Re: [Jmol-users] isosurfaceData as JVXL string
Thank you. This works perfect. Jaim On Dec 29, 2013, at 9:47 PM, Robert Hanson hans...@stolaf.edumailto:hans...@stolaf.edu wrote: Have a desired isosurface as the current isosurface -- if necessary, use isosurface ID by itself to select. Then issue: show isosurface From JavaScript, you could use: var xmlData = Jmol.evaluate(jmolApplet0, script('show isosurface')) On Sat, Dec 28, 2013 at 1:31 PM, Jaime Prilusky jaime.prilu...@weizmann.ac.ilmailto:jaime.prilu...@weizmann.ac.il wrote: What's the correct syntax to get from JSmol applet the isosurface data as JVXL string in javascript? I guess that some variation of Jmol.getPropertyAsJavaObject(jmolApplet0, isosurfaceData) could do. Thank you in advance, Happy Holidays, Jaim -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Jmol-users mailing list Jmol-users@lists.sourceforge.netmailto:Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users -- Robert M. Hanson Larson-Anderson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] Will unsigned applet be blocked soon?
On 29 Dec 2013, at 20:00, Robert Hanson hans...@stolaf.edu wrote: I'm guessing it will be January 14: https://blogs.oracle.com/java-platform-group/entry/new_security_requirements_for_rias http://www.oracle.com/technetwork/topics/security/alerts-086861.html As I understand it, all applets must be updated. signed or not -- all must be signed, and local file reading now requires the JNLP files as well in the directory of the JAR files. (Note that these JNLP files allow the applet to be started outside a browser as well.) Using Jmol 14.0.2 (14th December) uploaded to a server, I can indeed no longer get the applet to load (OS X Mavericks/Safari or Firefox). Application blocked by security settings”. It also (falsely) tells me that the Java security settings have prevented this application from running. You may change this behaviour in the Java control panel”. Well, I could not. This did not happen with eg 13.3.9. There are four JNLP files in this build of Jmol in the Java directory (including eg JmolApplet.jnlp and JmolAppletSigned.jnlp), but their presence has not prevented the above message. Am struggling slightly. Could it be that our Apache server has no MIMEtype defined for JNLP? Or that OS X Mavericks Java is broken in this regard? Or that some other configuration which I have omitted is needed? The relevant page is http://www.ch.ic.ac.uk/rzepa/WEO/ja061400a/?JAVA (which is an ancient page from ~2007 which I thought I might try to rescue). signature.asc Description: Message signed with OpenPGP using GPGMail -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] Will unsigned applet be blocked soon?
Henry: I am using the same OS but downloaded last evening’s release of jmol (14.0.3). I test using my sites local network server on an iMac, which should behave like an outside server. My test was to access test2.htm in the jsmol directory. It runs fine with HTML5 and the signed applet. But does not do so when simply launched as a file. I did have to change permissions on the jmol directory. In my java console (security tabmanage certificates, I see the Integrated Graphics certificate as trusted (That has been true since originally specified several iterations of jmol ago. However, when I try your link, I get the same results as you do. On Dec 30, 2013, at 8:25 AM, Rzepa, Henry S h.rz...@imperial.ac.uk wrote: On 29 Dec 2013, at 20:00, Robert Hanson hans...@stolaf.edu wrote: I'm guessing it will be January 14: https://blogs.oracle.com/java-platform-group/entry/new_security_requirements_for_rias http://www.oracle.com/technetwork/topics/security/alerts-086861.html As I understand it, all applets must be updated. signed or not -- all must be signed, and local file reading now requires the JNLP files as well in the directory of the JAR files. (Note that these JNLP files allow the applet to be started outside a browser as well.) Using Jmol 14.0.2 (14th December) uploaded to a server, I can indeed no longer get the applet to load (OS X Mavericks/Safari or Firefox). Application blocked by security settings”. It also (falsely) tells me that the Java security settings have prevented this application from running. You may change this behaviour in the Java control panel”. Well, I could not. This did not happen with eg 13.3.9. There are four JNLP files in this build of Jmol in the Java directory (including eg JmolApplet.jnlp and JmolAppletSigned.jnlp), but their presence has not prevented the above message. Am struggling slightly. Could it be that our Apache server has no MIMEtype defined for JNLP? Or that OS X Mavericks Java is broken in this regard? Or that some other configuration which I have omitted is needed? The relevant page is http://www.ch.ic.ac.uk/rzepa/WEO/ja061400a/?JAVA (which is an ancient page from ~2007 which I thought I might try to rescue). -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users Philip Bays Emeritus Professor of Chemistry Saint Mary's College Notre Dame, IN 46556 pb...@saintmarys.edu -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] Will unsigned applet be blocked soon?
