On Fri, Aug 20, 2010 at 5:53 AM, Robert Hanson wrote:
> Thank you, Paul, for contacting us about this error. Looks like we had a bug
> that only appears for first-time users.
Ah, so it was a folder that did not exist?
Egon
--
Dr E.L. Willighagen
Post-doc @ Uppsala University (only until 2010-0
Thank you, Paul, for contacting us about this error. Looks like we had a bug
that only appears for first-time users. Very sorry about that -- not nice at
all to do that to new users, I know! This is now fixed for Jmol 12.0.8 and
12.1.6, which are both ready for release.
Right this minute, though,
Jmol-users: Is this a known Java security bug issue?
Christopher: Do you find the same problem for anything on that page? You
can't load any file?
How about
http://chemapps.stolaf.edu/jmol/docs/examples-12/new.htm
?
-- Forwarded message --
From: Christopher Lloyd
Date: Fri, Au
I confirm what I wrote earlier : "starting with Jmol 12.0"
Jmol 12.0 is compiled with Java 1.5 (so it requires 1.5 to run) and there's
probably some code that really requires 1.5.
But with Jmol 12.1, we have rewritten many things to take advantage of 1.5
new syntax (generics, annotations, ...)
On
Well, that's an interesting question. What I believe we found is that we
were using Java 1.5 methods prior to that and just didn't know it. So we
were defacto requiring 1.5, I think. The test is if a person can start 12.0
and not 12.1, but I think these two(?) reports related to both of them.
Bob
Shouldn't that read "starting Jmol 12.1" ?
On 19 Aug 2010 at 8:56, Robert Hanson wrote:
>
> Let's get a prominent note to that effect in the files download page or
> somewhere in the release
> notes. Java 1.5 required. Nico, I am fully convinced this was a VERY good
> idea, despite the fact
(typo -- "jmol" extension is just a Jmol equivalent of "zip" the way "jar"
is for Java)
On Thu, Aug 19, 2010 at 11:37 AM, Robert Hanson wrote:
> In case that was too cryptic.
>
> 0) get the picture you want.
> 1) create the jvxl file: write "xxx.jvxl"
> 2) replace the surface with the jvxl equi
In case that was too cryptic.
0) get the picture you want.
1) create the jvxl file: write "xxx.jvxl"
2) replace the surface with the jvxl equivalent: isosurface "xxx.jvxl"
3) create a manifested zip file: write "xxx.jmol"
Then when you load xxx.zip, Jmol should load the file, load the surface, an
write xxx.zip
On Mon, Aug 16, 2010 at 4:44 AM, wrote:
> Dear Jmol,
>
> Is there a way to save Jmol state with the pre-calculated surface?
>
> We can save the Jmol state, and render the structure with the same
> look, orientation, etc. However, if the state contains a surface
> calculation, the
Hmm. I tried this myself and just clipped out the command I gave. Or so I
thought.
appendNew = true
load 2oc5.pdb
load append 1w68.pdb
zoom 9.2
frame *
select :A/2
r = [[ -0.59598154055, -0.32209352896, -0.73556900555 ], [ 0.21345024134,
-0.94661804765, 0.24156420749 ], [ 0.774109164, -0.0130395
Well, it's quite a new option for Java. Not surprised that it's not yet
universally available.
On Wed, Aug 18, 2010 at 1:59 PM, Alexander Rose wrote:
> Hi,
>
> Am 18.08.2010 um 06:48 schrieb Robert Hanson:
>
> You might check to be sure the Firefox/Mac OSX is using Java 1.6:
> http://www.duckwar
Let's get a prominent note to that effect in the files download page or
somewhere in the release notes. Java 1.5 required. Nico, I am fully
convinced this was a VERY good idea, despite the fact that some users will
hit this snag.
On Thu, Aug 19, 2010 at 4:48 AM, Nicolas Vervelle wrote:
> Hi,
>
>
Hi,
Starting with Jmol 12.0, we decided to stop supporting Java versions before
1.5.
Even 1.5 is not supported any more by Sun/Oracle, so it seems a reasonable
choice.
I don't think that you using Java 6, the second output is showing Java 1.4.0
as version...
If I remember correctly, version 49.0
I am forwarding this to the list.
On 18 Aug 2010 at 15:20, Sara Shi wrote:
> Hi, sorry to bother you, but I couldn't post to the maillist yet.
>
> We have exactly the same problem (stucking at the splash screen) if we use
> Jmol 12.0.6 and Java 1.6.0. Following the suggestions by Bob, we just t
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