[Jmol-users] [EMAIL PROTECTED]
Nicolas, is there a Jmol team for FAH? Egon --- This SF.Net email is sponsored by Oracle Space Sweepstakes Want to be the first software developer in space? Enter now for the Oracle Space Sweepstakes! http://ads.osdn.com/?ad_id=7393alloc_id=16281op=click ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
[Jmol-users] Making animations
Hi Can a file containing multiple protein structures (e.g. NMR structures in a .pdb file) be used in animations in Jmol? From the documentation is seems I can (at least a .pdb file) but when I load a file containing multiple instances of the same protein I get a blank screen in Jmol. What must the delimiters between consecutive protein stuctures in a .pdb file be? Thanks!! -- Tjaart de Beer Bioinformatics and Computational Biology Unit Department Biochemistry FABI Square/Bioinformatics building Faculty of Natural Sciences University of Pretoria Lynwood rd Pretoria South Africa 0001 Tel:+27 12 420 5802 Cell: +27 83 504 7914 Fax:+27 12 420 5800 Email: [EMAIL PROTECTED] [EMAIL PROTECTED] [EMAIL PROTECTED] - The software required Windows XP or better ... so I installed Linux --- This SF.Net email is sponsored by Oracle Space Sweepstakes Want to be the first software developer in space? Enter now for the Oracle Space Sweepstakes! http://ads.osdn.com/?ad_id=7393alloc_id=16281op=click ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] [EMAIL PROTECTED]
De: Egon Willighagen [EMAIL PROTECTED] Nicolas, is there a Jmol team for FAH? I don't think so, but it can be a good idea ;) If you create one, that will be a difficult decision for me to switch team (letting my 300.000 points to the old team and starting again at 0). Nicolas --- This SF.Net email is sponsored by Oracle Space Sweepstakes Want to be the first software developer in space? Enter now for the Oracle Space Sweepstakes! http://ads.osdn.com/?ad_ids93alloc_id281op=click ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] [EMAIL PROTECTED]
On Tuesday 10 May 2005 11:26 am, [EMAIL PROTECTED] wrote: De: Egon Willighagen [EMAIL PROTECTED] is there a Jmol team for FAH? I don't think so, but it can be a good idea ;) If you create one, that will be a difficult decision for me to switch team (letting my 300.000 points to the old team and starting again at 0). And not to forget my 10.000 points I'd loose :) I'll setup a team; it could be good advertisement for Jmol. Egon --- This SF.Net email is sponsored by Oracle Space Sweepstakes Want to be the first software developer in space? Enter now for the Oracle Space Sweepstakes! http://ads.osdn.com/?ad_id=7393alloc_id=16281op=click ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
[Jmol-users] RE: Jmol-users digest, Vol 1 #669 - 3 msgs
Bob- We haven't conquered integration yet, so we appreciate the tip! -Jennifer -Original Message- Message: 2 Date: Mon, 02 May 2005 12:54:14 -0500 From: Bob Hanson [EMAIL PROTECTED] To: jmol-users@lists.sourceforge.net Subject: Re: [Jmol-users] RE: Jmol-users digest, Vol 1 #667 - 2 msgs Reply-To: jmol-users@lists.sourceforge.net Jennifer, So did you figure out to include integration information in these? I'm hoping you are considering the reading of an independent integration file intrng in Bruker format. These are super simple. Just: P 0 1.200 1.456 2.400 3.000 ... The first line is to be ignored. The next lines are just start/stop in ppm Bob --- This SF.Net email is sponsored by Oracle Space Sweepstakes Want to be the first software developer in space? Enter now for the Oracle Space Sweepstakes! http://ads.osdn.com/?ad_ids93alloc_id281op=click ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
[Jmol-users] Jmol and OSX
I have spent some time this afternoon pursuing this applet issue some more. The one in which you cannot sequentially load the applet from two different sites. (I have lots of stuff to do that I don't want to, so I looked into this.)I have isolated when the problem occurred. I have a blank partition on my drive onto which Installed OS 10.3.0 and then applied the combined update to 10.3.5 and the Java 1.4.2 update. I started at this point because that is where our lab computers are. Under this OS the error does not occur. If you look at the locations page that Tim prepared, there are lots of problems, but that is not one of them. So I chose to use these two links that Bob provided. http://www.stolaf.edu/people/hansonr/jmol/test/liveConnectTest.htm http://srp.stanford.edu/demo/ I observed that you could move back and forth between sites in this 10.3.5 without a problem. This was also true in 10.3.6 and 10.3.7. In addition, in each of these, Bob's third link did not work, but the other two did. I makes no difference which page or link is loaded first. run LiveConnect Test using document.getElementById("bigintID"))At this point, I installed Security Update 2005-002 (still in OS 10.3.7. ) That broke it. You can no longer move back and forth between sites. That update could have been applied to earlier OS's and I assume would have broken them as well, which may account for some of the inconsistent information we got earlier.I did not try 10.3.8, since I assumed it would still be broken once the update had been applied. Besides, I was applying combined updates and that would include that security update, I think. By 10.3.9, I know that Bob's third link worked, and it does in 10.4 as well.Phil J. Philip Bays Department of Chemistry and Physics Saint Mary's College Notre Dame IN 46556 [EMAIL PROTECTED]
[Jmol-users] help: required Jmol file formats
Hi, Does Jmol have an internal file format where one can specify an atom location XYZ (Cartesian) and the radius of the sphere it will use to represent it, ie. adjust it's Van der Waals radius? I want to display a set of overlapping spheres of varying diameter. Unfortunately, the geomview applet, JGV, does not display spheres and so I was hoping to use Jmol for this task. kind regards, Martin D. Foster --- This SF.Net email is sponsored by Oracle Space Sweepstakes Want to be the first software developer in space? Enter now for the Oracle Space Sweepstakes! http://ads.osdn.com/?ad_id=7393alloc_id=16281op=click ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
[Jmol-users] sorry
It was funny, but I did not intend to send it to you all. Sorry about that.Phil J. Philip Bays Department of Chemistry and Physics Saint Mary's College Notre Dame IN 46556 [EMAIL PROTECTED]
[Jmol-users] Java Embedding Plugin 0.9.1, supports Mac OS X Tiger
Might interest some of you : The Java Embedding Plugin is a utility that allows other web browsers than Apple's Safari to use the most recent available versions of Java on Mac OS X (Java 1.4.X and, on Tiger, Java 1.5).When used together with an updated version of Mozilla's MRJ Plugin Carbon (included in this distribution), the Java Embedding Plugin's functionality is currently available to recent versions of Mozilla, Firefox and Camino. But in principle any web browser could use one of the Java Embedding Plugin's two APIs to add support for Java 1.4.X and (where available) Java 1.5. --- This SF.Net email is sponsored by Oracle Space Sweepstakes Want to be the first software developer in space? Enter now for the Oracle Space Sweepstakes! http://ads.osdn.com/?ad_ids93alloc_id281op=click ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
