Dear all,
I fully agree with Henry's considerations. This might be a nontrivial
issue for the future of Jmol.
On the other hand, I also hope that things may be simpler, as Nico is
presenting them.
I would not like to give up using the applet!
Nico, I downloaded yout test signed Jmol and run a
On Wed, Nov 6, 2013 at 9:45 AM, Angel Herráez angel.herr...@uah.es wrote:
Indeed, when I looked at the applet files, they are not dated 4 Nov
as the main files, but 31 Oct, so maybe the old nonsigned files got
in the package?
Thanks Angel, I will look into it this evening.
I made several
On 6 Nov 2013, at 08:45, Angel Herráez angel.herr...@uah.es wrote:
Dear all,
I fully agree with Henry's considerations. This might be a nontrivial
issue for the future of Jmol.
On the other hand, I also hope that things may be simpler, as Nico is
presenting them.
I would not like to
On 6 November 2013 11:02, Rzepa, Henry S h.rz...@imperial.ac.uk wrote:
On 6 Nov 2013, at 08:45, Angel Herráez angel.herr...@uah.es wrote:
Dear all,
I fully agree with Henry's considerations. This might be a nontrivial
issue for the future of Jmol.
On the other hand, I also hope that
On 6 Nov 2013, at 09:20, Nina Jeliazkova jeliazkova.n...@gmail.com wrote:
JavaScript is pretty much catching up in speed and ubiquity. Many benchmarks
point in this direction
http://benchmarksgame.alioth.debian.org/u64/benchmark.php?test=alllang=v8lang2=javadata=u64
Best regards,
Although Jsmol is impressive, far too often I get 'script taking too long'
messages from the browser, so although I believe the future of Jmol
lies in Jsmol, I woul not like to lose the java applet at this time
simply because of
supposed security threats...
Cheers
Simon
Quoting Rzepa,
Nicolas Vervelle wrote:
On Wed, Nov 6, 2013 at 8:11 AM, Rzepa, Henry S h.rz...@imperial.ac.ukwrote:
I think this is great for testing, but what will happen in “production
mode” Inevitably when one talks to large organisations (as I did with the
ACS and RSC), they ask “what will our lawyers
We have a similar problem at Imperial College in our finance division. On
line access to the accounting system is via a Java applet! At the moment, this
is self-signed, and so they have the same problem as Jmol has. One presumes
that anything to do with finance will have to be carefully
I have been in touch with an organization that is prepared to
sponsor the certification - i.e. they will donate the money -
but it is unlikely that they would want the certificate in their name,
partly because of the legal considerations and partly because they
feel strongly that such
On Wed, Nov 6, 2013 at 1:00 PM, s...@publcif.co.uk wrote:
Although Jmol is opensource, I assume the certificate isnt, so there
shouldnt
be an issue with anyone modifying the Jmol source and putting it out with
the same certificate - pointless exercise otherwise?
I think that the
If I might interject - code signing and the lot should be viewed as a short
term (and poor) solution to this problem.
First, I'd like to thank Bob and all of you for moving in the javascript
direction, away from Java. Absent in this discussion is a thread ongoing about
the security threats
still a problem? I just tested it with my 1st-gen iPad with Safari and it
was fine.
On Mon, Nov 4, 2013 at 11:32 AM, Philip Bays pb...@saintmarys.edu wrote:
I have been out of the loop for a while taking care of my wife who has a
broken and repaired knee cap. I knew we ought to pay off
we will be experimenting with trusted-certificate code signing today. Stay
tuned!
On Wed, Nov 6, 2013 at 4:11 AM, Nicolas Vervelle nverve...@gmail.comwrote:
On Wed, Nov 6, 2013 at 1:00 PM, s...@publcif.co.uk wrote:
Although Jmol is opensource, I assume the certificate isnt, so there
Bob:
Sorry that my first message is not clear. Safari on iOS devices works fine.
it is Safari on my laptop and desktop that has the problem. But it is
consistently solved by opening, and keeping open, the error console??
On Nov 6, 2013, at 9:07 AM, Robert Hanson hans...@stolaf.edu wrote:
Bob and Phil,
It does not work for me either in Safari for Mavericks, but know this: Safari
for Mavericks (iPad aside) is a JSmol disaster. I'm literally rewriting our
whole virtual model kit to deal with the quirks. I don't think these are JSmol
problems or bugs. This version of Safari is
Phil,
I noticed this console behavior with several of my scripting problems. With the
console open, the problems got better. This sounds like timing issues - i.e.
the console feed is letting things catch up.
