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<DIV>Eran,</DIV>
<DIV>The upgrade may have solved one problem, but there is still a problem. The surface is still not displayed when the green link is clicked and the following error is displayed in the Jmol console: io error reading <A href="http://proteopedia.org/wiki/scripts/second.spt">http://proteopedia.org/wiki/scripts/second.spt</A>: java.io.FileNotFoundException: <A href="http://proteopedia.org/wiki/scripts/second.spt">http://proteopedia.org/wiki/scripts/second.spt</A><BR>----line 1 command 2:<BR> script >> "/wiki/scripts/second.spt" << This error is different from the one that I reported earlier (see below).<BR></DIV>
<DIV>The surface is now displayed when the scene is loaded in the SAT. As I am remembering that did not happen before, but my memory is no longer dependable. I do know that the surface was displayed when the computation was sent through the console.</DIV>
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<DIV>Karl</DIV>
<DIV> </DIV>
<DIV><BR><BR>>>> Eran Hodis <eran.hodis@weizmann.ac.il> 1/29/2009 6:42 AM >>><BR>Hi Karl,<BR><BR>We've upgraded to Jmol version 11.6.14. The script you had an issue <BR>with below should now work.<BR><BR>Just make sure to check that you are receiving the new version of Jmol <BR>(11.6.14) and not the old one (11.5.51) by right clicking on the <BR>applet and going to "About Jmol".<BR><BR>If you are not receiving the new version of Jmol, try visiting www.proteopedia.com <BR> rather than www.proteopedia.org, and it may trick your browser into <BR>downloading the new Jmol.<BR><BR>We did some testing on the new Jmol version, and everything should <BR>work fine, but of course do report any bugs so that we can fix them.<BR><BR>Best regards,<BR>Jaim and Eran<BR><BR>On Jan 16, 2009, at 5:51 PM, Karl Oberholser wrote:<BR><BR>> Hi All,<BR>><BR>> I am attempting to compute a surface using the Jmol cavity command.&n
bsp; <BR>> I can<BR>> make and display the surface in SAT, but when I test the green link no<BR>> surface is made, and I obtain the following error:<BR>> script compiler ERROR: } expected<BR>> ----line 199 command 22 of<BR>> /wiki/scripts/Complex_III_of_Electron_Transport_Chain/Surface_qn/ <BR>> 2.spt:<BR>> calculate surfaceDistance WITHIN ({6073:9161 23278:26366<BR>> 35260:35345 35430:35515}) ; <<<<<BR>> ----line 1 command 2 of file null:<BR>> script >><BR>> "/wiki/scripts/Complex_III_of_Electron_Transport_Chain/Surface_qn/ <BR>> 2.spt" <<<BR>> I do not know what to make of this! Any help would be appreciated.<BR>><BR>> Karl<BR>><BR>><BR>><BR>> Karl M. Oberholser<BR>> Professor Chemistry<BR>> Chemistry & Biochemistry Dept.<BR>> Messiah College<BR>> Grantham, PA&nb
sp; US<BR>> Molecular Science Lab:<BR>> <A href="http://www.messiah.edu/molscilab/">http://www.messiah.edu/molscilab/</A><BR>> Proteopedia user page:<BR>> <A href="http://proteopedia.org/wiki/index.php/User:Karl_Oberholser">http://proteopedia.org/wiki/index.php/User:Karl_Oberholser</A><BR>><BR>> -------------- next part --------------<BR>> An HTML attachment was scrubbed...<BR>> URL: <<A href="http://www.bioinformatics.org/pipermail/proteopedialist">http://www.bioinformatics.org/pipermail/proteopedialist</A>-for-users/attachments/20090116/8abbd0e2/attachment.html <BR>> ><BR>> _______________________________________________<BR>> Proteopedialist-for-users mailing list<BR>> Proteopedialist-for-users@bioinformatics.org<BR>> <A href="http://www.bioinformatics.org/mailman/listinfo/proteopedialist">http://www.bioinformatics.org/mailman/listinfo/proteopedialist</A>-for-users<BR><BR>Eran Hodis<BR>eran.hodis@weizmann.ac.il<BR><BR><BR><BR><B
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