Re: [Jmol-users] bug with "select selected and not" in multiple chains models

2010-07-22 Thread Robert Hanson
Interesting. Yes, it's doing: select (*) and ( not 56 ) and :B instead of select (*) and not (56 and :B) Which is correct for standard math -- a and !b and c = a and (!b) and c But, sure enough, that's different in this case. Components of a chain have a higher-priority "and" that shoul

Re: [Jmol-users] a syntax question

2010-07-22 Thread Robert Hanson
Jmol and JavaScript have the same quotation mark rules -- '...' or "..." '..."...' is ok, "...'" is ok, '...\'' or "...\"..." are ok. In HTML tag attributes, you can't use \' or \". I strongly recommend going to 12.0 despite the fact that you will need two files. Is there some particular

Re: [Jmol-users] Question

2010-07-22 Thread Robert Hanson
You need to construct a little script that reads something like this: frame 1.1;frame title "This is run 1" frame 1.2;frame title "This is run 2" and they will appear automatically. On Wed, Jul 21, 2010 at 2:33 PM, Boris Kiefer wrote: > To whom it may concern: > > I want to use jmol for

Re: [Jmol-users] Still Permissions issues

2010-07-22 Thread Robert Hanson
jmolInitialize("../jmol","JmolApplet.jar"); jmolApplet(["300","300"]); var script = 'load "Structures/molecule4.pdb"'; jmolScript(script); Well, you can't do that. You are running a script before the applet is loaded. I wish there were an automatic way to avoid that, but there isn't. You just can

Re: [Jmol-users] Safari CallBack Issue Resolved

2010-07-22 Thread Robert Hanson
that's it. 2010/7/22 Angel Herráez > El 22 Jul 2010 a las 10:35, Robert Hanson escribió: > > Let's get this > > in bold print in the Wiki. > > There's not much use of bold in the style of wiki or the website, but > it's already there: > > http://jmol.sourceforge.net/jslibrary/#jmolSetCallback >

Re: [Jmol-users] Applet coming through dynamic iframe

2010-07-22 Thread Robert Hanson
In some browsers when you use the hidden display attribute the applet is reloaded. Could that be it? I believe Angel found a way around this -- resizing to 1x1 pixels instead of hiding. On Thu, Jul 22, 2010 at 11:20 AM, Michael Evans wrote: > Jmolians--I'm having an interesting problem with Jmol

Re: [Jmol-users] Jmol 12.0 release -- feature check

2010-07-22 Thread Robert Hanson
just 'cause. On Thu, Jul 22, 2010 at 5:30 PM, rgb wrote: > Why is Jmol 12.0 called Jmol-11.zip? > > Rich > > > > > > Uploaded version is at > > http://chemapps.stolaf.edu/jmol/docs/examples-11/Jmol-11.zip > > > > > > ---

Re: [Jmol-users] Jmol 12.0 release -- feature check

2010-07-22 Thread Robert Hanson
Oh, I might have had a bad check-in earlier. On Thu, Jul 22, 2010 at 5:42 PM, Robert Hanson wrote: > which ones? I had no trouble today. > > > On Thu, Jul 22, 2010 at 4:39 PM, Nicolas Vervelle wrote: > >> Bob, >> >> Tests are currently not compiling on Jmol 12.0, not able to run the unit >> test

Re: [Jmol-users] Jmol 12.0 release -- feature check

2010-07-22 Thread Robert Hanson
which ones? I had no trouble today. On Thu, Jul 22, 2010 at 4:39 PM, Nicolas Vervelle wrote: > Bob, > > Tests are currently not compiling on Jmol 12.0, not able to run the unit > tests. > > Nico > > On Thu, Jul 22, 2010 at 10:41 PM, Robert Hanson wrote: > >> All hands on deck for feature check. >

[Jmol-users] unit cell question -- feedback needed

2010-07-22 Thread Robert Hanson
OK, a question for the crystallography subgroup: Nick Greeves has pointed out that some of the unit cell functions have recently changed (probably when I added generalized data graphing) Here is the situation: prior to Jmol 11.8.[what?] unitcell {0.5 0.5 0.5} just moved the cell and axes. Only

Re: [Jmol-users] Jmol 12.0 release -- feature check

2010-07-22 Thread rgb
Why is Jmol 12.0 called Jmol-11.zip? Rich > > > Uploaded version is at > http://chemapps.stolaf.edu/jmol/docs/examples-11/Jmol-11.zip > -- This SF.net email is sponsored by Sprint What will you do first with EVO,

Re: [Jmol-users] Jmol 12.0 release -- feature check

2010-07-22 Thread Nicolas Vervelle
Bob, Tests are currently not compiling on Jmol 12.0, not able to run the unit tests. Nico On Thu, Jul 22, 2010 at 10:41 PM, Robert Hanson wrote: > All hands on deck for feature check. > > Please exercise Jmol as much as you can and report back all bugs as a reply > to this message. > > Uploade

Re: [Jmol-users] Applet coming through dynamic iframe

2010-07-22 Thread Michael Evans
Scratch that; it's not working as well as I thought. It loads the state script in the uncloaked applet, oddly enough, only after the page has been re-loaded. On Thu, Jul 22, 2010 at 11:20 AM, Michael Evans wrote: > Jmolians--I'm having an interesting problem with Jmol applets in > dynamically loa

[Jmol-users] Jmol 12.0 release -- feature check

2010-07-22 Thread Robert Hanson
All hands on deck for feature check. Please exercise Jmol as much as you can and report back all bugs as a reply to this message. Uploaded version is at http://chemapps.stolaf.edu/jmol/docs/examples-11/Jmol-11.zip I just added one final touch that should be of great utility but might also intro

[Jmol-users] Applet coming through dynamic iframe

2010-07-22 Thread Michael Evans
Jmolians--I'm having an interesting problem with Jmol applets in dynamically loaded iframes. https://wiki.cites.uiuc.edu/wiki/display/CHEM332Molmodac/expt In the page linked above, the applet at the very bottom of the page is displaying just fine--exactly the way I want it to, in the proper state

Re: [Jmol-users] Safari CallBack Issue Resolved

2010-07-22 Thread Angel Herráez
El 22 Jul 2010 a las 10:35, Robert Hanson escribió: > Let's get this > in bold print in the Wiki. There's not much use of bold in the style of wiki or the website, but it's already there: http://jmol.sourceforge.net/jslibrary/#jmolSetCallback [cite] Please, note that all these parameters are r

Re: [Jmol-users] Safari CallBack Issue Resolved

2010-07-22 Thread Robert Hanson
Ah, yes! That is correct, although it was first found on other browsers as well. The first is the only one necessary. Let's get this in bold print in the Wiki. On Thu, Jul 22, 2010 at 10:28 AM, Otis Rothenberger wrote: > I'm posting this note because I posted the problem a while back, and the >

[Jmol-users] Safari CallBack Issue Resolved

2010-07-22 Thread Otis Rothenberger
I'm posting this note because I posted the problem a while back, and the resolution (reminder really) may be of interest to other users. The problem was that I could not get Safari to respond to a message callback of the following type: function processMessage(appNum, messageString, indexNum){

Re: [Jmol-users] Still Permissions issues

2010-07-22 Thread Karl Oberholser
Phil, On Windows XP FF loads blank applet only 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