Nailed it. Thanks.
Darren.
On 1 January 2017 at 07:16, Robert Hanson wrote:
> The main problem with that call was that it was an http call from an https
> page. That's not allowed. Good news is that all you have to do is add the
> "s":
>
> https://chemapps.stolaf.edu/jmol/jmol.php?source=https:
The main problem with that call was that it was an http call from an https
page. That's not allowed. Good news is that all you have to do is add the
"s":
https://chemapps.stolaf.edu/jmol/jmol.php?source=https://
files.figshare.com/1860026/ethen_01oIRC.cml
right?
Bob
--
Robert M. Hanson
Larso
I don't have an account to the wiki ... can anyone who does have an
account update it for me (us) please?
One tiny thing ... the resulting webpage carries the title 'aspirin'
if you have the time could you modify it, please?
Thanks all
Darren.
On 31 December 2016 at 14:29, darren.rhodes wrote:
Hi All
Found the problem ... it looks like figshare has had a
re-configuration in the manner in which it serves the data that it
stores.
Old url ...
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://files.figshare.com/1860026/ethen_01oIRC.cml
New url ...
https://chemapps.stolaf.edu/jmol/
Hi Robert
the following
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://files.figshare.com/1860026/ethen_01oIRC.cml
crashes out again.
Do you have a remedy?
Yes, I cleared my cache before trying.
Thanks
Darren.
ps the code is one of the exemplars on the wiki
http://wiki.jmol.org/index
Works like a charm again.
thanks
Darren.
On 20 October 2015 at 03:41, Robert Hanson wrote:
> Thanks -- clear your cache and try again. I forgot to update a file on my
> server.
>
> On Mon, Oct 19, 2015 at 6:59 AM, darren.rhodes
> wrote:
>>
>> Hi Robert
>>
>> The charm has gone?
>>
>> I tried t
Thanks -- clear your cache and try again. I forgot to update a file on my
server.
On Mon, Oct 19, 2015 at 6:59 AM, darren.rhodes
wrote:
> Hi Robert
>
> The charm has gone?
>
> I tried to right click on the result of the following line of code but
> I it didn't work like it did a few months ago.
Hi Robert
The charm has gone?
I tried to right click on the result of the following line of code but
I it didn't work like it did a few months ago.
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://files.figshare.com/1426063/s2cl2_b_2.22cTS.log
instead it throws an error.
Can you suggest
Hi Darren
There is some limitation in the length and complexity of the script in the url,
I caanot give you
details,
But there are other choices you might use:
1. you can embed the script in the CML file (there are details about this in
the Jmol Wiki)
2. you can maybe invoke in the url a scr
Hi Robert
Been using the site and code you posted. Very useful, thanks. But
... how much scripting is it possible to do on the url?
For example, consider
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://figshare.com/download/file/1828552&width=600&height=600
where the script &width=600&
So just to follow up on my last note:
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://files.figshare.com/1825432/MeOH_NMR01b.log
Displays your model. That is not very interesting, though. The thing to do
is, from your Jmol application, display whatever you particularly want to
show your co
Thanks Robert.
Simply changed the source
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://files.figshare.com/1426063/s2cl2_b_2.22cTS.log
which worked like a charm.
Darren.
On 6 December 2014 at 21:51, Robert Hanson wrote:
> You can use
>
> http://chemapps.stolaf.edu/jmol/jmol.php?source=h
You can use
http://chemapps.stolaf.edu/jmol/jmol.php?source=http://introchem.chem.okstate.edu/DCICLA/jmol/molecules/II.A.1.ch3ch3.smol
Where you just change the source attribute to whatever URL you want.
See
http://chemapps.stolaf.edu/jmol/jmol.php
for details.
On Fri, Dec 5, 2014 at 6:32
Hi Rolf
Thanks ... that's exactly what I was hoping to find.
Darren.
On 6 December 2014 at 18:52, Rolf Huehne wrote:
> Am 06.12.14 11:39, schrieb darren.rhodes:
>> Hi Eric
>>
>> Thanks for your reply ... I'll look at Proteopedia. In the mean time
>> here's some clarification.
>>
>> When I
Am 06.12.14 11:39, schrieb darren.rhodes:
> Hi Eric
>
> Thanks for your reply ... I'll look at Proteopedia. In the mean time
> here's some clarification.