The JNLP files are just in the directory with the JAR files. No installation -- just click on one, and the applet should open. On Mon, Dec 30, 2013 at 12:21 AM, Rzepa, Henry S h.rz...@imperial.ac.ukwrote: On 29 Dec 2013, at 20:00, Robert Hanson hans...@stolaf.edu wrote: I'm guessing it will be January 14: https://blogs.oracle.com/java-platform-group/entry/new_security_requirements_for_rias http://www.oracle.com/technetwork/topics/security/alerts-086861.html As I understand it, all applets must be updated. signed or not -- all must be signed, and local file reading now requires the JNLP files as well in the directory of the JAR files. (Note that these JNLP files allow the applet to be started outside a browser as well.) Is there a specific set of instructions for acquiring and installing these “JNLP” files for Jmol? Using this as a search term in Bob’s documentation http://chemapps.stolaf.edu/jmol/docs/?search=JNLP shows no hits. In addition, recent versions of JSmol JavaScript libraries are required, and if you are using the older Jmol.js, library that needs to be updated (see http://chemapps.stolaf.edu/jmol/docs/examples-12/Jmol.js). http://chemapps.stolaf.edu/jmol/docs/examples-12/Jmol.js states THIS LIBRARY IS DEPRECATED STARTING WITH Jmol 13.0.” Or you can add this line yourself in the _jmolApplet function: params.permissions = (archivePath.indexOf(Signed) = 0 ? all-permissions : sandbox); Feels like Y2K all over again! -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users -- Robert M. Hanson Larson-Anderson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
[Jmol-users] Cross Domain Load
Bob, I could figure this out by trial and error, but you probably know the answer. Will JSmol load sdf text files cross domain? Otis -- Otis Rothenberger o...@chemagic.com http://chemagic.com -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] Cross Domain Load
as long as the server is allowing full access via its headers. On Mon, Dec 30, 2013 at 11:42 AM, Otis Rothenberger osrot...@chemagic.comwrote: Bob, I could figure this out by trial and error, but you probably know the answer. Will JSmol load sdf text files cross domain? Otis -- Otis Rothenberger o...@chemagic.com http://chemagic.com -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users -- Robert M. Hanson Larson-Anderson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] Cross Domain Load and Help Request
OK, Thanks. Are the following observations correct? Resolver does this. PubChem does this. RCSB does not do this. Otis -- Otis Rothenberger o...@chemagic.com http://chemagic.com On Dec 30, 2013, at 12:45 PM, Robert Hanson hans...@stolaf.edu wrote: as long as the server is allowing full access via its headers. On Mon, Dec 30, 2013 at 11:42 AM, Otis Rothenberger osrot...@chemagic.com wrote: Bob, I could figure this out by trial and error, but you probably know the answer. Will JSmol load sdf text files cross domain? Otis -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
[Jmol-users] another Mac surprise
It appears that Safari has a very strange feature -- at least on my machine, everything works fine using http, but with file://, if I download Jmol, open the zip file, extract the jsmol directory, and start simple2.htm, and immediately clicking on the Signed link to get the signed version, the applet fails to load. However, if I first open the applet in Firefox, then Safari will open it. If Safari has opened the file, and I change the directory name, then the next time I try this, Safari will not start the applet. However, if I then open that local page in Firefox and then try again in Safari, all is good. What could possibly be going on? I don't know. But the fact that this is a new problem suggested to me that it's something recent. I remembered that recently I changed Safari settings to using the applet tag instead of object. Well, guess what? When I switch back to using the object tag, everything works normally. No directory problems; no load issues. Go figure. For whatever reason, it looks like we cannot use the applet tag in Safari. I'm sure I had a reason for switching to that, but I can't remember that. Bob -- Robert M. Hanson Larson-Anderson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] another Mac surprise
