;> engaging tech sites, SlashDot.org <http://slashdot.org/>!
>> http://sdm.link/slashdot___
>> <http://sdm.link/slashdot___>
>> Jmol-users mailing list
>> Jmol-users@l
apps, and protocols are
> consuming the most bandwidth. Provides multi-vendor support for NetFlow,
> J-Flow, sFlow and other flows. Make informed decisions using capacity planning
> reports.http://sdm.link/zohodev2dev___
> Jmol
Flow and other flows. Make informed decisions using capacity planning
> reports.http://sdm.link/zohodev2dev
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> https://lists.sourceforge.net/lists/listinfo/jmol-users
Philip Bay
gt; J-Flow, sFlow and other flows. Make informed decisions using capacity planning
> reports.http://sdm.link/zohodev2dev
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urn of the 2D. Recall that CORINA needs to break molecules into
> known ensembles which are then reassembled as 3D. FYI, CORINA DOCS.
>
> I have no clue what’s going on in SPARTAN.
>
> Otis
>
> --
> Otis Rothenberger
> o...@chemagic.org
> http://chemagic.org
>
&
for this and what is
going on with Spartan??
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
What NetFlow Analyzer can do for you? Monitors network
istinfo/jmol-users
>> <https://lists.sourceforge.net/lists/listinfo/jmol-users>
>>
>>
>>
>>
>> --
>> Robert M. Hanson
>> Larson-Anderson Professor of Chemistry
>> St. Olaf College
>> Northfield, MN
>> http://www.stolaf.e
In today’s version (…..6.28) the RCSB protein files in jsmol.htm do not load
correctly. Yesterday’s version (….6.27) worked. Can anyone else confirm that?
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
ten to tech luminaries
> present their vision of the future. This family event has something for
> everyone, including kids. Get more information and register today.
> http://sdm.link/attshape_______
> Jmol-users mailing list
> Jmol-users@lists.so
Sorry. Intended for someone else.
> On Jun 23, 2016, at 10:14 AM, Robert Hanson <hans...@stolaf.edu> wrote:
>
> ??
>
> On Wed, Jun 22, 2016 at 2:16 PM, Philip Bays <pb...@saintmarys.edu
> <mailto:pb...@saintmarys.edu>> wrote:
> Steve was actually looki
; it is better to take what answer we get.
>
> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
> --
> Attend Shape: An AT Tech Expo July 15-16. Meet us at AT Park in San
> Francisco, CA to explore
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Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
-
; Jmol-users@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/jmol-users
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Find
s. It resolves application problems quickly and
> reduces your MTTR. Get your free trial!
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pb...@saintmarys.edu
-
---
> Find and fix application performance issues faster with Applications Manager
> Applications Manager provides deep performance insights into multiple tiers of
> your business applications. It resolves application problems quickly and
> reduc
ntext.
>
> Otis
> --
> Otis Rothenberger
> o...@chemagic.org <mailto:o...@chemagic.org>
> http://chemagic.org
>
>> On Apr 20, 2016, at 9:01 AM, Philip Bays <pb...@saintmarys.edu
>> <mailto:pb...@saintmarys.edu>> wrote:
>>
>> Mac Safari
---
> Find and fix application performance issues faster with Applications Manager
> Applications Manager provides deep performance insights into multiple tiers of
> your business applications. It resolves application problems quickly and
> reduces your MTTR. Get
inner
>
> VAT No: DE 153 925 464
> Register of Associations: No. 230296, Amtsgericht Jena
> Tax Number: 162/141/08228
>
>
> --
> Find and fix application performance issues faster with App
, which are
limited. And HEM now works:-)
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Find and fix application performance issues faster with Applications
is used as a generator (defaults to @1)
> -- example:
>load =ams/calcite 1
> x = @3.find("crystalClass")
>print pointgroup(x).name
>draw points @x
>polyhedra ID p {0 0 0} to @x
>
>
>
> --
> Robert M. Hanson
> Larson-Anderson Professor
Some days/weeks ago someone posted the symbols used for the various databases
(i.e. $ for NCl) I cannot find that post which I know I saved:-( Can
someone refresh it for me.
