> tested with:
>> * Jmol Applet and Application Versions 11.3.31 & 11.3.38
>> and Applet 11.3.39_dev (2007-10-18 22:28) on
>> http://chemapps.stolaf.edu/jmol/docs/examples-11/new.htm
>> with the C6H6.smol from the server.
>> * Windows XP SP2
>> * Java 1.6.0_03 and 1.5.0_13 (only Application 11.3.38)
>> * Firefox 2 in case of applets
>>
>> Oliver
--
Oliver Stueker
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