Support/Windows - Revision history

AngelHerraez: shortcuts and non-default language

2021-08-14T09:56:21Z

shortcuts and non-default language

AngelHerraez: troubleshooting IE9

2011-05-05T13:28:16Z

troubleshooting IE9

AngelHerraez: /* Jmol on Windows */

2011-05-05T13:15:18Z

‎Jmol on Windows

AngelHerraez: /* Creating shortcuts to Jmol application */

2009-01-26T17:39:43Z

‎Creating shortcuts to Jmol application

AngelHerraez: /* Creating shortcuts to Jmol application */

2009-01-26T16:25:12Z

‎Creating shortcuts to Jmol application

AngelHerraez: /* Creating shortcuts to Jmol application */

2009-01-26T14:32:17Z

‎Creating shortcuts to Jmol application

AngelHerraez: /* Creating shortcuts to Jmol application */

2009-01-26T11:55:39Z

‎Creating shortcuts to Jmol application

AngelHerraez: Caveat: shortcuts fail

2009-01-26T11:04:36Z

Caveat: shortcuts fail

AngelHerraez: formatting

2008-04-08T09:36:08Z

formatting

AngelHerraez: Linking from PowerPoint

2008-04-08T09:22:53Z

Linking from PowerPoint

@@ Line 2: / Line 2: @@
 === Jmol on Windows ===
-Jmol runs without problems on Windows 9x/XP/Vista/7 computers using Sun's java virtual machines, both as [[Jmol_Applet|Applet]] as well as [[Jmol_Application|Application]].
+Jmol runs without problems on computers with Windows 95 or later, using Oracle's Java virtual machines, as an [[Jmol_Application|Application]]. Running [[Jmol_Applet|Applet]]s inside a web page relies also on the Java virtual machine, but has been disabled in most web browsers. The substitue for web pages is the [[JSmol]] object which runs without problems and provides the same functionality as the Jmol application.
 === Creating shortcuts to Jmol application ===
@@ Line 24: / Line 13: @@
 : For more flexibility, you may instead wish to call Java explicitly using this:
 :: <code>java -jar "C:\Program files\Jmol\Jmol.jar"</code>
-: which allows to add (between <code>java</code> and <code>-jar</code>) the amount of memory to be used, the window size, or the execution of a script, etc. (see [[Jmol_Application#Command_line_options | Command line options]]).
+: and if the system is not configured to locate the Java executable, you will need to indicate its full path, like e.g.
-: If the system is not configured to locate the Java executable, you will need to indicate its full path, like e.g.
+:: <code>"C:\Program files\Java\jre1.8.0_251\bin\java" -jar "C:\Program files\Jmol\Jmol.jar"</code>
-:: <code>"C:\Program files\Java\jre1.6.0_07\bin\java" -jar "C:\Program files\Jmol\Jmol.jar"</code>
+: These last two syntaxes allow to add extra start-up specifications, between <code>java</code> and <code>-jar</code>, like the amount of memory to be used, the window size, or the execution of a script, etc. (see [[Jmol_Application#Command_line_options | Command line options]]).
 * '''''Start in:''''' you can put your working folder, if you want; that will be the default location Jmol will show on "File > Open". If not specified, Jmol will ususally point to ''My documents'', or ''Documents'', or the ''Desktop''.
 * '''''Change Icon''''': you can get a Jmol icon from the [[Recycling Corner]].

← Older revision		Revision as of 13:28, 5 May 2011
Line 3:		Line 3:

	Jmol runs without problems on Windows 9x/XP/Vista/7 computers using Sun's java virtual machines, both as [[Jmol_Applet\|Applet]] as well as [[Jmol_Application\|Application]].		Jmol runs without problems on Windows 9x/XP/Vista/7 computers using Sun's java virtual machines, both as [[Jmol_Applet\|Applet]] as well as [[Jmol_Application\|Application]].
		+
		+	==== Jmol pages in IE9 ====
		+	In some configurations, Jmol applet may fail to load under Internet Explorer 9.
		+
		+	Possible symptoms:
		+	* IE says there is a problem with the page and that IE "has had to close and reopen the tab". In fact, the page is displayed briefly (black Jmol) and then dissapears.
		+	* You get a "blocking content" tab.
		+
		+	Solutions to try:
		+	* If you get a "blocking content" tab, click on it to allow the content.
		+	* ActiveX filter (in the Tools menu) must '''''not''''' be checked. [[File:Unlock_ActiveX_in_IE9.png]]
		+	* Reinstall Java.

	=== Creating shortcuts to Jmol application ===		=== Creating shortcuts to Jmol application ===

@@ Line 2: / Line 2: @@
 === Jmol on Windows ===
-Jmol runs without problems on Windows 9x/XP/Vista computers using Sun's java virtual machines, both as [[Jmol_Applet|Applet]] as well as [[Jmol_Application|Application]].
+Jmol runs without problems on Windows 9x/XP/Vista/7 computers using Sun's java virtual machines, both as [[Jmol_Applet|Applet]] as well as [[Jmol_Application|Application]].
 === Creating shortcuts to Jmol application ===

@@ Line 16: / Line 16: @@
 :: <code>"C:\Program files\Java\jre1.6.0_07\bin\java" -jar "C:\Program files\Jmol\Jmol.jar"</code>
 * '''''Start in:''''' you can put your working folder, if you want; that will be the default location Jmol will show on "File > Open". If not specified, Jmol will ususally point to ''My documents'', or ''Documents'', or the ''Desktop''.
-::''This method used to work, but currently it does not. The change has happened between versions 11.5 and 11.6; we are investigating it. If you manage (or not) to have it work, please share your experience in the Jmol-users list.''
+::''This method does not work with Jmol versions 11.6.RC15 or higher, 11.6.1 to 11.6.14 and 11.7.1 to 11.7.22.''
 * '''''Change Icon''''': you can get a Jmol icon from the [[Recycling Corner]].