Hi Bob, Wild idea that I haven't really thought through .. rushing beakfast here .. but your mention of different results from opening files in different orders with different apps makes me think of Mac OS X file metadata. Readable and modifiable via xattr. Eg. this is where Mac puts a tag that a file has been downloaded and not yet opened, and prompts the This file was downloaded by browser, are you sure you want to open it prompt. Best and HNY, GE. On 31 December 2013 08:27, Robert Hanson hans...@stolaf.edu wrote: It appears that Safari has a very strange feature -- at least on my machine, everything works fine using http, but with file://, if I download Jmol, open the zip file, extract the jsmol directory, and start simple2.htm, and immediately clicking on the Signed link to get the signed version, the applet fails to load. However, if I first open the applet in Firefox, then Safari will open it. If Safari has opened the file, and I change the directory name, then the next time I try this, Safari will not start the applet. However, if I then open that local page in Firefox and then try again in Safari, all is good. What could possibly be going on? I don't know. But the fact that this is a new problem suggested to me that it's something recent. I remembered that recently I changed Safari settings to using the applet tag instead of object. Well, guess what? When I switch back to using the object tag, everything works normally. No directory problems; no load issues. Go figure. For whatever reason, it looks like we cannot use the applet tag in Safari. I'm sure I had a reason for switching to that, but I can't remember that. Bob -- Robert M. Hanson Larson-Anderson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users -- Greg Edwards, Port Jackson Bioinformatics gedwar...@gmail.com -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] another Mac surprise
Safari and Firefox sharing the same Java cache??? This doesn't explain the object vs applet thing, however. Otis -- Otis Rothenberger o...@chemagic.com http://chemagic.com On Dec 30, 2013, at 4:27 PM, Robert Hanson hans...@stolaf.edu wrote: It appears that Safari has a very strange feature -- at least on my machine, everything works fine using http, but with file://, if I download Jmol, open the zip file, extract the jsmol directory, and start simple2.htm, and immediately clicking on the Signed link to get the signed version, the applet fails to load. However, if I first open the applet in Firefox, then Safari will open it. If Safari has opened the file, and I change the directory name, then the next time I try this, Safari will not start the applet. However, if I then open that local page in Firefox and then try again in Safari, all is good. What could possibly be going on? I don't know. But the fact that this is a new problem suggested to me that it's something recent. I remembered that recently I changed Safari settings to using the applet tag instead of object. Well, guess what? When I switch back to using the object tag, everything works normally. No directory problems; no load issues. Go figure. For whatever reason, it looks like we cannot use the applet tag in Safari. I'm sure I had a reason for switching to that, but I can't remember that. Bob -- Robert M. Hanson Larson-Anderson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] another Mac surprise
I would think that they both rely on the java console. I wonder what is going on with that? On Mon, Dec 30, 2013 at 4:27 PM, Robert Hanson hans...@stolaf.edu wrote: It appears that Safari has a very strange feature -- at least on my machine, everything works fine using http, but with file://, if I download Jmol, open the zip file, extract the jsmol directory, and start simple2.htm, and immediately clicking on the Signed link to get the signed version, the applet fails to load. However, if I first open the applet in Firefox, then Safari will open it. If Safari has opened the file, and I change the directory name, then the next time I try this, Safari will not start the applet. However, if I then open that local page in Firefox and then try again in Safari, all is good. What could possibly be going on? I don't know. But the fact that this is a new problem suggested to me that it's something recent. I remembered that recently I changed Safari settings to using the applet tag instead of object. Well, guess what? When I switch back to using the object tag, everything works normally. No directory problems; no load issues. Go figure. For whatever reason, it looks like we cannot use the applet tag in Safari. I'm sure I had a reason for switching to that, but I can't remember that. Bob -- Robert M. Hanson Larson-Anderson Professor of Chemistry St. Olaf College Northfield, MN http://www.stolaf.edu/people/hansonr If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk ___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users -- J. Philip Bays Emeritus Professor of Chemistry Saint Mary's College Notre Dame, IN 46556 -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] another Mac surprise
