Bob,Good point. I thought that was just the data that I got from PubChem that only gave 2D structure but I will have another look at it.AlexOn 3/24/06,
Bob Hanson <[EMAIL PROTECTED]> wrote:
yes, well..., ah,... couldn't you get 3D structures, not 2D?I would be afraid people would get the impressi
Hi Bob, are the changes we spoke of below part of the new release? I couldn't really tell for the emails on the list. If so I will spend some time testing right away...FriedaOn Mar 24, 2006, at 11:14 AM, Bob Hanson wrote:Frieda Reichsman wrote: Also, testing this on the spin.html page, set perspect
>
> In the general case, I can think of no advantage or justification for ever
> having an absolute URL.
>
There are plenty of applications where an absolute URL are warranted. This
is one; I have given others before. Some of us work in multiserver
environments where the HTML is coming from one ma
In Jmol.js there is no special modification needed for jmolInitialize().
Please do not comment out the check, or -- if that is your intent, realize
that you don't have to. All you have to do is indicate the directory with
a SPACE prior to "http://";
Thus:
jmolInitialize(" http://kadfjadjl";)
wor
FYI:
Begin forwarded message:
From: Elisabeth Gasteiger <[EMAIL PROTECTED]>
Date: March 27, 2006 5:13:44 a EST
To: [EMAIL PROTECTED]
Subject: [help #11227] Please add Jmol and PyMol to mol vis tools
Sender Name: Timothy Driscoll
hello,
please add Jmol (http://jmol.sourceforge.net/) and PyMol
>>Q: Why does anyone need a server-absolute address.
>>
> In general a server-absolute address is needed if a page is supposed to
> work correctly also if it is saved locally on the client computer. This
> would not apply to the unsigned appled anyway. I don't know if it would
> work if the signed
Miguel wrote:
>Doc-root-relative can also be used.
>
>
Currently not. This is why I had to remove the alert from 'Jmol.js'.
>>I like the idea of an additional switch that would avoid
>>having to modify 'Jmol.js' each time it is updated, if
>>Miguel still thinks he should direct the user to the
>
Bob Hanson wrote:
not a problem with my newer jar files at
http://www.stolaf.edu/people/hansonr/jmol/test/json/
so I think this has been corrected.
William Reusch wrote:
Bob Hanson wrote:
Hmm. I think I still need to see the exact script. I can't reproduce
this at http://www.stolaf.edu/pe
>
> De: "Miguel" <[EMAIL PROTECTED]>
>
>>> I don't know why Miguel is trying to force people to
>>> use only one of the three possible ways to provide
>>> the path (directory-relative,
>>> DocumentRoot-relative, absolute).
>>
>>I believe that I allow you to use 2 of the 3 ... not one of the 3.
>
>
De: "Miguel" <[EMAIL PROTECTED]>
>> I don't know why Miguel is trying to force people to
>> use only one of the three possible ways to provide
>> the path (directory-relative,
>> DocumentRoot-relative, absolute).
>
>I believe that I allow you to use 2 of the 3 ... not one of the 3.
No, only dire
Rolf wrote:
> I don't know why Miguel is trying to force people to
> use only one of the three possible ways to provide
> the path (directory-relative,
> DocumentRoot-relative, absolute).
I believe that I allow you to use 2 of the 3 ... not one of the 3.
I am being paternalistic. I am trying to
> As far as I understood Miguel already has located the cause of the
> chain selection problem.
Correct.
Miguel
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>> I have defined several sets and they seem to work for me.
>>
>> Please try to send me a specific example.
>
> When I wrote the above I didn't realize the connection with the chain
> selection problem I detected later. In my set definitions the chain
> usually is also included in the atom express
[EMAIL PROTECTED] wrote:
>De: Brian Salter-Duke <[EMAIL PROTECTED]>
>
1. When trying to incorporate jmol in wiki pages. One user doing this
reports that ../extensions/jmol is needed for it to work in preview and
./extensions/jmol when the article is saved (I could have these the
w
De: Brian Salter-Duke <[EMAIL PROTECTED]>
>> >1. When trying to incorporate jmol in wiki pages. One user doing this
>> >reports that ../extensions/jmol is needed for it to work in preview and
>> >./extensions/jmol when the article is saved (I could have these the
>> >wrong way round). An absolut
I think my troubles with 10.00.49 may be due to a broken "spin on"
"spin on" as first command in a new applet, no molecule loaded,
gives:
---
Exception in thread "Thread-211" java.lang.NullPointerException
at
org.jmol.viewer.TransformManager$SpinThread.run(TransformMa
Quoting Egon Willighagen <[EMAIL PROTECTED]>:
On Monday 27 March 2006 09:24, [EMAIL PROTECTED] wrote:
Example: PDB entry '1DEH'
BROKEN : define het_CLa 601:A & hetero & not water;
WORKING: define het_CLa 601 & hetero & not water;
Are you using mmCIF files? If so, 10.00.49 has CIF reading cod
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