Bob, does calculate partialCharge run in a separate thread?
Otis
--
Otis
It works on iOS devices, but not OS.
J. Philip Bays
Emeritus Professor of Chemistry
Saint Mary's College
Notre Dame, IN 46556
Sent from my iPhone
On Nov 6, 2013, at 9:07 AM, Robert Hanson hans...@stolaf.edu wrote:
still a problem? I just tested it with my 1st-gen iPad with Safari and it
was
Otis, don't try to solve this problem yourself. I have access to plenty of
Macs. Point me to the simplest pages you can conjure up that cause the
problem and let me fix it. No rogue hacks, please!
This one sounds like a bug in the asynchronous scripting components of Jmol
within the Java-derived
There is one and only one thread. However, there are several tricks that I
use now to fake threads -- script interruptions that save their exact
state and restart when a thread is complete. There are several tests at my
site that use threads. I would like you to try and report back on them.
These
Bob,
OK, you've been right on this point in the past (100% right!), but remember
these are Mavericks Safari problems - not Chrome and FF. I'm not sure about
MSIE.
To work on this, I've been bouncing around versions of JSmol. Right now the
version that you put up yesterday does not load on
Dang!
When I put the JavaScript console up, it loads on Maverick Safari.
Timing...
Otis
--
Otis Rothenberger
o...@chemagic.com
http://chemagic.com
On Nov 6, 2013, at 11:00 AM, Otis Rothenberger osrot...@chemagic.com wrote:
Bob,
OK, you've been right on this point in the past (100%
Bob:
On both of these links, the jmol window does not open unless I have the error
console turned on. When it is on, the center column links seem to work.
On Nov 6, 2013, at 10:44 AM, Robert Hanson hans...@stolaf.edu wrote:
There is one and only one thread. However, there are several tricks
Just for reference, I would like comments specifically based on
http://chemapps.stolaf.edu/jmol/zip/jmol-13.3.9_2013.11.06.zip
Anything older than that will just confuse the issue. Obviously something
broke
Bob
On Wed, Nov 6, 2013 at 8:08 AM, Otis Rothenberger osrot...@chemagic.comwrote:
When you say error console, what are you talking about exactly?
On Wed, Nov 6, 2013 at 8:12 AM, Philip Bays pb...@saintmarys.edu wrote:
Bob:
On both of these links, the jmol window does not open unless I have the
error console turned on. When it is on, the center column links seem to
I observe the same by turning on the “Show Error Console” . The page then
loads.
On Nov 6, 2013, at 11:08 AM, Otis Rothenberger osrot...@chemagic.com wrote:
Dang!
When I put the JavaScript console up, it loads on Maverick Safari.
Timing...
Otis
--
Otis Rothenberger
In the Safari develop menu item (across the top) which you need to turn on in
preferences, there is an item called Show Error Console”.
On Nov 6, 2013, at 11:14 AM, Robert Hanson hans...@stolaf.edu wrote:
When you say error console, what are you talking about exactly?
On Wed, Nov 6, 2013
How inconvenient! A bug that requires that bug reporting is off!
On Wed, Nov 6, 2013 at 8:17 AM, Philip Bays pb...@saintmarys.edu wrote:
In the Safari develop menu item (across the top) which you need to turn on
in preferences, there is an item called Show Error Console”.
On Nov 6, 2013,
Once the applet is loaded (with the error console on) things seem to work,
though rather clunky.
On Nov 6, 2013, at 11:20 AM, Robert Hanson hans...@stolaf.edu wrote:
Other links work just fine, though, right? Just the center ones I listed are
problematic? Or the applet does not work at all?
But straight-up fresh-start Maverick Safari just never shows the JSapp at
all?
And, when the console is opened, there are no reports there?
On Wed, Nov 6, 2013 at 8:21 AM, Philip Bays pb...@saintmarys.edu wrote:
Once the applet is loaded (with the error console on) things seem to work,
Other links work just fine, though, right? Just the center ones I listed
are problematic? Or the applet does not work at all?
On Wed, Nov 6, 2013 at 8:18 AM, Philip Bays pb...@saintmarys.edu wrote:
I observe the same by turning on the “Show Error Console” . The page then
loads.