Phil, Exactly. That's what I'm thinking. Safari won't cache it, but it will pull it from cache. Otis -- Otis Rothenberger o...@chemagic.com http://chemagic.com On Dec 30, 2013, at 7:28 PM, J. Philip Bays pb...@saintmarys.edu wrote: I would think that they both rely on the java console. I wonder what is going on with that? On Mon, Dec 30, 2013 at 4:27 PM, Robert Hanson hans...@stolaf.edu wrote: It appears that Safari has a very strange feature -- at least on my machine, everything works fine using http, but with file://, if I download Jmol, open the zip file, extract the jsmol directory, and start simple2.htm, and immediately clicking on the Signed link to get the signed version, the applet fails to load. However, if I first open the applet in Firefox, then Safari will open it. If Safari has opened the file, and I change the directory name, then the next time I try this, Safari will not start the applet. However, if I then open that local page in Firefox and then try again in Safari, all is good. What could possibly be going on? I don't know. But the fact that this is a new problem suggested to me that it's something recent. I remembered that recently I changed Safari settings to using the applet tag instead of object. Well, guess what? When I switch back to using the object tag, everything works normally. No directory problems; no load issues. Go figure. For whatever reason, it looks like we cannot use the applet tag in Safari. I'm sure I had a reason for switching to that, but I can't remember that. Bob -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
Re: [Jmol-users] another Mac surprise
I was having a problem this afternoon with some debugging. I typically disable cache in the developer menu, and use private browsing. nevertheless, I would make a change in my code and the change was not reflected in the browser reload. In fact, I had a line that called on a nonexistent function. I deleted the line, but it kept appearing in the error messages. Somehow, Safari was caching when it was not supposed to be. I did not have time to explore it further, but will tomorrow and see if I can reproduce it. I did not try loading with Firefox and then again with Safari. On Dec 30, 2013, at 7:48 PM, Otis Rothenberger osrot...@chemagic.com wrote: Phil, Exactly. That's what I'm thinking. Safari won't cache it, but it will pull it from cache. Otis -- Otis Rothenberger o...@chemagic.com http://chemagic.com On Dec 30, 2013, at 7:28 PM, J. Philip Bays pb...@saintmarys.edu wrote: I would think that they both rely on the java console. I wonder what is going on with that? On Mon, Dec 30, 2013 at 4:27 PM, Robert Hanson hans...@stolaf.edu wrote: It appears that Safari has a very strange feature -- at least on my machine, everything works fine using http, but with file://, if I download Jmol, open the zip file, extract the jsmol directory, and start simple2.htm, and immediately clicking on the Signed link to get the signed version, the applet fails to load. However, if I first open the applet in Firefox, then Safari will open it. If Safari has opened the file, and I change the directory name, then the next time I try this, Safari will not start the applet. However, if I then open that local page in Firefox and then try again in Safari, all is good. What could possibly be going on? I don't know. But the fact that this is a new problem suggested to me that it's something recent. I remembered that recently I changed Safari settings to using the applet tag instead of object. Well, guess what? When I switch back to using the object tag, everything works normally. No directory problems; no load issues. Go figure. For whatever reason, it looks like we cannot use the applet tag in Safari. I'm sure I had a reason for switching to that, but I can't remember that. Bob -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users Philip Bays Emeritus Professor of Chemistry Saint Mary's College Notre Dame, IN 46556 pb...@saintmarys.edu -- Rapidly troubleshoot problems before they affect your business. Most IT organizations don't have a clear picture of how application performance affects their revenue. With AppDynamics, you get 100% visibility into your Java,.NET, PHP application. Start your 15-day FREE TRIAL of AppDynamics Pro! http://pubads.g.doubleclick.net/gampad/clk?id=84349831iu=/4140/ostg.clktrk___ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users