MediaWiki - Revision history

AngelHerraez: /* How to use the Jmol Extension */

2025-01-17T15:03:19Z

‎How to use the Jmol Extension

AngelHerraez: archiving comments about problems with old versions

2025-01-17T11:56:48Z

archiving comments about problems with old versions

AngelHerraez: small update, title, layout

2025-01-17T09:23:34Z

small update, title, layout

AngelHerraez: updating doc for v6 of the Extension

2025-01-16T17:16:58Z

updating doc for v6 of the Extension

AngelHerraez: content moved to a new page

2024-04-23T06:25:58Z

content moved to a new page

AngelHerraez: slight rewording

2023-09-02T10:35:28Z

slight rewording

AngelHerraez: /* Installation */

2019-04-25T22:38:30Z

‎Installation

AngelHerraez: updates to Jmol MW Extension v5

2019-04-25T18:08:14Z

updates to Jmol MW Extension v5

AngelHerraez: /* Description */

2014-10-04T19:32:14Z

‎Description

AngelHerraez: /* How to use the Jmol Extension */

2014-10-04T16:24:53Z

‎How to use the Jmol Extension

@@ Line 29: / Line 29: @@
 * [[MediaWiki/ExtensionV6|How to use version 6 of the Jmol Extension]]. Compatible with MediaWiki 1.39 to 1.43, PHP 8.1.0 and JSmol 16.3.7 (likely also with former versions of JSmol)
 * [[MediaWiki/ExtensionV5|How to use version 5 of the Jmol Extension]]. Compatible with MediaWiki 1.32, PHP 7.0 and JSmol 14.29.32
-* [[MediaWiki/ExtensionV4|How to use version 4 of the Jmol Extension]]
+* [[MediaWiki/ExtensionV4|How to use version 4 of the Jmol Extension]]. Compatible with MediaWiki 1.16.
 * [[MediaWiki/ExtensionV3|How to use version 3 of the Jmol Extension]]

@@ Line 38: / Line 38: @@
 == Problems yet to be solved ==
 * Having problems with Jmol applets that are placed below the flow of a link, button, or other user interface element in markup. I get what appears to be a Java error when loading an uploaded file. --[[User:Mevans86|Mevans86]] 18:58, 13 October 2010 (UTC)
@@ Line 55: / Line 60: @@
 :Warning: Parameter 3 to Jmol::jmolPdbTag() expected to be a reference, value given in /var/www/SklogWiki/includesparser/Parser.php  on line 3580
 :Any advice? --[[User:SklogWiki|SklogWiki]] 19:31, 31 January 2012 (CET)
 * The installation does not work when the wiki is installed in a non-root folder of the server (e.g.  <nowiki>http://www.myserver.com/mywiki/index.php</nowiki> instead of <nowiki>http://mywiki.myserver.com/index.php</nowiki>).

