[Jmol-users] to Miguel

2006-02-11 Thread Bob Hanson

Twenty-three left shift plus one, He makes our beautious Jmol run.
With many thanks and loads of praise, to Him today this glass I raise.

To find a coder so enlightened, it almost makes me slightly frightened,
But, no, in truth I cannot write a single tiny bit or byte
That would disparage one so swell as Who in silico we call Miguel.

So join me now to fete Miguel, His virtual self we know so well,
I challenge you to write more lines, of any sort or any kinds.

Happy Birthday, Miguel!!

Bob Hanson




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Re: [Jmol-users] applet -- callback brainstorming

2006-02-11 Thread Paul Pillot

Bob Hanson a écrit :


AS A USER, WHAT DO YOU WANT?

a) Do you implement callbacks? If so, which ones?


With chime, I use messagecallback and pickcallback. I use message 
callback to get informations such as : model sequence, names of 
residues  or chains in a selection, end of a script, number of atoms 
currently selected.
I use pick callback to get atoms details, measurements, and allow 
labeling of a specified atom by clicking.
At present, with Jmol I only use message callback to get informations 
about the proper execution of a script.




b) What WOULD you use if you had it available?


sequences, content of a selection.



c) What sort of information (exactly) are you looking for?


residues names and numbers, chains IDs, biochemical type of a chain 
(DNA, RNA, protein), atoms IDs/type/residue/chain




d) Is there a particular format that you would like to see,
   other than just the current text-stream of messages?


It would be far better not to have to parse the text stream. Any kind of 
javascript object/array would be handfull




e) Is it important to you that this mechanism be backward
   compatible?

No. I think that for interactive interactions such as clicks or knowing 
when the applet is ready, the current callback method does the job well. 
To get more complex properties, your method seems to be more appropriate


Regards,
Paul



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Re: [Jmol-users] applet -- callback brainstorming

2006-02-11 Thread Hens Borkent

Hi Bob,



AS A USER, WHAT DO YOU WANT?

a) Do you implement callbacks? If so, which ones?


AnimFrame to synchronize other Javascript functions with an animation
Pick to identify atoms, in particular in our molecule editor
Message to return measurements, now largely replaced by monitors though



b) What WOULD you use if you had it available?


This pretty much serves our needs.
Although we do a lot of other things in scripts that are not directly 
related to callbacks.
You suggested reading the second line of an XYZ file, but this can be 
done by a script outside Jmol as well, where the results are being 
processed.




c) What sort of information (exactly) are you looking for?

d) Is there a particular format that you would like to see,
   other than just the current text-stream of messages?

e) Is it important to you that this mechanism be backward
   compatible?


Well yes. We could always maintain a current version of Jmol of course, 
in case we don't find the time to rewrite our pages. (I wish I had your 
efficient way of working.)


Greetings,
Hens



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