[Proteopedia] Script compiler error

[Dan Bolser]

2009/1/19 Karl Oberholser <oberhols at messiah.edu>:
> Eran & others,
> The commands that I used are: Select :c, :n; isosurface minset 1000 pocket
> cavity 1.2.  I am doing everything in Proteopedia.
>
> Here is a message that Angel sent to me after he did some testing.
>
> "I've run your script and the error says
> script compiler ERROR: } expected

One thing to consider (if a simpler answer doesn't turn up) is that }
is a part of the normal MediaWiki syntax. Could the MW parser be
getting its hand on the script before it gets passed to Jmol?

Dan.

> but I'm not sure about the the use of the colon, n:m syntax. In any case,
> since it's a state
> produced by Jmol, I think it's a bug. You should report it to
> jmol-developers
> Though I guess what Bob will tell you... upgrade!
>
> If I load the pdb file and try the offending line in 11.6.13, there is no
> error"
> It appears that upgrading Jmol will help.
>
> Karl
>
>
>
>>>> Eran Hodis <eran.hodis at weizmann.ac.il> 1/16/2009 7:28 PM >>>
> Hi Karl and Angel,
>
> What is the command, Karl, that you issued in order to make and display the
> surface in the SAT (Proteopedia's Scene Authoring Tools)?
>
> The generated state script that you referenced has the following line:
>  "calculate surfaceDistance WITHIN ({6073:9161 23278:26366 35260:35345
> 35430:35515}) ;"
>
> which I cannot successfully execute on its own.  I get the same error as
> you:
> "script compiler ERROR: } expected"
>
> Karl I assume the answer to Angel's question is that you used only the Jmol
> applets on the Proteopedia website?  If so, we currently run 11.5.51,
> although we should update it when we have a chance.
>
> Best,
> Eran
>
> -----Original Message-----
> >From Karl Oberholser <oberhols at messiah.edu>
> Sent Fri 1/16/2009 5:51 PM
> To proteopedialist-for-users at bioinformatics.org
> Subject [Proteopedia] Script compiler error
>
> Hi All,
>
> I am attempting to compute a surface using the Jmol cavity command.  I can
> make and display the surface in SAT, but when I test the green link no
> surface is made, and I obtain the following error:
> script compiler ERROR: } expected
> ----line 199 command 22 of
> /wiki/scripts/Complex_III_of_Electron_Transport_Chain/Surface_qn/2.spt:
>         calculate surfaceDistance WITHIN ({6073:9161 23278:26366
> 35260:35345 35430:35515}) ; <<<<
> ----line 1 command 2 of  file null:
>         script >>
> "/wiki/scripts/Complex_III_of_Electron_Transport_Chain/Surface_qn/2.spt"
> <<
> I do not know what to make of this!  Any help would be appreciated.
>
> Karl
>
>
>
> Karl M. Oberholser
> Professor Chemistry
> Chemistry & Biochemistry Dept.
> Messiah College
> Grantham, PA  US
> Molecular Science Lab:
> http://www.messiah.edu/molscilab/
> Proteopedia user page:
> http://proteopedia.org/wiki/index.php/User:Karl_Oberholser
>
>
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