@@ Line 15: / Line 15: @@
 : If the system is not configured to locate the Java executable, you will need to indicate its full path, like e.g.
 :: <code>"C:\Program files\Java\jre1.6.0_07\bin\java" -jar "C:\Program files\Jmol\Jmol.jar"</code>
 * '''''Start in:''''' you can put your working folder, if you want; that will be the default location Jmol will show on "File > Open". If not specified, Jmol will ususally point to ''My documents'', or ''Documents'', or the ''Desktop''.
 ::''This method used to work, but currently it does not. The change has happened between versions 11.5 and 11.6; we are investigating it. If you manage (or not) to have it work, please share your experience in the Jmol-users list.''
 The same applies to entries in Windows ''Start'' menu, or ''Programs'' menu.

@@ Line 7: / Line 7: @@
 The details of creating a '''Windows shortcut''' and a '''Start menu entry''' are out of the scope of this wiki. What is given here are the specific details for Jmol.
-:''This method used to work, but currently it does not. The change has happened between versions 11.5 and 11.6; we are investigating it. If you manage (or not) to have it work, please share your experience in the Jmol-users list.''
+Shortcut properties must be (under the ''Shortcut'' tab):
-Shortcut properties must be (under ''Shortcut'' tab):
+* '''''Start in:''''' you can put your working folder, if you want; that will be the default location Jmol will show on "File > Open". If not specified, Jmol will ususally point to ''My documents'', or ''Documents'', or the ''Desktop''.
-* ''Target'': the place where you have put Jmol files (usually when you uncompressed the distribution <code>gz</code> or <code>zip</code> file), including full pathname and filename and all between double quotes. Example: <br />
+::''This method used to work, but currently it does not. The change has happened between versions 11.5 and 11.6; we are investigating it. If you manage (or not) to have it work, please share your experience in the Jmol-users list.''
 The same applies to entries in Windows ''Start'' menu, or ''Programs'' menu.

@@ Line 8: / Line 8: @@
 Shortcut properties must be (under ''Shortcut'' tab):
-* ''Target'': the place where you have put Jmol files (usually when you uncompressed the distribution gz or zip file), including full pathname and filename and all between double quotes. Example: <br />
+* ''Target'': the place where you have put Jmol files (usually when you uncompressed the distribution <code>gz</code> or <code>zip</code> file), including full pathname and filename and all between double quotes. Example: <br />
-<code>"C:\Program files\Jmol\Jmol.jar"</code>
+:: <code>"C:\Program files\Jmol\Jmol.jar"</code>
 * ''Start in'': you can put your working folder, if you want; that will be the default location Jmol will show on "File > Open".
@@ Line 15: / Line 15: @@
-=== Associating molecular files (e.g. PDB) in hard disk with Jmol application ===
+=== Associating molecular files in hard disk with Jmol application ===
-You can configure Windows Explorer (file manager) so that double-clicking on a pdb file (or right-clicking for options in the pop-up menu) will open it with Jmol application.
+You can configure Windows Explorer (file manager) so that double-clicking on a <code>pdb</code> file, or <code>mol</code>, <code>xyz</code>, etc. file (or right-clicking for options in the pop-up menu) will open it with Jmol application.
 This is how to do it:
@@ Line 23: / Line 23: @@
 # Locate the application file, {{File|Jmol.jar}} (you decided where to put it when you uncompressed the downloaded Jmol distribution file, {{File|jmol-11.xx.xx-binary.tar.gz}} or {{File|jmol-11.xx.xx-binary.zip}}).
 # Locate the file {{File|javaw.exe}} in the Java installation folder (usually it will be somewhere like {{Directory|C:\Program files\Java\bin\}}).
-# Open windows explorer / file manager, open menu "{{MenuItem|Tools}} &rarr; {{MenuItem|Folder options}}", "File types" tab, and scroll to PDB (or any other extension that you want associated to Jmol, like MOL or XYZ). Select its entry.
+# Open windows explorer / file manager, open menu "{{MenuItem|Tools}} &rarr; {{MenuItem|Folder options}}", "File types" tab, and scroll to <code>pdb</code> (or any other extension that you want associated to Jmol, like <code>mol</code>, <code>mol2</code> or <code>xyz</code>). Select its entry.
 # Click on "Advanced options" button and then either "Edit" the default "open" action or create a "New" action.
 # In the textbox under "Action" you can type "open" or whatever you want it to be called in the pop-up menu; under "Application used" type (including the quotes and the final %1):<br />'''"'''''put here the path and filename of javaw.exe'''''" -jar "'''''put here the path and filename of Jmol.jar'''''" "%1"'''<br />For example:<br />
-<code>"C:\Program files\Java\bin\javaw.exe" -jar "C:\Program files\Jmol\Jmol.jar" "%1"</code>
+: <code>"C:\Program files\Java\bin\javaw.exe" -jar "C:\Program files\Jmol\Jmol.jar" "%1"</code>
 === Linking from PowerPoint to molecule files so that they open in Jmol application ===
-You can set a hyperlink for any object in MS-PowerPoint that points to a PDB, MOL, etc. file and have it opened in Jmol, by setting the default ("open") action of such file extensions, as described in the above sub-section.
+You can set a hyperlink for any object in MS-PowerPoint that points to a <code>pdb</code>, <code>mol</code>, etc. file and have it opened in Jmol, by setting the default ("open") action of such file extensions, as described in the above sub-section.
 === Comments/Discussion ===