Yes, that seems to have fixed it. Are you aware that the HEM link does not
work?
On Aug 16, 2013, at 5:21 PM, Robert Hanson <[email protected]> wrote:
> yes, lots of debugging messages should make it slower.
>
>
> OK, I've isolated the problem to the Google closure compiler. Yeiks.
>
> http://chemapps.stolaf.edu/jmol/jsmol2/test2.htm should be working now and up
> to speed.
>
> Thanks for the help!
>
> Bob
>
>
> On Fri, Aug 16, 2013 at 4:04 PM, Bays Philip <[email protected]> wrote:
> That works, albeit slower.
>
>
> On Aug 16, 2013, at 5:00 PM, Robert Hanson <[email protected]> wrote:
>
>> how about this one?
>>
>> http://chemapps.stolaf.edu/jmol/jsmol2/test2.htm?debugcode
>>
>> ?
>>
>>
>>
>> On Fri, Aug 16, 2013 at 3:40 PM, Robert Hanson <[email protected]> wrote:
>> Well, this is going to be a tough one. I'm looking at my Mac. Two Safari
>> windows, both with http://chemapps.stolaf.edu/jmol/jsmol2/test2.htm One is
>> a single line of atoms, the other is fine. On the one that's bad, sometimes
>> I can click on a small-molecule link and it will be fine; other times not.
>> "Caffeine with MEP" works, maybe because the rendering is done later due to
>> the surface.
>>
>> I have to believe it's a threading issue. Is it possible that Safari is
>> multithreaded in JavaScript??
>>
>> Bob
>>
>>
>>
>> On Fri, Aug 16, 2013 at 3:34 PM, Otis Rothenberger <[email protected]>
>> wrote:
>> After several cache clearings, I'm still seeing the problem:
>>
>> Version 6.0.5 (7536.30.1)
>>
>> Mac OS X 10.7.5
>>
>> --
>> Otis Rothenberger
>> [email protected]
>> http://chemagic.com
>>
>>
>>
>>
>> On Aug 16, 2013, at 4:25 PM, Robert Hanson wrote:
>>
>>> Hmm. Really. I'm looking at that one on my Mac now, and it is fine. Try
>>> clearing your cache.
>>>
>>>
>>> On Fri, Aug 16, 2013 at 3:22 PM, Bays Philip <[email protected]> wrote:
>>> No. Same issue.
>>>
>>> On Aug 16, 2013, at 4:20 PM, Robert Hanson <[email protected]> wrote:
>>>
>>>> does
>>>>
>>>> http://chemapps.stolaf.edu/jmol/jsmol1/test2.htm
>>>>
>>>> work?
>>>>
>>>>
>>>> On Fri, Aug 16, 2013 at 1:42 PM, Otis Rothenberger <[email protected]>
>>>> wrote:
>>>> If you start by loading small molecules, then all is well (except for the
>>>> old NCI "wake-up" issue). If you then load from RCSB, you get the line
>>>> thing. This breaks subsequent small molecule load until you reload the
>>>> page.
>>>>
>>>> --
>>>> Otis Rothenberger
>>>> [email protected]
>>>> http://chemagic.com
>>>>
>>>>
>>>>
>>>>
>>>> On Aug 16, 2013, at 2:07 PM, Robert Hanson wrote:
>>>>
>>>>> This isn't unique to RCSB, right? All structures are totally broken? If
>>>>> not, which links work?
>>>>>
>>>>>
>>>>> On Fri, Aug 16, 2013 at 11:44 AM, Bays Philip <[email protected]>
>>>>> wrote:
>>>>> Bob:
>>>>> I have tried this on my iPhone (since I do not have any other iOS device)
>>>>> and it works. (I k now you are asking for speed tests, but I am seeing
>>>>> another issue) On both my laptop and desktop (both macs) I am getting
>>>>> "structures" that simply consist of lines in the applet, particularly all
>>>>> things loaded from RCSB. Once in that mode, I have to reload the page to
>>>>> get anything else to work. This is all in Safari. Things work fine in
>>>>> firefox.
>>>>>
>>>>> Anyone else on a mac observing this?
