ChemDoodle is proprietary, but Chemdoodle web components (that's what Bob
referred to) is open source (GPL)
It uses javascript and doesn't need Jmol on the server side. You can feed the
script with a PDB file and it will eventually render it in the WebGL canvas
(graphics are nice and fast on my desktop computer by the way).
Server side they use programs to speed up the process for parsing PDB files and
convert them to a JSON molecule object that the javascript can render faster.
They have also other utilities to perform other computations and in a former
post on their web sites they advertised that they are investigating using Jmol
on the server side.
Paul
Le 5 déc. 2011 à 22:46, Robert Hanson a écrit :
>
>
> On Mon, Dec 5, 2011 at 3:21 PM, Quinn, Greg <qu...@sdsc.edu> wrote:
> Hi Bob;
> I agree 100% with you about the rate limiting factor being the JavaScript,
> but as you can see, even on an iPad or the last version of iPhone, it's very
> fast for a small/medium sized structure. I think this is what surprised us
> here so much (not totally sure why, with good LOD implemented, we'd need to
> render 100K triangles in real time on a small form factor device). JavaScript
> implementation speed in iOS (and more widely other mobile OSs) has improved
> by leaps and bounds.
>
> Well, if you can do it, that's great. The videos look terrific.
>
> As to which is better, iOS or Android-based tablets, I'll pass commenting on.
> What I can say is that in my personal experience, Android is a painfully
> fragmented platform to develop for, but that to a large extent depends on the
> kind of app (BTW, ChemDoodle is a proprietary library not an open source
> application like the WebGL described).
> Cheers
> Greg.
>
> ChemDoodle is using WebGL with a Java-based server application essentially
> (if not exactly?) Jmol. The library is not proprietary -- it is open
> JavaScript. But the connection to their server is proprietary. Anyone could
> reroute that to another server, I think, and for example drive Jmol with it.
> They feed all information to the client, and the client processes the data.
> Last I saw, they didn't have molecular surfaces.
>
> Right, small proteins, no problem. I saw only crashes with larger proteins.
> That may have improved.
>
> The solution of having most of the operation on a server is certainly one
> solution, maybe the only solution for WebGL and Mac iOS. I don't know.
>
>
>
>
> From: Robert Hanson [hans...@stolaf.edu]
> Sent: Monday, December 05, 2011 1:04 PM
> To: jmol-users@lists.sourceforge.net
> Subject: Re: [Jmol-users] Mobile molecular viz via WebGL
>
> That's pretty much called ChemDoodle. It's not the WebGL, it's the JavaScript
> that has to run it that is pretty low power. I have yet to see a large
> protein rendered well, and so far I have not seen 100,000 triangles for a
> surface rendered at all. My plan is to leave that to others. Frankly, I'll
> be amazed if Apple can survive the competition to their iPad. Flat out, the
> Android tablet I have goes way beyond the iPad in its capabilities and
> interface (and friendliness to developers), and I cannot imagine why one
> would ever spend so much money for an iPad these days.
>
> On Mon, Dec 5, 2011 at 12:29 PM, Quinn, Greg <qu...@sdsc.edu> wrote:
> I saw the notice about Jmol running on Android, which is great news. Wanted
> to mention that for us mobile device folks, WebGL is also moving forward, and
> could be a solution for browser-based mol viz on iOS. I wonder whether
> server-side WebGL and Jmol could be mated in some way - or perhaps a pure
> Jmol port? I've uploaded a couple of brief vids of one such WebGL app/web
> page created by a Japanese researcher, Dr. Takanori Nakane (Kyoto
> University), running on an iPad2 and iPhone4 in a web browser app that has
> WebGL enabled (it's currently not enabled by default on iOS). The WebGL app
> runs very fast indeed:
> http://www.youtube.com/watch?v=giB4v0C5WW8
> http://www.youtube.com/watch?v=RNbLJM_q1iM
>
> FYI, Dr. Nakane's sourceforge page is at:
> http://webglmol.sourceforge.jp/index-en.html
>
> Cheers
> Greg Quinn
>
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> --
> Robert M. Hanson
> Professor of Chemistry
> St. Olaf College
> 1520 St. Olaf Ave.
> Northfield, MN 55057
> http://www.stolaf.edu/people/hansonr
> phone: 507-786-3107
>
>
> 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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> All the data continuously generated in your IT infrastructure
> contains a definitive record of customers, application performance,
> security threats, fraudulent activity, and more. Splunk takes this
> data and makes sense of it. IT sense. And common sense.
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>
>
> --
> Robert M. Hanson
> Professor of Chemistry
> St. Olaf College
> 1520 St. Olaf Ave.
> Northfield, MN 55057
> http://www.stolaf.edu/people/hansonr
> phone: 507-786-3107
>
>
> 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
> ------------------------------------------------------------------------------
> All the data continuously generated in your IT infrastructure
> contains a definitive record of customers, application performance,
> security threats, fraudulent activity, and more. Splunk takes this
> data and makes sense of it. IT sense. And common sense.
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