@@ Line 1: / Line 1: @@
 {{Running_Jmol_Sections}}
-= Description =
+__TOC__
+== Description ==
 [http://www.mediawiki.org/ MediaWiki] is an open source wiki engine licensed under the [http://www.gnu.org/copyleft/gpl.html GNU General Public License]. It is used by [[metawikipedia:Sites_using_MediaWiki|many websites]], including this one.
-The '''Jmol Mediawiki Extension''' enables the use of the '''JSmol''' object inside of Mediawiki pages.
+Current version is '''Jmol MediaWiki Extension 6.0'''. It uses '''JSmol''', in the HTML5 modality (it may be set by the administrator to use the WebGL modality). It is compatible with MediaWiki 1.43 (likely also with 1.39 and 1.41)
 (You can check which version a Wiki is using by going to the <code>[[Special:Version]]</code> page in that Wiki)
@@ Line 15: / Line 15: @@
 * Version 3 used Jmol-Java.
 **Security is hopefully correct now. The delay effect can be obtained by using [[MediaWiki#Jmol_applet_in_a_popup_window | Jmol applet in a popup window]].
-** The Jmol Mediawiki Extension is fully functional and stabilized. It currently needs to be modified for a few things: better security, ability to delay loading the applet.
+** The Jmol MediaWiki Extension is fully functional and stabilized. It currently needs to be modified for a few things: better security, ability to delay loading the applet.
-= Wikis using the Jmol Extension =
+== Wikis using the Jmol Extension ==
 If you know a Wiki using the Jmol MediaWiki Extension, please add it to the list of [[Wikis_Using_Jmol |Wikis using Jmol]].
-= How to use the Jmol Extension =
+== How to use the Jmol Extension ==
-Once the Jmol Extension is installed in the Wiki, you can start adding JSmol objects and controls.
+Once the Jmol Extension is installed in the wiki, you can start adding JSmol objects and controls.
 How to know if the Extension is installed, and which version it is? Visit the <code>Special:Version</code> page in your wiki; the extension should be listed there.
@@ Line 32: / Line 32: @@
 * [[MediaWiki/ExtensionV3|How to use version 3 of the Jmol Extension]]
-= Installation =
+== Installation ==
 (''This must be done by the wiki administrator.'')
 See [[MediaWiki/Installation]]
-= Problems yet to be solved =
+== Problems yet to be solved ==
 * Having problems with Jmol applets that are placed below the flow of a link, button, or other user interface element in markup. I get what appears to be a Java error when loading an uploaded file. --[[User:Mevans86|Mevans86]] 18:58, 13 October 2010 (UTC)
-* Does not work with Media wiki 1.17 (and probably 1.15,1.16).  I think there was a rewrite of mediawiki code and I get:
+* Does not work with Media wiki 1.17 (and probably 1.15,1.16).  I think there was a rewrite of MediaWiki code and I get:
 : Warning: Parameter 1 to Jmol::tag_jmol() expected to be a reference, value given in /var/www/mediawiki/extensions/StubManager/StubManager.php on line 783
 : --[[User:Jacksmind|Jacksmind]] 01:00, 10 October 2010 (UTC)
@@ Line 56: / Line 56: @@
 :Any advice? --[[User:SklogWiki|SklogWiki]] 19:31, 31 January 2012 (CET)
+=== Already solved ===
 These are left here for reference, as you may still have these problems depending on your version of MediaWiki or your version of the Jmol MediaWiki Extension.
@@ Line 72: / Line 71: @@
 <div style="border:1px dashed #000099; margin-left:6ex;">
 (Bob)  something in {{file|/skins/common/wikibits.js?97}} is disabling checkboxes.<br />
-(Nico)  Yes, good catch, thanks a lot. Now, I need to find a way to overcome the behaviour of <code>setupCheckboxShiftClick()</code>. I am going to ask on mediawiki list.<br />
+(Nico)  Yes, good catch, thanks a lot. Now, I need to find a way to overcome the behaviour of <code>setupCheckboxShiftClick()</code>. I am going to ask on MediaWiki list.<br />
 (Bugzilla) [https://bugzilla.wikimedia.org/show_bug.cgi?id=10642 discussion]
 </div>
@@ Line 89: / Line 88: @@
 :: The '&' is not tolerated by the wikicode. The solution is to use %26 (the wikicode for &) instead of the ampersand(s) in the url, content of the {{tag|urlContents}} tag. The Extension will later filter those %26 codes and convert them to & so that the server correctly provides the model.
-= External links =
+== External links ==
 * Wikipedia: [[wikipedia:Wikipedia:Using Jmol to display molecular models|Using Jmol to display molecular models]]
 * Wikipedia: [[wikipedia:Wikipedia:WikiProject Chemistry|WikiProject Chemistry]]
 * MediaWiki: [http://www.mediawiki.org/wiki/Extension:Jmol Jmol Extension for MediaWiki]

