Re: Re: [Jmol-users] Re: Jmol problem with Internet Explorer or with code

[Charles E. S. <su...@uw...>]

I found the Java Console on the Windows 95 machine (under View as you stated).  I tried a few commands. The report is below.  The message "java.io.FileNotFoundException" indicates to me that I should not try anything else until that is explained to me.

Charles

***********Start of Java Console Report***********


Microsoft (R) VM for Java, 5.0 Release 5.0.0.3802
==============================================
?  help
c  clear
f  run finalizers
g  garbage collect
m  memory usage
q  quit
t  thread list
==============================================
AppletRegistry.checkIn(jmol)
JmolApplet.loadProperties() -> java.io.FileNotFoundException: www.uwplatt.edu:80//~sundin/jmol/JmolApplet.properties
(C) 2004 The Jmol Development Team
Jmol Version 10pre10  2004/05/22 21:49
java.vendor:Microsoft Corp.
java.version:1.1.4
os.name:Windows 95
appletDocumentBase=http://www.uwplatt.edu/~sundin/jmol/JMOLTSTD.HTML
setting color scheme to:jmol
JmolViewer.setShapeProperty(Labels,color,java.awt.Color[r=255,g=255,b=255])
propertyName=color
value=java.awt.Color[r=255,g=255,b=255]
notifyFrameChanged(-1)
JmolViewer.setShapeProperty(Measures,clear,null)
propertyName=clear
value=null
FileManager.openFile(lysozym.pdb)
error opening http://www.uwplatt.edu/~sundin/jmol/lysozym.pdb
java.io.IOException
openFile(lysozym.pdb) 110 ms
frank is ON
jmol will try to run:
-----null
-----

jmol will try to run:
-----background blue
-----

jmol will try to run:
-----color atoms purple
-----

propertyName=colorScheme
value=null
propertyName=color
value=java.awt.Color[r=128,g=0,b=128]
jmol will try to run:
-----background yellow ; move 90 180 -45 0 0 0 0 0 5; center 1 ; move 0 0 360 100 0 0 0 0 2 ; delay 1 ; background teal
-----

jmol will try to run:
-----reset ; background black ; color atoms CPK ; trace off ; cartoon off
-----

propertyName=colorScheme
value=cpk


***********End of Java Console Report***********


-----Original Message-----
From: Miguel <mi...@jm...>
To: jmo...@li...
Date: Fri, 04 Jun 2004 09:27:57 +0200 (CEST)
Subject: Re: [Jmol-users] Re: Jmol problem with Internet Explorer or with code

> Let's start with IE 5.5 since I will have students with older machines.
>
> Specifics:  Internet Explorer 5.50.4522.1800 (Windows 95).

I have access to a machine that runs 5.50.4134.????/WinME just fine.

> Under Tools:  Internet Options:  Advanced:
>       Microsoft VM
>         Box checked: Java console enabled (requires restart)
>         Box checked: Java logging enabled
>         Box checked: JIT compiler for virtual machine enabled (requires
> restart)

Good

> But first, a correction.  I gave you some wrong information about
> http://www.uwplatt.edu/~sundin/pdb/BUTANE-A.HTML
> It is not java but a CHIME script.

OK ... no problem

> Now to the case at hand.  As mentioned earlier,
>
> http://jmol.sourceforge.net/demo/atoms/
>
> does run on this machine.

That is a pretty good test. I suggest that you try all of the pages that
are under:
  http://www.jmol.org/preview

The other pages contain larger molecules and perform more complex
operations that will stress the system a little more.

Let me know if any of these pages fail.

> When I run my program
>
> http://www.uwplatt.edu/~sundin/jmol/JMOLTSTd.HTML
>
> I get a gray background where the molecule should be and in the
> "information bar" right above "Start" at the bottom of the screen the
> statements appear:
>       Applet initialized
>       Applet started
> and then the background turns black (like it is supposed to do) but there
> is no molecule.
>
> If I place the cursor over "Background Blue" the statement appears
>      javascript:document.jmol.script('background blue')

OK. That means that the applet is definitely running.

We should try loading a simpler/smaller molecule to see what that does.

Get something little, in .xyz or .mol format. Put it in the load statement
of your applet.

Also, add two links with javascript code.

  javascript:document.jmol.script("load lysozyme.pdb")

and

  javascript:document.jmol.script("load somethingSmall.xyz")


That way, you can see what kind of effect these buttons have.


> I am such a JAVA novice that I do not know if I told you which JVM I am
> using, and even if I am seeing the Java Console.

The Java Console is a separate window. I think you need to open it
separately. Look around for it ... perhaps under View.

It will show a log of messages from Jmol while it is running.

We need to find it. Otherwise we will be working in the dark.

> I should repeat that my program does run with Netscape Communicator 4.5 on
> this same Windows 95 machine.

It is good to know that it still runs on NS 4.5. The oldest thing I have
tried it on is 4.76.


Miguel



-------------------------------------------------------
This SF.Net email is sponsored by the new InstallShield X.
From Windows to Linux, servers to mobile, InstallShield X is the one
installation-authoring solution that does it all. Learn more and
evaluate today! http://www.installshield.com/Dev2Dev/0504
_______________________________________________
Jmol-users mailing list
Jmo...@li...
https://lists.sourceforge.net/lists/listinfo/jmol-users