On Nov 6,
On looking at the console more closely, the item that is colored red in the
console seems to be “get-js” which shows a status of 503. Not sure what that
means. However, repeated loading of the page shows the timing on that item
varying from 55 ms to over 2 sec.
On Nov 6, 2013, at 11:20
Would it be possible to change the digest_size_threshold to zero for the
jmol-users mailing list?
I've lost count of the number of digests I have received today, some with only
a single message (often a very small message with lots of quoted text). This
kinda eliminates the benefit of
Bob,
I'm running 2013.11.05. I'll change it after I send this.
Currently, you can see one of the problems, again on Mavericks Safari. Click
the Edit button and do an H click replacement with C. It replaces the H with C,
then freezes. It's choking on a message call back that does some
Hi,
I changed its value to 500k instead of the previous 30k, it should reduce
the number of mails (I don't want mails to become too big)
For people posting in the list : when you reply to a post/thread, please
only keep the relevant parts of the previous posts.
It helps a lot reducing the size
I've just changed it to zero as you requested, David
Will it work? Hope so.
It was set at 500 kB, which seems ample enough
--
November Webinars for C, C++, Fortran Developers
Accelerate application performance with
My mailing list problem is that I never see my own posts. What have I got set
wrong?
On Nov 6, 2013, at 12:15 PM, Angel Herráez angel.herr...@uah.es wrote:
I've just changed it to zero as you requested, David
Will it work? Hope so.
It was set at 500 kB, which seems ample enough
This is an option that you can set for yourself : by default, own posts are
not sent.
On Wed, Nov 6, 2013 at 6:17 PM, Bays Philip pb...@saintmarys.edu wrote:
My mailing list problem is that I never see my own posts. What have I
got set wrong?
On Nov 6, 2013, at 12:15 PM, Angel Herráez
Hi Angel,
It was at 500k because I had just changed it from 30k
I don't know about letting it at 0, I'm afraid about mails becoming too big
if there's a lot of traffic one day.
Nico
On Wed, Nov 6, 2013 at 6:15 PM, Angel Herráez angel.herr...@uah.es wrote:
I've just changed it to zero as you
First check -- this has nothing to do with the console. It's a null
pointer exception within Jmol.
On Wed, Nov 6, 2013 at 8:48 AM, Philip Bays pb...@saintmarys.edu wrote:
On looking at the console more closely, the item that is colored red in
the console seems to be “get-js” which shows a
Philip,
What I see in the list config is:
Default options for new members joining this list. (Details for
new_member_options)
[ ] Do not send a copy of a member's own post
which is not ticked, so you should receive them.
I can't find any other options.
Hmmm. I had the following set to yes and was not getting the messages. I
have now set it to no to see what happens. But the statement indicates that
posts are normally sent.
Phil
Receive your own posts to the list?
Ordinarily, you will get a copy of every message you post to the list. If
Strange,
I didn't check before posted, I assumed the list was configured not to send
own posts, but it seems false apparently.
I don't know...
Nico
On Wed, Nov 6, 2013 at 6:43 PM, Bays Philip pb...@saintmarys.edu wrote:
Hmmm. I had the following set to yes and was not getting the messages.
Well, I have set it to no and will see if I see this post:-)
On Nov 6, 2013, at 12:49 PM, Nicolas Vervelle nverve...@gmail.com wrote:
Strange,
I didn't check before posted, I assumed the list was configured not to send
own posts, but it seems false apparently.
I don't know...
Nico
Bob,
I put 13.3.9_2013.11.06 on:
http://chemistry.illinoisstate.edu/osrothen/JSmolVMK.htm
To reiterate, if you get it loaded by using the Safari Error Console trick,
then the following problem can be observed:
You can see one of the problems, again on Mavericks Safari. Click the Edit
button
Well at the moment we, digests subscribers, have had 26 digests today, most
with a single message... Something is broken!!
Dr. F.J. Modrego
Department of Inorganic Chemistry
Facultad de Ciencias
University of Zaragoza
50009 ZARAGOZA
SPAIN
Tel 34-976-762288
Fax 34-976-761187
E-mail:
It's probably due to the temporary setup with 0.
It should be better now, tell us if it's still going on.
On Wed, Nov 6, 2013 at 7:11 PM, Fco. Javier Modrego modr...@unizar.eswrote:
Well at the moment we, digests subscribers, have had 26 digests today,
most with a single message... Something
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