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
ata analysis in your applications with
> Intel Data Analytics Acceleration Library.
> Click to learn more.
> http://pubads.g.doubleclick.net/gampad/clk?id=278785471=/4140___
> Jmol-users mailing list
> Jmol-users@lists.sourceforge.net
>
OK. It does not work with my implementation on any of the browsers on the mac,
but it does with your jsmol.htm file. So it’s me:-(
> On Apr 1, 2016, at 4:24 PM, Robert Hanson <hans...@stolaf.edu> wrote:
>
>
>
> On Fri, Apr 1, 2016 at 2:52 PM, Philip Bays
ture, but now I am not sure.
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Transform Data into Opportunity.
Accelerate data analysis in your applicat
Can JSmol pick out and display ligands in proteins? What is the script for
that?
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Transform Data
mple2.htm> to see how the "Load
> File" link works. I believe it is just
>
> load ?
>
>
>
> On Tue, Mar 29, 2016 at 1:02 PM, Philip Bays <pb...@saintmarys.edu
> <mailto:pb...@saintmarys.edu>> wrote:
> I am putting together a page and want a l
I am putting together a page and want a link on it to open local files. I know
that you can do this through the JSmol frank menu, but I want the link on the
page. I have tried the following:
console
http://pubads.g.doubleclick.net/gampad/clk?id=278785471=/4140
t; Jmol-users mailing list
> Jmol-users@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/jmol-users
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
-
Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
> --
> Transform Data into Opportunity.
> Accelerate data analysis in your applications with
> Intel Data Analytics Acceleration Libr
and various backups. Is
this a jmol file? Something that was attached to a jmol message?
Anyone else seeing this?
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
is in your applications with
> Intel Data Analytics Acceleration Library.
> Click to learn more.
> http://pubads.g.doubleclick.net/gampad/clk?id=278785111=/4140___
> Jmol-users mailing list
> Jmol-users@lists.sourceforge.net
> https://lists.sourceforg
7151=/4140
> ___
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
-
Observation for both 12.23 and 01.01. When you load taxol from NCl it is not
minimized; it is flat. It did not used to be that way. I suspect it is NCl
since other molecules (cholesterol, tetracycline, etc.) are fine.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre
> working later tonight.
>
> Bob
>
>
> --
> ___
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Philip Bays
Emeritus Professor of Chemistry
f nature does not answer first what we want,
> it is better to take what answer we get.
>
> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
> --
> ___
> Jmol-users mailing list
> Jmol-users@lists.s
f nature does not answer first what we want,
> it is better to take what answer we get.
>
> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
> --
> ___
> Jmol-users mailing list
> Jmol-users@lists.s
rst what we want,
>> it is better to take what answer we get.
>>
>> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>>
>>
--
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pb
the structure (or
re-download it) so that the ring is face-on. I do not see the issue in
molecules without an aromatic ring, even substituted cyclohexane seem to retain
the new orientation in jmol.
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb
PS: I can’t decide whether this is a bug or a feature.
Begin forwarded message:
From: Philip Bays pb...@saintmarys.edu
Subject: jmol/jmse issue
Date: August 19, 2015 at 11:06:29 AM EDT
To: Jmol Jmol jmol-users@lists.sourceforge.net
I have played with this. At first I thought it had
://lists.sourceforge.net/lists/listinfo/jmol-users
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
___
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for jsmol.
Again, this is on a Mac running the latest iteration of OS X.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
http://chemapps.stolaf.edu/jmol/jsmol/js/JSmolJME.js
On Fri, Jun 19, 2015 at 4:08 PM, Philip Bays pb...@saintmarys.edu
mailto:pb...@saintmarys.edu wrote:
Bob, Angel, and Otis:
Thanks for the suggestions. The width was not a problem for me. I had
already gotten out of the box
In the same folder as what?
J. Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Norte Dame, IN
Sent from my iPad
On Jun 18, 2015, at 1:05 AM, Otis Rothenberger osrot...@chemagic.com wrote:
Phil,
I'm at a loss other than saying that there is something inherent in Bob's
-users
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
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be there. At least I think
that’s the case. You can check my options in the above JSME page.
Otis
On Jun 17, 2015, at 2:08 PM, Philip Bays pb...@saintmarys.edu
mailto:pb...@saintmarys.edu wrote:
I do not see where you set the options for jsme in your source. Do you
have
: In the history of JME/JSME, this menu went through some
transitions. At one point, cookies were involved. That goes back to the Java
applet, I think. This should just work out of the box, I think.
Otis
On Jun 17, 2015, at 2:22 PM, Philip Bays pb...@saintmarys.edu wrote:
If you go
, it should just be there. At least I think
that’s the case. You can check my options in the above JSME page.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
that were not in place when
Jmol first started using JME. Back then I was using a clumsy Jmol load-data
approach. Jmol 2015 vs Jmol 2008: Thanks in large part to Bob, it’s come a
long way.
Otis
On Jun 17, 2015, at 4:50 PM, Philip Bays pb...@saintmarys.edu
mailto:pb...@saintmarys.edu wrote
approach. Jmol 2015 vs Jmol 2008: Thanks in large part to Bob, it’s come a
long way.
Otis
On Jun 17, 2015, at 4:50 PM, Philip Bays pb...@saintmarys.edu
mailto:pb...@saintmarys.edu wrote:
OK. I have found the source of my issue, but not the solution yet.
Please note
it displayed. But I
apparently do not have it set to be active. Is this specified in the options,
and if so, how? Any help?
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
drop entries. This is where I got the idea of using Local Storage to store
JME structures. Users can store 50 JME structures in our application page
that I linked to earlier.
Otis
On Jun 17, 2015, at 3:33 PM, Philip Bays pb...@saintmarys.edu
mailto:pb...@saintmarys.edu wrote
Jmol-users mailing list
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
/ostg.clktrk___
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
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Philip Bays
Emeritus Professor
allows it to run.
I have copied the alert I get when it fails and will send it to you off-line as
an attachment.
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
that matters.
http://tv.slashdot.org/
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pb
this. If Chrome
is open, neither script will work properly. Late night last night. What a
weird scripting language! I have not dealt with AppleScript since my first
Macintosh LONG ago.
Otis
On Mon, Sep 1, 2014 at 10:07 AM, Philip Bays pb...@saintmarys.edu wrote:
I think I was the one who raised
Yes. I got the permission issue resolved.
J. Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Norte Dame, IN
Sent from my iPad
On Sep 3, 2014, at 11:55 AM, Otis Rothenberger osrot...@chemagic.com
wrote:
Phil,
I don't know about the local issue, but both URL's open
/message/31570102/
Outcome: Reloading the page, you should get the standard alerts about running
Java applets, then the Jmol applet will start.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
get a security error there as well?
Bob
On Mon, Aug 18, 2014 at 9:25 PM, Philip Bays pb...@saintmarys.edu wrote:
When I try to launch locally by double clicking test2, I get the following
error in the applet load process.
Error: NETWORK_ERR: XMLHttpRequest Exception 101
information might be useful.
OSX 10.9.4 and Safari 7.0.6 (9537.78.2).
More thoughts on running locally in a subsequent post...
Otis
Philip Bays August 19, 2014 at 10:11 AM
I am using the latest version of Safari (7.0.6). Test2 runs locally using
Firefox and SeaMonkey
When I try to launch locally by double clicking test2, I get the following
error in the applet load process.
Error: NETWORK_ERR: XMLHttpRequest Exception 101
Mac OS 10.9.4, jmol release …8.17b
Phil
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame
/lists/listinfo/jmol-users
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
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pb...@saintmarys.edu
But should it ultimately load the structure? It does not.
J. Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Norte Dame, IN
Sent from my iPad
On Apr 30, 2014, at 6:30 PM, Robert Hanson hans...@stolaf.edu wrote:
On Tue, Apr 29, 2014 at 4:01 PM, Philip Bays pb
/SauceLabs___
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.
On Tue, Apr 29, 2014 at 8:53 AM, Philip Bays pb...@saintmarys.edu wrote:
Observations on this release: Mac OSX 10.9.2, Safari 7.0.3, Firefox 28.0
(Have not looked at 29.0 released this morning.)
Safari: NCI links give file format error
Both cyclohexane animations, mo homo
@lists.sourceforge.net
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Managing the Performance of Cloud-Based
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
WatchGuard Dimension instantly turns raw network data
? Just match the JME or Jmol
structure with a representative SMILES string or with each other's SMILES
string. Why the interest in InChI or InChIKey?
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
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pb
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.
On Dec 30, 2013, at 7:48 PM, Otis Rothenberger osrot...@chemagic.com wrote:
Phil,
Exactly. That's what I'm thinking. Safari won't cache it, but it will pull it
from cache.
Otis
--
Otis Rothenberger
o...@chemagic.com
http://chemagic.com
On Dec 30, 2013, at 7:28 PM, J. Philip Bays
in javascript, unless you mean it:-)
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Rapidly troubleshoot problems before they affect your business. Most
Bob:
That works but the positioning is sometimes barely visible and the menu links
do not work at all on an iPad.
J. Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Norte Dame, IN
Sent from my iPad
On Dec 27, 2013, at 1:15 PM, Bob Hanson hans...@stolaf.edu wrote:
Doesn't
change that in the edit option
without changing your machine name. a.local works just fine.
If you do not want to go to Terminal to turn off and on the apache server, the
following link gives you a preference pane for doing so.
http://clickontyler.com/web-sharing/
Phil
Philip Bays
Emeritus
.
Download it for free now!
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
...@stolaf.edu wrote:
Do clear your cache and try again on the site -- I would very much like to
see the error report.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
=84349351iu=/4140/ostg.clktrk___
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Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
/ostg.clktrk___
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Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/jmol-users
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Rapidly troubleshoot problems
seems to require
that you turn WebGL on in the developer menu.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Rapidly troubleshoot problems before they affect
, Philip Bays pb...@saintmarys.edu wrote:
Following are the results of launching pages locally:
Safari
jsmol.htm ‹ HTML5 applet does not load
test2.htm ‹ HTML5 applet loads, but neither java applet loads. giving
the following error alert
Bob:
I think that your links here are not correct. And is the download link right??
Sent from my iPad
On Dec 1, 2013, at 9:05 PM, Robert Hanson hans...@stolaf.edu wrote:
again! http://chemapps.stolaf.edu/jmol/zip/jmol-13.3.9_2013.12.01.zip
http access tests :
/jmol/jsmol/jsmol.htm
http://chemapps.stolaf.edu/jmol/jsmol/jsmol.htm?_USE=JAVA
http://chemapps.stolaf.edu/jmol/jsmol/jsmol.htm?_USE=SIGNED
I await your word
Bob
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
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/jsmol.htm?_USE=JAVA
http://chemapps.stolaf.edu/jmol/jsmol/jsmol.htm?_USE=SIGNED
I await your word
Bob
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
alert popping up
with a protein structure:
Javascript
JmolCore.js synchronus binary file transfer is requested but not available.
Clicking OK on this alert allows that structure and a few others to load, but
then it again freezes.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
I do not have the aforementioned issue running from my desktop using ….25c.
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
--
Shape the Mobile Experience
Firefox loads the signed Jmol just fine but
Unsigned gives an AccessControlException error. Is this expected?
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
of messages in Jmol's Java console. (Behind
the applet and visible with the Info SHOW link under the applet.) No?
Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
pb...@saintmarys.edu
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