@@ Line 6: / Line 6: @@
 The '''Jmol Mediawiki Extension''' enables the use of the '''JSmol''' object inside of Mediawiki pages.
-'''Current version: 5.1''', compatible with '''JSmol'''
+Current version is '''Jmol Mediawiki Extension 6.0'''. It uses '''JSmol''', in the HTML5 modality (it may be set by the administrator to use the WebGL modality). It is compatible with MediaWiki 1.43 (likely also with 1.39 and 1.41)
 (You can check which version a Wiki is using by going to the <code>[[Special:Version]]</code> page in that Wiki)
-'''Current status: (version 5, JSmol)'''
+'''Previous versions:'''
-* The Jmol Mediawiki Extension is now using JSmol (in HTML5 modality by default, but also compatible with Java modality if you use a web browser that still supports Java applets). Some functionality was added, apart from compatibility with MediaWiki version 1.32.
+* Version 5 uses JSmol (in HTML5 modality by default, but also compatible with Java modality if you use a web browser that still supports Java applets). Some functionality was added, apart from compatibility with MediaWiki version 1.32.
-'''Old status: (version 4, JSmol)'''
+* Version 4 used JSmol (in HTML5 modality by default, but also compatible with Java modality)
-* The Jmol Mediawiki Extension used JSmol (in HTML5 modality by default, but also compatible with Java modality)
+* Version 3 used Jmol-Java.
-'''Older status: (version 3, Jmol-Java)'''
+**Security is hopefully correct now. The delay effect can be obtained by using [[MediaWiki#Jmol_applet_in_a_popup_window | Jmol applet in a popup window]].
-* Security is hopefully correct now. The delay effect can be obtained by using [[MediaWiki#Jmol_applet_in_a_popup_window | Jmol applet in a popup window]].
+** The Jmol Mediawiki Extension is fully functional and stabilized. It currently needs to be modified for a few things: better security, ability to delay loading the applet.
 = Wikis using the Jmol Extension =
@@ Line 27: / Line 27: @@
 How to know if the Extension is installed, and which version it is? Visit the <code>Special:Version</code> page in your wiki; the extension should be listed there.
 * [[MediaWiki/ExtensionV5|How to use version 5 of the Jmol Extension]]. Compatible with MediaWiki 1.32, PHP 7.0 and JSmol 14.29.32
 * [[MediaWiki/ExtensionV4|How to use version 4 of the Jmol Extension]]

@@ Line 34: / Line 34: @@
 (''This must be done by the wiki administrator.'')
-The files forming the Jmol Extension are part of the Jmol source code and may hence be retrieved from [{{SVN Trunk}}Jmol-extensions/wiki/MediaWiki/ the SVN system].
+See [[MediaWiki/Installation]]
 = Problems yet to be solved =

@@ Line 36: / Line 36: @@
 The files forming the Jmol Extension are part of the Jmol source code and may hence be retrieved from [{{SVN Trunk}}Jmol-extensions/wiki/MediaWiki/ the SVN system].
-Installation of the Jmol extension is now described on [[:mw:Extension:Jmol#Installing Jmol Extension|the Jmol extension page on MediaWiki]].
+'''Installation of the Jmol extension is now described on [[:mw:Extension:Jmol#Installing Jmol Extension|the Jmol extension page on MediaWiki]].'''
 You can configure the Jmol extension with several settings added after the above line (default value in '''bold'''):
@@ Line 55: / Line 55: @@
 == Installation of older versions ==
 The Jmol Extension below v. 3.3 uses another extension, [[mw:Extension:StubManager|Stub Manager]], so you first need to install it.

@@ Line 7: / Line 7: @@
 '''Current version: 4.2_2.0''', compatible with JSmol
-(You can check which version a Wiki is using by going to the <code>[[Special:Version]]</code> page in that Wiki.
+(You can check which version a Wiki is using by going to the <code>[[Special:Version]]</code> page in that Wiki)
-:Note that documentation in this page is obsolete; while it gets updated, you can check documentation for the 4.x version at this [http://proteopedia.org/w/User:Jaime_Prilusky/JSmolExtension Proteopedia page]
+'''Current status: (version 4, JSmol)'''
 * The Jmol Mediawiki Extension is now using JSmol (in HTML5 modality by default, but also compatible with Java modality)
 * Security is hopefully correct now. The delay effect can be obtained by using [[MediaWiki#Jmol_applet_in_a_popup_window | Jmol applet in a popup window]].
 * The Jmol Mediawiki Extension is fully functional and stabilized. It currently needs to be modified for a few things: better security, ability to delay loading the applet.