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
>>>>
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>>>
>>> Philip Bays
>>> Emeritus Professor of Chemistry
>>> Saint Mary's College
>>> Notre Dame, IN 46556
>>> [email protected]
>>>
>>>
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>>
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>
> 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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