nevermind. The proposed algorithm is:
For each model...
For each chain in the model...
While not done...
Given two sequence+insertion codes A and B...
1) look for (another) A.
2) if A is not found...
2a) find the code numerically
closest to it and
In addition, I note that if there are two blocks of groups having the
same group numbers (as in the old 1t0n or 1blu files) in the same chain
(in my observation, protein and water), then the first matching range
(the protein) is selected.
Bob
Bob Hanson wrote:
>I have committed this for testi
I have committed this for testing as 11.5.31_dev. It turns out the
original rewrite of the sequence range code was done by Miguel in
Sept/2005 in response to a request by Rolf relating to a strange PDB
file (1t0n) that had duplicate numbering and no chain designations. As
far as I can see, that
OK, upon rereading this thread, especially Rolf's earliest post, and
thinking more about what SELECT a-b should mean, and what insertions
are, and all that, I do agree that the first solution I had in mind and
put into 11.5.30 is not a good idea. What if we just went with Eric's
initial idea, b
Rolf, first, these are just development versions (11.5.x), so we can
undo anything. I did see your suggestion, but I don't think it is really
workable. You can't have an algorithm that sometimes does one thing and
sometimes another in such an unpredictable fashion. (And, remember, this
is chain
> Hi Frieda, I'm not sure what the IP address of that website is, does
> anyone know how to get an IP address from a domain name?
Maybe:
http://www.dnswatch.info/
-
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Bob Hanson wrote:
> Better idea -- this is in Jmol 11.5.30 unless I hear complaints.
>
> PROPOSED JMOL DEFAULT CHANGE
>
> -
> set sequenceRangePhysical (default FALSE)
>
> NOTE: The default FALSE behavior for this setting is a change from
> pr
Eran Hodis wrote:
> Hi Frieda,
> I'm not sure what the IP address of that website is, does anyone know how to
> get an IP address from a domain name?
>
> http://remote.12dt.com/ allows you to do a reverse DNS lookup which you can
> also do on a Mac terminal by doing "nslookup" followed by a space
Hi Frieda,
I'm not sure what the IP address of that website is, does anyone know how to
get an IP address from a domain name?
http://remote.12dt.com/ allows you to do a reverse DNS lookup which you can
also do on a Mac terminal by doing "nslookup" followed by a space and then
the IP address.
Bes
Hi Eran - I thought this sounded a lot like the problem that you folks
are having. Thank you for confirming the domain name aspect of it.
Question - So, i assume there is no problem as long as the DNS reverse
lookup IP address resolves to the domain name of the URL--
for example, published
Hi Frieda,
This is a issue we are dealing with in Proteopedia as well.
The combination of Firefox version 2 and Java version 1.6.0_03+ (latest
stable release is 1.6.0_05) is more sensitive to security issues.
When I do a reverse DNS lookup on the IP address you gave (64.95.78.91) I
get permacult
CORRECTION - the pdb file does not load into the applet when all files
are placed into the same directory. SO the breakage is even worse in
this case.
script ERROR: java.security.AccessControlException: access denied
(java.net.SocketPermission 64.95.78.91:80 connect,resolve)
Sent pre
Placing all the files in the same directory (and changing all the file
calls) still results in a security error when a script is called by a
button:
script ERROR: java.security.AccessControlException: access denied
(java.net.SocketPermission 64.95.78.91:80 connect,resolve)
/
There is no change in the button behavior, nor any discernible change
in FF.
On Apr 21, 2008, at 8:15 AM, Bob Hanson wrote:
> what happens when you go to that page and then plug this into the URL
> address line?
>
> javascript:void(jmolScript('script "3d/sidechains.spt"'))
>
> ?
>
>
> Frieda R
what happens when you go to that page and then plug this into the URL
address line?
javascript:void(jmolScript('script "3d/sidechains.spt"'))
?
Frieda Reichsman wrote:
>I should have mentioned more about the problem - the Jmol loads just
>fine on the page and responds to the mouse, but the
I should have mentioned more about the problem - the Jmol loads just
fine on the page and responds to the mouse, but the problem occurs
when a script is called from a radio button, checkbox, etc. (Buttons
that do not call scripts work fine.)
Frieda
//
Fr
Hi,
I have a figure that is working in Firefox on Mac but broken in FF/Win
Vista. It works fine in Mac/Safari and Win/Internet Explorer.
The error message in the Java console is as follows:
script ERROR: java.security.AccessControlException: access denied
(java.net.SocketPermission 64.95.78.
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