Re: [Jmol-users] animation models

[Miguel H. <mt...@mt...>]

Hens wrote:

>> Please confirm that the m-xyz is the *only* type of animation file
>> that Chime supports.
> Well, I thought so, however:
>
>> However, Jan Reichert pointed out a web site which does have some .pdb
>> files which have individual frames stored as MODELs:
>>   http://molmovdb.mbb.yale.edu/molmovdb/
>>
>> They are somewhat hard to find, but they call them 'interpolation as
>> NMR format PDB file'.
>>
> I think Jan is the person to confirm or deny that PDB Models are used
> for animations.

OK


> Quote from the manual:
> nmrpdb=true "sets the MIME type to the NMR-PDB mime type so that
> multiframe pdb-files can be loaded."
> This suggest that =false will result in loading the first structure
> only.
OK

> See next answer.
>> Q: Is there some other way to identify a pdb MODEL, other than by
>> model number?
>>
>> Q: In Chime, can you only show one model, or can you show several ...
>> as in:
>>   model 2,3?
> This I have to try, never used it myself.

OK

> And while we are at it, about the questions you asked Oliver:
>> Q: How do the scripting commands affect animations?
>> Q: When you apply commands like 'wireframe 0.1' does it affect all the
>> atoms in all frames?
> Yes. If you "select atomno=5; color atoms blue" atom 5 is coloured blue
> in all frames.

OK

>> Q: Is there a way to selectively address individual frames (or perhaps
>> better said, the atoms of individual frames) of an animation?
> No. You can display a frame ('anim frame 17' will display frame 17), but
> not selectively address 'atomno=5 in frame 17'.

OK.

>> Q: What do ping and pong do?
> Ping and pong are synonyms for palindrome, an animation mode that
> shuttles form 1 to end and back to one.
> Loop is the mode that runs repeatedly from one to end, one direction
> only.

OK

> And while mentioning Oliver, with whom I share an interest:
> is implementing the MOPAC (and/or Gaussian) z-matrix format still on the
> to-do list?

I do not know what those things are ... Egon will have to answer.


Thanks

Miguel