Bob,
If I go to your test page, I see the line problem. It seems to start with a pdb
load. After it starts, all loads seem to be line loads. Your test page
indicates 13.3.6_dev_2013.09.016. I don't see this when I load files from RCSB
on the ISU server. For what it's worth, my version number comes up
13.3.6_dev_2013.09.16 - note 016 vs 16.
I'm using Mac OS X 10.7.5. Safari 6.0.5 (7536.30.1).
I do not see the problem with Chrome for either page.
13.3.6_dev_2013.09.16 seems to load very slowly on the ISU server. They may be
having problems today. I do not have the newer versions on the chemagic server
at this point.
As far as reproducibility is concerned, it seems random. PDB's seem more likely
to start it, but that's not exclusive.
On my server, I'm loading PDB's with load =id. For other models, I'm not
loading directly from the remote source. I always go via AJAX and a script on
my server.
Otis
--
Otis Rothenberger
[email protected]
http://chemagic.com
On Sep 18, 2013, at 3:26 PM, Robert Hanson wrote:
> what an evil bug. Yes, probably due to the update. Fundamentally this had to
> do with how Safari was translating characters into integers.
>
> Please test ASAP and give details about which browsers exactly. Detail for
> reproduction, please.
>
>
> On Tue, Sep 17, 2013 at 7:20 PM, Otis Rothenberger <[email protected]>
> wrote:
> Phil,
>
> OK, I see it on Bob's page. I've been testing on my page at:
>
> http://chemistry.illinoisstate.edu/osrothen/JSmolVMK.htm
>
> I haven't seen the lines there yet. Try it per the load commands for the
> script field on the main page:
>
> loadpdb
> searchpdb
>
> I'm on Safari 6.0.5 (7536.30.1)
>
>
> I haven't yet document the read/write commands, but the are
>
> loadloc
> saveloc
>
> Otis
>
> --
> Otis Rothenberger
> [email protected]
> http://chemagic.com
>
>
>
>
> On Sep 17, 2013, at 8:05 PM, Bays Philip wrote:
>
>> Try loading a protein from the right-hand column. What do you see?
>> Remember when we had the odd display of simply lines on the screen several
>> weeks ago? I see it again. You may have to load several structures before
>> the problem shows up. Once it appears, you have to reload the page to get
>> rid of it.
>>
>> Now, I updated the OS today to 10.8.5 and that also updates Safari (6.0.5)
>> so the problem could be there.
>>
>>
>> On Sep 17, 2013, at 7:41 PM, Otis Rothenberger <[email protected]> wrote:
>>
>>> Hi Phil,
>>>
>>> I thought the missing name was normal. When I wrote my friend today, I had
>>> to explain that after selecting the file, he had to click the load button!
>>>
>>> I'm not sure I know what you mean by the lines issue. What am I looking for
>>> in Safari with this issue?
>>>
>>> Otis
>>>
>>> --
>>> Otis Rothenberger
>>> [email protected]
>>> http://chemagic.com
>>>
>>>
>>>
>>>
>>> On Sep 17, 2013, at 6:19 PM, Philip Bays wrote:
>>>
>>>> Bob:
>>>>
>>>> On a Mac using the latest OS (10.8.5)
>>>>
>>>> Firefox works fine to load and write files; there seems to be no choice
>>>> where they get downloaded, though I can control that in the browser
>>>> preferences. I note that the name of the file selected to load is given
>>>> in the dialog.
>>>>
>>>> In Safari there are a couple of issues. The name is not given when the
>>>> file is chosen. More importantly, we are back to the lines issue. I have
>>>> cleared the browser cache, and, in fact, disabled it. Perhaps Otis can
>>>> confirm that glitch??
>>>>
>>>>
>>>> On Sep 17, 2013, at 5:54 PM, Robert Hanson <[email protected]> wrote:
>>>>
>>>>> Used to be that it required the signed applet to read and write files
>>>>> locally. Well, well, what do you know? I'm liking HTML5 more and more.
>>>>> The following commands, previously for the signed applet only, now work
>>>>> in JSmol/HTML5.
>>>>>
>>>>> load ? x = load("?")
>>>>>
>>>>> write file ?
>>>>>
>>>>> write xxx.jpg write xxx.png write PNGJ xxx.png
>>>>> write PNGJ 500 500 "xxx.png"
>>>>> write xxx.zip write xxx.jmol
>>>>>
>>>>> write xxx.pdb write xxx.mol write xxx.v2000
>>>>> write xxx.v3000 write xxx.xyz
>>>>>
>>>>>
>>>>> What's especially satisfying for me is that the loading is done
>>>>> asynchronously. I had thought that would be extremely difficult to do --
>>>>> to pause a running script of however many levels of depth and deep into
>>>>> however many function calls while an asynchronous file load was
>>>>> happening, then restart upon completion at the right place. Well, guess
>>>>> what? It was only moderately difficult! The HTML5 FileReader API is
>>>>> great. [http://www.w3.org/TR/FileAPI/ ] Looks like this has reasonable
>>>>> support across browsers (http://caniuse.com/#feat=filereader), although
>>>>> one cannot go back very far in time.