>>>>>
>>>>>
>>>>> On Aug 16, 2013, at 10:08 AM, Robert Hanson <[email protected]> wrote:
>>>>>
>>>>>> I would very much appreciate feedback on a new option to increase the
>>>>>> rendering speed of JSmol. It is an extension of the "wireframeRotation"
>>>>>> idea that allows a variable amount of rendering compromise while a model
>>>>>> is in motion. Please try
>>>>>>
>>>>>> http://chemapps.stolaf.edu/jmol/jsmol1/jsmol.htm
>>>>>>
>>>>>> Specifically, there are three options under the applet:
>>>>>>
>>>>>> motion rendering compromises: fastest surface/cartoon none
>>>>>>
>>>>>> Please try those with different models -- perhaps
>>>>>> =1blu
>>>>>> caffeine with mep
>>>>>> (load +) mo homo
>>>>>> PyMOL session - dna
>>>>>> flexible fit
>>>>>>
>>>>>> dragging the model around to see
>>>>>> Q: How significant is the speed increase in "surface/cartoon" or
>>>>>> "fastest" relative to "none"?
>>>>>>
>>>>>> Q: Is this a viable solution to the iPad poor-performance problem?
>>>>>>
>>>>>> Q: Which would you recommend for the default behavior for JSmol?
>>>>>>
>>>>>> Q: Suggestions?
>>>>>>
>>>>>>
>>>>>> Bob
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> Robert M. Hanson
>>>>>> Larson-Anderson Professor of Chemistry
>>>>>> St. Olaf College
>>>>>> Northfield, MN
>>>>>> http://www.stolaf.edu/people/hansonr
>>>>>>
>>>>>>
>>>>>> If 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
>>>>>>
>>>>>> ------------------------------------------------------------------------------
>>>>>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>>>>>> It's a free troubleshooting tool designed for production.
>>>>>> Get down to code-level detail for bottlenecks, with <2% overhead.
>>>>>> Download for free and get started troubleshooting in minutes.
>>>>>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk_______________________________________________
>>>>>> Jmol-users mailing list
>>>>>> [email protected]
>>>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>>
>>>>> J. Philip Bays
>>>>> Emeritus Professor of Chemistry
>>>>> Department of Chemistry and Physics
>>>>> Saint Mary's College
>>>>> Notre Dame, IN 46556
>>>>> [email protected]
>>>>>
>>>>>
>>>>> ------------------------------------------------------------------------------
>>>>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>>>>> It's a free troubleshooting tool designed for production.
>>>>> Get down to code-level detail for bottlenecks, with <2% overhead.
>>>>> Download for free and get started troubleshooting in minutes.
>>>>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk
>>>>> _______________________________________________
>>>>> Jmol-users mailing list
>>>>> [email protected]
>>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Robert M. Hanson
>>>>> Larson-Anderson Professor of Chemistry
>>>>> St. Olaf College
>>>>> Northfield, MN
>>>>> http://www.stolaf.edu/people/hansonr
>>>>>
>>>>>
>>>>> If 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
>>>>>
>>>>> ------------------------------------------------------------------------------
>>>>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>>>>> It's a free troubleshooting tool designed for production.
>>>>> Get down to code-level detail for bottlenecks, with <2% overhead.
>>>>> Download for free and get started troubleshooting in minutes.
>>>>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk_______________________________________________
>>>>> Jmol-users mailing list
>>>>> [email protected]
>>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>
>>>>
>>>> ------------------------------------------------------------------------------
>>>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>>>> It's a free troubleshooting tool designed for production.
>>>> Get down to code-level detail for bottlenecks, with <2% overhead.
>>>> Download for free and get started troubleshooting in minutes.
>>>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk
>>>> _______________________________________________
>>>> Jmol-users mailing list
>>>> [email protected]
>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> Robert M. Hanson
>>>> Larson-Anderson Professor of Chemistry
>>>> St. Olaf College
>>>> Northfield, MN
>>>> http://www.stolaf.edu/people/hansonr
>>>>
>>>>
>>>> If 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
>>>>
>>>> ------------------------------------------------------------------------------
>>>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>>>> It's a free troubleshooting tool designed for production.
