Oh, I see now that Java on the Mac doesn't allow entry of filenames by
keyboard typing in file-open dialog boxes. That's unfortunate.
It boggles my mind why Apple hasn't caught on to the fact that maybe a
file-open box could also be used for input from the web. Sure works nicely
on the PC.
If
Jmol users, good news!
The signed new applet load/save menu items have been checked successfully
now on Windows XP/Firefox,MSIE and Mac OS-X/Safari,Firefox. This is a whole
new age for the applet. Specifically the signed applet menu adds these two
items near the top:
Load
Load PDB
Load
Bob,
I am still experiencing the same bug with MacOs X.4, Safari : from
your simple page, I can't load any local file. Preview works fine,
but the final path provided to the applet is not correct (relative to
the webpage and not absolute):
FileManager opening
Sorry -- a fix I made did not make it into the package. Standby
On Tue, Sep 16, 2008 at 2:36 AM, Paul Pillot
[EMAIL PROTECTED] wrote:
Bob,I am still experiencing the same bug with MacOs X.4, Safari : from
your simple page, I can't load any local file. Preview works fine, but the
final
Robert Hanson wrote:
ps - It turns out there was a GIF encoder hiding in the Jmol code all along,
so I activated that as well. You can now save GIF images, but frankly they
look terrible because (I believe) GIF is limited to 256 colors. So I didn't
add that possibility to the menu.
I don't
Is this an applet only issue? I can definitely type the filename
into the open dialog in the application version.
Jmol 11.4.6, MacOS 10.4.11
Jonathan
On Sep 16, 2008, at 2:37 AM, [EMAIL PROTECTED]
wrote:
Message: 1
Date: Tue, 16 Sep 2008 00:51:03 -0500
From: Robert Hanson [EMAIL
Hi Bob,
I have not seen a response to a couple of queries here about inability to
access the interactive scripting documentation. The URL I usually use,
http://www.stolaf.edu/academics/chemapps/jmol/docs/
is redirected to
http://chemapps.stolaf.edu/jmol/docs/
and the link to documentation on
Avehna,
It appears to me that your solution is to have each checkbox call
only the part of script specific to the relevant piece of protein.
So, all your problem is a scripting one.
They are several segments, so I will need several
combinations if I'm using just jmol commands.
No, you
I sure hope that we have all missed something: I never realized how often I
use those pages every single day, until they were suddenly gone! Does
anyone have a copy anywhere?
-Tom
On Tue, Sep 16, 2008 at 7:28 AM, Frieda Reichsman [EMAIL PROTECTED] wrote:
Hi Bob,
I have not seen a response
For the desperate among you: I was relieved to find a copy of the
documentation in Google's cache of the web site:
http://209.85.173.104/search?q=cache:arLIksbhe2oJ:chemapps.stolaf.edu/jmol/docs/+jmol+documentationhl=enct=clnkcd=3gl=us
It's not likely to remain there long, so grab it while you
Hmm. Could be a Java version issue. I definitely see what is shown at
http://developer.apple.com/releasenotes/Java/Java142RN/WhatsNew/chapter_2_section_5.html
You don't?
I don't think I did anything to modify that, and the Java documentation
supports the idea that there is no such box in Mac
On Tue, Sep 16, 2008 at 7:30 AM, Rolf Huehne [EMAIL PROTECTED] wrote:
There is usually no drastic quality difference. It depends of course of
the specific rendering and larger images might also be more problematic.
If file size matters in my experience the quality of GIF images of PDB
I have attached a .png image of the open dialog I see on MacOS
10.4.11 with the latest Apple JVM using Jmol 11.6.RC14_dev (built on
my machine). The Jmol application does not use the local look and
feel (my recollection is that is the expected behavior, as we are not
using the swing and
Bob,
Ok, I can see a mac-like dialog without the text entry box for the
applet inside firefox using the web page
http://chemapps.stolaf.edu/jmol/docs/examples-11/simple.htm
This appears to be because the dialog is handled by the firefox
interface to the JVM, which is requesting a MacOS look
Jmol has some very odd bonding radii for unusual anions. Note the numbers:
(8 4) + (-2 + 4), 1320, // O-2
(8 4) + (-1 + 4), 1760, // O-1 // WAY too large?
(14 4) + (-4 + 4), 2710, // Si-4
(14 4) + (-1 + 4), 3840, // Si-1 // same problem here?
(34 4) + (-2 + 4), 1910,
That makes sense. Still I need to add a box anyway because the
information you type there is apparently not available for the
previewer. It's very cool to be able to preview remote files. Bob.
On Sep 16, 2008, at 9:55 PM, Jonathan Gutow [EMAIL PROTECTED] wrote:
Bob,
Ok, I can see a
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