>
> When I type the following on my command line,
>
> jmol MeOH_NMR01b.log &
>
> As is common to our shared experience, jmol starts up, the str
Eric, I agree with you but --as I understand it-- Darren does not want to edit
pages (one per model).
There is also a concern regarding uploading his files to Proteopedia -- they
have nothing to do with biomolecules, and he is not interested in writing
descriptions about them, I think. He just
All 3 issues raised by Angel below are eliminated if you use
Proteopedia. Again, let me know if you'd like help or an example -- or
Angel can help as he is also familiar with Proteopedia.
On 12/6/14 7:48 AM, Angel Herráez wrote:
> Caveats:
>
> 1. Such a cross-origin file request may fail dependi
> On 6 Dec 2014, at 12:48, Angel Herráez wrote:
>
> Darren, I've done a test locally, and it is indeed possible to display the
> model
> loaded from figshare (using the download URL, not the page URL) in a
> JSmol page.
>
> i.e. http://files.figshare.com/1825432/MeOH_NMR01b.log
>
> The link
Thanks for your help (and also the help of the others who contributed
to the thread).
Darren.
On 6 December 2014 at 12:48, Angel Herráez wrote:
> Darren, I've done a test locally, and it is indeed possible to display the
> model
> loaded from figshare (using the download URL, not the page URL)
Darren, I've done a test locally, and it is indeed possible to display the
model
loaded from figshare (using the download URL, not the page URL) in a
JSmol page.
i.e. http://files.figshare.com/1825432/MeOH_NMR01b.log
The link you could share with collaborators is of the form
http://some.server
darren.rhodes wrote:
> Hi Angel
>
> Thanks for your note but I was hoping to be able to exhibit the full
> flavour of a GAMESS (US) log file
Yes, that was clear. I mentioned SMILES just because it works but I was
anticipating it was not your case.
-
darren.rhodes wrote:
> When I type the following on my command line,
>
> jmol MeOH_NMR01b.log &
>
> As is common to our shared experience, jmol starts up, the structure
> found within the file MeOH_NMR.log is appears and it can be
> interrogated using the tools that ship with jmol.
Yes, but tha
Hi Angel
Thanks for your note but I was hoping to be able to exhibit the full
flavour of a GAMESS (US) log file, for example, I've got an IRC of a
dehyrdation reaction which I'd like to be able to share with not only
the cognescenti (those on this group) but the non-cognescenti
(intelligent and ca
Hi Eric
Thanks for your reply ... I'll look at Proteopedia. In the mean time
here's some clarification.
When I type the following on my command line,
jmol MeOH_NMR01b.log &
As is common to our shared experience, jmol starts up, the structure
found within the file MeOH_NMR.log is appears and i
On 6 December 2014 at 12:26, Angel Herráez wrote:
> Hi Darren
>
> There are two issues in your question
> 1. where to locate the page that holds Jmol (I have understood you do not
> want to create it)
> 2. where to locate the data file
>
> There is something similar implemented, e.g. in Wikipedia
Hi Darren
There are two issues in your question
1. where to locate the page that holds Jmol (I have understood you do not
want to create it)
2. where to locate the data file
There is something similar implemented, e.g. in Wikipedia. Many molecules,
like https://en.wikipedia.org/wiki/Citrate
ha
> On 6 Dec 2014, at 04:37, Eric Martz wrote:
>
> Dear Darren,
>
> I'm not sure that I understand what you want, but you can show any structure
> in JSmol at Proteopedia.org, in a web page that anyone can access. The data
> file(s) can be uploaded to the server and used for that showing, and y
We have a demo (and a journal article) coming up at the conference FORCE2015 in
January where we present a solution to this problem based on three different
standards-based solutions using metadata and a persistent time-stamped
identifier (DOI) assigned to the file(set). See http://doi.org/100
Dear Darren,
I'm not sure that I understand what you want, but you can show any
structure in JSmol at Proteopedia.org, in a web page that anyone can
access. The data file(s) can be uploaded to the server and used for that
showing, and you can put links in the web page that would allow any
vis
Is there a site where I can post a link to a structure - I'm thinking
of a GAMESS (US) log file - which would return the jmol object of the
structure in the file?
That is, say I want to share a file with a broader audience, rather
than building and hosting a web page, is there a web page out there
30 matches
Mail list logo