>>>> Get down to code-level detail for bottlenecks, with <2% overhead.
>>>> Download for free and get started troubleshooting in minutes.
>>>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk_______________________________________________
>>>> Jmol-users mailing list
>>>> [email protected]
>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>
>>> J. Philip Bays
>>> Emeritus Professor of Chemistry
>>> Department of Chemistry and Physics
>>> Saint Mary's College
>>> Notre Dame, IN 46556
>>> [email protected]
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>>> It's a free troubleshooting tool designed for production.
>>> Get down to code-level detail for bottlenecks, with <2% overhead.
>>> Download for free and get started troubleshooting in minutes.
>>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk
>>> _______________________________________________
>>> Jmol-users mailing list
>>> [email protected]
>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>
>>>
>>>
>>>
>>> --
>>> Robert M. Hanson
>>> Larson-Anderson Professor of Chemistry
>>> St. Olaf College
>>> Northfield, MN
>>> http://www.stolaf.edu/people/hansonr
>>>
>>>
>>> If 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
>>>
>>> ------------------------------------------------------------------------------
>>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>>> It's a free troubleshooting tool designed for production.
>>> Get down to code-level detail for bottlenecks, with <2% overhead.
>>> Download for free and get started troubleshooting in minutes.
>>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk_______________________________________________
>>> Jmol-users mailing list
>>> [email protected]
>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>
>>
>> ------------------------------------------------------------------------------
>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>> It's a free troubleshooting tool designed for production.
>> Get down to code-level detail for bottlenecks, with <2% overhead.
>> Download for free and get started troubleshooting in minutes.
>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk
>> _______________________________________________
>> Jmol-users mailing list
>> [email protected]
>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>
>>
>>
>>
>> --
>> Robert M. Hanson
>> Larson-Anderson Professor of Chemistry
>> St. Olaf College
>> Northfield, MN
>> http://www.stolaf.edu/people/hansonr
>>
>>
>> If 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
>>
>>
>>
>>
>> --
>> Robert M. Hanson
>> Larson-Anderson Professor of Chemistry
>> St. Olaf College
>> Northfield, MN
>> http://www.stolaf.edu/people/hansonr
>>
>>
>> If 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
>>
>> ------------------------------------------------------------------------------
>> Get 100% visibility into Java/.NET code with AppDynamics Lite!
>> It's a free troubleshooting tool designed for production.
>> Get down to code-level detail for bottlenecks, with <2% overhead.
>> Download for free and get started troubleshooting in minutes.
>> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk_______________________________________________
>> Jmol-users mailing list
>> [email protected]
>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>
> J. Philip Bays
> Emeritus Professor of Chemistry
> Department of Chemistry and Physics
> Saint Mary's College
> Notre Dame, IN 46556
> [email protected]
>
>
> ------------------------------------------------------------------------------
> Get 100% visibility into Java/.NET code with AppDynamics Lite!
> It's a free troubleshooting tool designed for production.
> Get down to code-level detail for bottlenecks, with <2% overhead.
> Download for free and get started troubleshooting in minutes.
> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk
> _______________________________________________
> Jmol-users mailing list
> [email protected]
> https://lists.sourceforge.net/lists/listinfo/jmol-users
>
>
>
>
> --
> Robert M. Hanson
> Larson-Anderson Professor of Chemistry
> St. Olaf College
> Northfield, MN
> http://www.stolaf.edu/people/hansonr
>
>
> If 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
>
> ------------------------------------------------------------------------------
> Get 100% visibility into Java/.NET code with AppDynamics Lite!
> It's a free troubleshooting tool designed for production.
> Get down to code-level detail for bottlenecks, with <2% overhead.
> Download for free and get started troubleshooting in minutes.
> http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk_______________________________________________
> Jmol-users mailing list
> [email protected]
> https://lists.sourceforge.net/lists/listinfo/jmol-users
J. Philip Bays
Emeritus Professor of Chemistry
Department of Chemistry and Physics
Saint Mary's College
Notre Dame, IN 46556
[email protected]
------------------------------------------------------------------------------
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Get down to code-level detail for bottlenecks, with <2% overhead.
Download for free and get started troubleshooting in minutes.
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