Re: [Jmol-users] jmol movie

2008-10-05 Thread Jennifer L. Muzyka
I had no trouble watching the Jmol movie on my computer, running Windows XP.
-Jennifer





Message: 2
Date: Wed, 1 Oct 2008 12:25:34 -0500
From: Robert Hanson [EMAIL PROTECTED]
Subject: [Jmol-users] jmol movie
To: jmol-users@lists.sourceforge.net
Message-ID:
[EMAIL PROTECTED]
Content-Type: text/plain; charset=iso-8859-1

Question: Can you watch this movie on your machine? If so, how's the
resolution?

http://www.stolaf.edu/people/hansonr/temp/rasraf.avi

It's supposed to be 145 frames of a molecular dynamics calculation. It was
created using the following Jmol script followed by running a program called
VideoMach:

function createFrame
 var fname = movie_+_frameID[-2][0] + .jpg
 write image 500 500 @fname
end function

function createMovie
 var nframes = {*}.model.max
 for (var i = 1; i = nframes; i = i + 1)
   frame @i
   createFrame
 end for
end function

createMovie


Bob


--
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.


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Re: [Jmol-users] jmol movie

2008-10-05 Thread Rich
No problem seeing it here Bob (OSX 10.4.11, Camino 1.6.4 with QT 7.5.5 
with the Xvid codec). I did re-export it as an image sequence (145 
images) and created a new movie at 2 fps (using QT) to make it more 
easily watched. There are some rather odd H atoms wandering 
around/displayed which I'm assuming are the result of some strangeness 
in the MD calculations rather than coming from Jmol.

Rich

  On 1-10-2008 13:25, Robert Hanson wrote:
 Question: Can you watch this movie on your machine? If so, how's the
 resolution?
 
 http://www.stolaf.edu/people/hansonr/temp/rasraf.avi
 
 It's supposed to be 145 frames of a molecular dynamics calculation. It was
 created using the following Jmol script followed by running a program called
 VideoMach:

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Re: [Jmol-users] jmol movie

2008-10-05 Thread Robert Hanson
OK, then I think we have the capability now of creating Jmol video movies.
The addition to Jmol, to be in 11.7, not 11.6, is;

write frames {xxx} movie.jpg

{xxx} is some atom expression, such as {*} (all frames) or {1.0} (all models
in the first file) or {1.1,1.3,1.5} (three specific frames). Files will be
created by replacing  with 0001 0002 etc. as necessary, creating a
set of image files (JPEG in this case).

What you do with those files is up to you. I loaded them into VideoMach just
to see if it could handle them, which it did, apparently. I purposely set
the frame rate very high. But there are plenty of utilities out there that
can do this. Maybe someone with more experience can fill us in on a few of
the options.

Bob






On Sun, Oct 5, 2008 at 9:38 AM, Rich [EMAIL PROTECTED] wrote:

 No problem seeing it here Bob (OSX 10.4.11, Camino 1.6.4 with QT 7.5.5
 with the Xvid codec). I did re-export it as an image sequence (145
 images) and created a new movie at 2 fps (using QT) to make it more
 easily watched. There are some rather odd H atoms wandering
 around/displayed which I'm assuming are the result of some strangeness
 in the MD calculations rather than coming from Jmol

 Rich

  On 1-10-2008 13:25, Robert Hanson wrote:
  Question: Can you watch this movie on your machine? If so, how's the
  resolution?
 
  http://www.stolaf.edu/people/hansonr/temp/rasraf.avi
 
  It's supposed to be 145 frames of a molecular dynamics calculation. It
 was
  created using the following Jmol script followed by running a program
 called
  VideoMach:

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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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[Jmol-users] jmol movie

2008-10-05 Thread Nick Greeves
Fine on MacOS X 10.5.5/Safari/QT resolution clear but rather fast to  
actually see anything!
While it was downloading, it played a bit then stopped and was  
pixelated. Fine once it was all downloaded though.

