| version 1.2 | version 1.3 |
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| 4.5 <a href=#4.5>I just downloaded and installed Java, but I got a message saying that the plugin could not be found.</a><BR> | 4.5 <a href=#4.5>I just downloaded and installed Java, but I got a message saying that the plugin could not be found.</a><BR> |
| 4.6 <a href=#4.6>I just downloaded and installed Java and Java3D, but when I load a molecule, the cylinders are rotated the wrong way.</a><BR> | 4.6 <a href=#4.6>I just downloaded and installed Java and Java3D, but when I load a molecule, the cylinders are rotated the wrong way.</a><BR> |
| 4.7 <a href=#4.7>I just started JMV, but the dropdown menus won't drop down.</a><BR> | 4.7 <a href=#4.7>I just started JMV, but the dropdown menus won't drop down.</a><BR> |
| 4.8 <a href=#4.8>I'm getting exceptions when I try to load a VRML file.</a><BR> | 4.8 <a href=#4.10>When I save a jpeg on Windows, the picture isn't getting saved properly.</a><BR> |
| 4.9 <a href=#4.9>When I try to load a VRML file, it says it cannot find the vrml97.jar file, but it is there.</a><BR> | 4.9 <a href=#4.11>When I reload a page running JMV, I get a long error message starting with: "Unexpected signal:"</a><BR> |
| 4.10 <a href=#4.10>When I save a jpeg on Windows, the picture isn't getting saved properly.</a><BR> | 4.10 <a href=#4.12>JMV says it cannot find Java3D, even though I have it installed.</a><BR> |
| 4.11 <a href=#4.11>When I reload a page running JMV, I get a long error message starting with: "Unexpected signal:"</a><BR> | 4.11 <a href=#4.13>I installed Java3D, but it gives me an UnsatisfiedLinkError saying: "J3D.dll A device attached to the system is not functioning"</A><BR> |
| 4.12 <a href=#4.12>JMV says it cannot find Java3D, even though I have it installed.</a><BR> | |
| 4.13 <a href=#4.13>I installed Java3D, but it gives me an UnsatisfiedLinkError saying: "J3D.dll A device attached to the system is not functioning"</A><BR> | |
| <P> | <P> |
| <P><P> | <P><P> |
| <B><U>1. About JMV</u></b><P> | <B><U>1. About JMV</u></b><P> |
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| <a name=2.2> | <a name=2.2> |
| <B>2.2 What kind of files can I load in JMV?</B><BR> | <B>2.2 What kind of files can I load in JMV?</B><BR> |
| JMV currently reads PDB files, although expansion for more types of files is planned. Using the "Load a file" button, you may load files from a URL, from your local disk, or from the RCSB site with a 4-digit code. You may also load VRML(version 2.0) files. <B>Note:</B> To load files not on the applet's host, the applet must be signed. For more on signing applets, see <a href="http://developer.java.sun.com/developer/Books/JAR/sign/signing.html" target=_blank>here</a>.<P> | JMV currently reads PDB files, although expansion for more types of files is planned. Using the "Load a file" button, you may load files from a URL, from your local disk, or from the RCSB site with a 4-digit code. <B>Note:</B> To load files not on the applet's host, the applet must be signed. For more on signing applets, see <a href="http://developer.java.sun.com/developer/Books/JAR/sign/signing.html" target=_blank>here</a>.<P> |
| <a name=2.3> | <a name=2.3> |
| <B>2.3 How do I run JMV as a standalone application?</B> | <B>2.3 How do I run JMV as a standalone application?</B> |
| Download the applet distribution, (jmv-<version-number>.applet.tar.gz or jmv-<version-number>.applet.zip for windows, where <version-number>is the current version number for JMV) and run the command:<BR> <code>java -classpath path/to/jmv-<version-number>.jar JMV</code><BR>where "path/to/" is the path to the jar file. | Download the applet distribution, (jmv-<version-number>.applet.tar.gz or jmv-<version-number>.applet.zip for windows, where <version-number>is the current version number for JMV) and run the command:<BR> <code>java -classpath path/to/jmv-<version-number>.jar JMV</code><BR>where "path/to/" is the path to the jar file. |
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| <B>4.7 I just started JMV, but the dropdown menus won't drop down.</B><BR> | <B>4.7 I just started JMV, but the dropdown menus won't drop down.</B><BR> |
| We're not sure what's causing this, but to fix it, just move the browser window. The menus should drop down then.<P> | We're not sure what's causing this, but to fix it, just move the browser window. The menus should drop down then.<P> |
| <a name=4.8> | <a name=4.8> |
| <B>4.8 I'm getting exceptions when I try to load a VRML file.</B><BR> | <B>4.8 When I save a jpeg on Windows, the picture isn't getting saved properly.</B><BR> |
| Currently, our VRML file loader can only read in VRML files of version 2.0. VRML version 1.0 files will result in exceptions like: "Exception: com.sun.j3d.loaders.vrml97.impl.ParseException: Unknown node type: Separator" and "Exception loading URL: vrml.InvalidVRMLSyntaxException". The version in a VRML file is described in the first line of the file. It will be "#VRML V1.0 ascii" if it is version 1.0 and "#VRML V2.0 utf8" for version 2.0.<P> | |
| <a name=4.9> | |
| <B>4.9 When I try to load a VRML file, it says it cannot find the vrml97.jar file, but it is there.</B><BR> | |
| The vrml97.jar file must be signed. For more on signing jar files, see <a href="http://developer.java.sun.com/developer/Books/JAR/sign/signing.html" target=_blank>here</a>.<P> | |
| <B>4.10 When I save a jpeg on Windows, the picture isn't getting saved properly.</B><BR> | |
| On Windows, the canvas on which the molecule is displayed must be completely in view and unobscured. If there is another window over the canvas, the window will be in the jpeg. If the canvas is not fully shown in the browser, only the part that is displayed will appear in the browser.<P> | On Windows, the canvas on which the molecule is displayed must be completely in view and unobscured. If there is another window over the canvas, the window will be in the jpeg. If the canvas is not fully shown in the browser, only the part that is displayed will appear in the browser.<P> |
| <a name=4.11> | <a name=4.9> |
| <B>4.11 When I reload a page running JMV, I get a long error message starting with: "Unexpected signal:"</b><BR> | <B>4.9 When I reload a page running JMV, I get a long error message starting with: "Unexpected signal:"</b><BR> |
| This happens when reloading a page with JMV. This often causes an error in Java, so please try to refrain from reloading a page running JMV.<P> | This happens when reloading a page with JMV. This often causes an error in Java, so please try to refrain from reloading a page running JMV.<P> |
| <a name=4.12> | <a name=4.10> |
| <B>4.12 JMV says it cannot find Java3D, even though I have it installed.</b><BR> | <B>4.10 JMV says it cannot find Java3D, even though I have it installed.</b><BR> |
| Start the Java Plug-In Control Panel (with the command "ControlPanel" on Suns). In the "Advanced" tab, the "Use Java Plug-In Default" will probably be selected by default. If the dropdown box has a more specific choice, try selecting that. If more than one path appears, select a JRE that has Java3D installed on it. Click "Apply" and try running JMV again.<P> | Start the Java Plug-In Control Panel (with the command "ControlPanel" on Suns). In the "Advanced" tab, the "Use Java Plug-In Default" will probably be selected by default. If the dropdown box has a more specific choice, try selecting that. If more than one path appears, select a JRE that has Java3D installed on it. Click "Apply" and try running JMV again.<P> |
| <P><P> | <P><P> |
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