>>>>>
>>>>> Writing files to disk still requires "reflecting" the data from
>>>>> Info.serverUrl, but I'm optimistic (based on
>>>>> http://caniuse.com/filesystem) that the HTML5 FileWriter API will
>>>>> continue to be introduced and at some point will allow us to get rid of
>>>>> the need of a server for local file writing. Certainly what we have now
>>>>> is close to ideal.
>>>>>
>>>>> Check it out at http://chemapps.stolaf.edu/jmol/jsmol/jsmol.htm
>>>>>
>>>>> http://chemapps.stolaf.edu/jmol/zip/jmol-13.3.6_2013.09.17.zip
>>>>>
>>>>> 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
>>>>>
>>>>> ------------------------------------------------------------------------------
>>>>> LIMITED TIME SALE - Full Year of Microsoft Training For Just $49.99!
>>>>> 1,500+ hours of tutorials including VisualStudio 2012, Windows 8,
>>>>> SharePoint
>>>>> 2013, SQL 2012, MVC 4, more. BEST VALUE: New Multi-Library Power Pack
>>>>> includes
>>>>> Mobile, Cloud, Java, and UX Design. Lowest price ever! Ends 9/20/13.
>>>>> http://pubads.g.doubleclick.net/gampad/clk?id=58041151&iu=/4140/ostg.clktrk_______________________________________________
>>>>> Jmol-users mailing list
>>>>> [email protected]
>>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>
>>>> Philip Bays
>>>> Emeritus Professor of Chemistry
>>>> Saint Mary's College
>>>> Notre Dame, IN 46556
>>>> [email protected]
>>>>
>>>>
>>>> ------------------------------------------------------------------------------
>>>> LIMITED TIME SALE - Full Year of Microsoft Training For Just $49.99!
>>>> 1,500+ hours of tutorials including VisualStudio 2012, Windows 8,
>>>> SharePoint
>>>> 2013, SQL 2012, MVC 4, more. BEST VALUE: New Multi-Library Power Pack
>>>> includes
>>>> Mobile, Cloud, Java, and UX Design. Lowest price ever! Ends 9/20/13.
>>>> http://pubads.g.doubleclick.net/gampad/clk?id=58041151&iu=/4140/ostg.clktrk_______________________________________________
>>>> Jmol-users mailing list
>>>> [email protected]
>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>
>>> ------------------------------------------------------------------------------
>>> LIMITED TIME SALE - Full Year of Microsoft Training For Just $49.99!
>>> 1,500+ hours of tutorials including VisualStudio 2012, Windows 8, SharePoint
>>> 2013, SQL 2012, MVC 4, more. BEST VALUE: New Multi-Library Power Pack
>>> includes
>>> Mobile, Cloud, Java, and UX Design. Lowest price ever! Ends 9/20/13.
>>> http://pubads.g.doubleclick.net/gampad/clk?id=58041151&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]
>>
>> ------------------------------------------------------------------------------
>> LIMITED TIME SALE - Full Year of Microsoft Training For Just $49.99!
>> 1,500+ hours of tutorials including VisualStudio 2012, Windows 8, SharePoint
>> 2013, SQL 2012, MVC 4, more. BEST VALUE: New Multi-Library Power Pack
>> includes
>> Mobile, Cloud, Java, and UX Design. Lowest price ever! Ends 9/20/13.
>> http://pubads.g.doubleclick.net/gampad/clk?id=58041151&iu=/4140/ostg.clktrk_______________________________________________
>> Jmol-users mailing list
>> [email protected]
>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>
>
> ------------------------------------------------------------------------------
> LIMITED TIME SALE - Full Year of Microsoft Training For Just $49.99!
> 1,500+ hours of tutorials including VisualStudio 2012, Windows 8, SharePoint
> 2013, SQL 2012, MVC 4, more. BEST VALUE: New Multi-Library Power Pack includes
> Mobile, Cloud, Java, and UX Design. Lowest price ever! Ends 9/20/13.
> http://pubads.g.doubleclick.net/gampad/clk?id=58041151&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
>
> ------------------------------------------------------------------------------
> LIMITED TIME SALE - Full Year of Microsoft Training For Just $49.99!
> 1,500+ hours of tutorials including VisualStudio 2012, Windows 8, SharePoint
> 2013, SQL 2012, MVC 4, more. BEST VALUE: New Multi-Library Power Pack includes
> Mobile, Cloud, Java, and UX Design. Lowest price ever! Ends 9/20/13.
> http://pubads.g.doubleclick.net/gampad/clk?id=58041151&iu=/4140/ostg.clktrk_______________________________________________
> Jmol-users mailing list
> [email protected]
> https://lists.sourceforge.net/lists/listinfo/jmol-users
------------------------------------------------------------------------------
LIMITED TIME SALE - Full Year of Microsoft Training For Just $49.99!
1,500+ hours of tutorials including VisualStudio 2012, Windows 8, SharePoint
2013, SQL 2012, MVC 4, more. BEST VALUE: New Multi-Library Power Pack includes
Mobile, Cloud, Java, and UX Design. Lowest price ever! Ends 9/20/13.
http://pubads.g.doubleclick.net/gampad/clk?id=58041151&iu=/4140/ostg.clktrk
_______________________________________________
Jmol-users mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/jmol-users