All the best
Nick
--
3D Organic Animations http://www.chemtube3d.com
Tel: +44 (0)151-794-3506 (3500 secretary)



On 5 Oct 2008, at 20:22, [EMAIL PROTECTED] wrote:



Question: Can you watch this movie on your machine? If so, how's the
resolution?

http://www.stolaf.edu/people/hansonr/temp/rasraf.avi


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[Jmol-users] jmol movie

2008-10-04 Thread Robert Hanson
Question: Can you watch this movie on your machine? If so, how's the
resolution?

http://www.stolaf.edu/people/hansonr/temp/rasraf.avi

It's supposed to be 145 frames of a molecular dynamics calculation. It was
created using the following Jmol script followed by running a program called
VideoMach:

function createFrame
 var fname = movie_+_frameID[-2][0] + .jpg
 write image 500 500 @fname
end function

function createMovie
 var nframes = {*}.model.max
 for (var i = 1; i = nframes; i = i + 1)
   frame @i
   createFrame
 end for
end function

createMovie


Bob


-- 
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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Re: [Jmol-users] jmol movie

2008-10-04 Thread Dean Johnston
I can view it (using QuickTime player) on a Mac (OS X 10.5.5).  It shows up
as a 500x500 movie - looks pretty good to me and plays very fast (it's done
within less than 5 seconds).

Dean

On Wed, Oct 1, 2008 at 10:25 AM, Robert Hanson [EMAIL PROTECTED] wrote:

 Question: Can you watch this movie on your machine? If so, how's the
 resolution?

 http://www.stolaf.edu/people/hansonr/temp/rasraf.avi

 It's supposed to be 145 frames of a molecular dynamics calculation. It was
 created using the following Jmol script followed by running a program called
 VideoMach:

 function createFrame
  var fname = movie_+_frameID[-2][0] + .jpg
  write image 500 500 @fname
 end function

 function createMovie
  var nframes = {*}.model.max
  for (var i = 1; i = nframes; i = i + 1)
frame @i
createFrame
  end for
 end function

 createMovie


 Bob


 --
 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

 -
 This SF.Net email is sponsored by the Moblin Your Move Developer's
 challenge
 Build the coolest Linux based applications with Moblin SDK  win great
 prizes
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 ___
 Jmol-users mailing list
 Jmol-users@lists.sourceforge.net
 https://lists.sourceforge.net/lists/listinfo/jmol-users


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Re: [Jmol-users] jmol movie

2008-10-04 Thread Angel Herráez
Bob,
I downloaded it and played in BSPlayer without trouble (WinXP).
Resolution is very good, even when resized.

QuickTimePlayer requested an extra codec and took me to Xvid webpage (a 628 
kB download, GNU GPL). After installing, QT does not ask for anything but 
shows only a black movie. Maybe after rebooting, but I'm not going to do that 
now.

RealPlayer 10.5 also plays it well.

(The animation is too fast for my taste.)

Good job!

On 1 Oct 2008 at 12:25, Robert Hanson wrote:
 Question: Can you watch this movie on your machine? If so, how's the 
 resolution?


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Re: [Jmol-users] jmol movie

2008-10-04 Thread Thomas Stout
I could play it just fine (only tried VLC media player - the swiss army
knife of video players) and the resolution is fine.  However, I found the
frame rate to be much too fast to be sensible - atoms were flying around
faster than I could discern!   When you encode in VideoMach, can you set a
slower frame rate?  But, as far as I could tell, all the Jmol end of things
worked out very nicely!

-Tom



On Wed, Oct 1, 2008 at 10:25 AM, Robert Hanson [EMAIL PROTECTED] wrote:

 Question: Can you watch this movie on your machine? If so, how's the
 resolution?

 http://www.stolaf.edu/people/hansonr/temp/rasraf.avi

 It's supposed to be 145 frames of a molecular dynamics calculation. It was
 created using the following Jmol script followed by running a program called
 VideoMach:

 function createFrame
  var fname = movie_+_frameID[-2][0] + .jpg
  write image 500 500 @fname
 end function

 function createMovie
  var nframes = {*}.model.max
  for (var i = 1; i = nframes; i = i + 1)
frame @i
createFrame
  end for
 end function

 createMovie


 Bob


 --
 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

 -
 This SF.Net email is sponsored by the Moblin Your Move Developer's
 challenge
 Build the coolest Linux based applications with Moblin SDK  win great
 prizes
 Grand prize is a trip for two to an Open Source event anywhere in the world
 http://moblin-contest.org/redirect.php?banner_id=100url=/
 ___
 Jmol-users mailing list
 Jmol-users@lists.sourceforge.net
 https://lists.sourceforge.net/lists/listinfo/jmol-users


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