Re: [Jmol-users] Visualization of a sphere packing

Hi Angel, thank you very much. The script work perfectly! Andrea, this script seems to do what you want: n1 = {*}.atomno.min; n2 = {*}.atomno.max; for (i=n1; i=n2; i++) { m = s + i; d = 2 * {atomno=i}.vanderwaals; // print d; draw id @m diameter @d {atomno=i}; } spacefill off; Tested with

Re: [Jmol-users] PDB Search and JME file note

Oh,oh! On Sun, Mar 24, 2013 at 8:59 PM, Otis Rothenberger osrot...@chemagic.comwrote: Bob, The PDB keyword search appears to be broken at: http://chemapps.stolaf.edu/jmol/jsmol/test2.htm I also think 2D is broken at http://chemapps.stolaf.edu/jmol/jsmol/jsmetest.htm Could these be

Re: [Jmol-users] PDB Search and JME file note

Bob, Thank you for helping to put JME back into Jmol. I suspect you were also the catalyst to renew Peter's interest in this. Did you catch my intent with the JME file note? It looks like you're loading molfiles. This does avoid a Resolver hit, but the SMILES -- JME Resolver connection loads

Re: [Jmol-users] PDB Search and JME file note

yes, that's excellent. I need to change that search so that, at least from NCI, we go straight to the JME view, if that is what is being viewed. On Mon, Mar 25, 2013 at 9:13 AM, Otis Rothenberger osrot...@chemagic.comwrote: Bob, Thank you for helping to put JME back into Jmol. I suspect you

[Jmol-users] JSmol upload

If you are doing anything with JSmol, I suggest uploading http://chemapps.stolaf.edu/jmol/jsmol.zip once more. It's got some changes in the way the .js files are organized and fixes some problems I introduced yesterday. Most importantly, if you are not loading binary files (PNGJ, ZIP, GZ,

[Jmol-users] IE9 not working with my page

I can't get IE9 to run JSmol on my page. Any idea why? http://biology.kenyon.edu/BMB/biomolecules.htm Thanks. Daniel -- Everyone hates slow websites. So do we. Make your web apps faster with AppDynamics Download

Re: [Jmol-users] Jmol-users Digest, Vol 82, Issue 80

Daniel JSmol for the following seems to be loading on my iPhone, but I'm getting the error: Error reading the file at line 166 REMARK 2901555 X,Y,Z TypeError: 'null' is not an object for file http://biology.kenyon.edu/BM type Pdb - Craig Martin On Mar 25, 2013, at 3:24 PM,

Re: [Jmol-users] Jmol-users Digest, Vol 82, Issue 80

Hmm, what's the PDB file? That might be an error in Jmol as well. On Mon, Mar 25, 2013 at 5:37 PM, Craig T Martin ctmar...@chem.umass.eduwrote: Daniel JSmol for the following seems to be loading on my iPhone, but I'm getting the error: Error reading the file at line 166 REMARK 290

Re: [Jmol-users] Jmol-users Digest, Vol 82, Issue 80

By the way, Daniel, I hadn't realized that you had updated the linked pages as well. Wow! This is a great set of pages for testing the Jmol--JSmol business. Some fancy scripts there! I know some of the animations are sluggish, but still, what I saw seemed to be working. Let me know if ANYTHING

Re: [Jmol-users] Jmol-users Digest, Vol 82, Issue 81

Forgot to note that it loads fine on my Mac. Just checked - it's also loading on my iPad (and user-rotates nicely! Thanks again to Bob and colleagues!) Actually - just rechecked on my iPhone, but this time I closed a bunch of open pages. Now it loads correctly (and performs well). A memory

Re: [Jmol-users] scriptWait and scriptWaitAsArray

Well, you know, since JSmol is JavaScript already, there's really no reason to use the JSON string business. You can just get the Java object now if you are using the HTML5 option. You will have to learn how to access that info as a Java object, though: x =

Re: [Jmol-users] scriptWait and scriptWaitAsArray

Wow, where have I been? This works great. Works really well for grabbing orientation info too. Thanks, Bob. Cheers, Mike --- Michael Evans Department of Chemistry University of Illinois, Urbana-Champaign On Mon, Mar 25, 2013 at 5:23 PM, Robert Hanson hans...@stolaf.edu wrote: Well, you

Re: [Jmol-users] IE9 not working with my page

It's a test I inadvertently left in for checking performance. Replace your JSmol.min.js with this: http://chemapps.stolaf.edu/jmol/jsmol/JSmol.min.js and you should be good to go -- or at least further. Interesting that that error is not showing up with IE9 mode in IE10. But I see why: apparently

Re: [Jmol-users] Jmol-users Digest, Vol 82, Issue 81

I'd still like the actual link to that page that didn't work, Craig. What you sent before got truncated. I think it's very important, relative to smart phones, that you need to think about what the goal is there. It should not be: Let's get this page working on an iPhone. It should be: How can I

Re: [Jmol-users] scriptWait and scriptWaitAsArray

same with HTML or Java, by the way. On Mon, Mar 25, 2013 at 6:24 PM, Michael Evans evan...@illinois.edu wrote: Wow, where have I been? This works great. Works really well for grabbing orientation info too. Thanks, Bob. Cheers, Mike --- Michael Evans Department of Chemistry University