[Chimera-users] volume planes display loop

[Benoit Zuber]

Thanks very much Tom, it works fine!
In this case, I understand that opening the script a second time stops
the loop.

In a more general case, once a script has started, how can I interrupt
it before it ends?

Cheers,
Ben
On Mon, 2008-10-27 at 14:54 -0700, Thomas Goddard wrote:
> Oops!  Forgot to attach the script described in the previous email. 
> Here it is.
> 
> 	Tom
> 
> 
> Tom Goddard wrote:
> > Hi Ben,
> > 
> >   The current Chimera daily builds have a more flexible volume plane 
> > cycling interface.  In the planes panel it now has a switch
> > 
> >   Cycle through [20] planes at speed [30]
> > 
> > It lets you play through a specified number of planes centered on the 
> > currently shown plane.  You start it by clicking a switch and stop it 
> > the same way.  There is no control to stop after N planes, and the 
> > initial direction of play is the same as when you last stopped playback.
> > 
> >   There is currently no Chimera command equivalent which would obviously 
> > be handy for making movies.  I've attached a Python script which can be 
> > used with Chimera commands (example given in script) to control exactly 
> > which frames to show in a movie.  Note that the frame rate is only 
> > relevant for real-time cycling in Chimera.  Movie recording captures 
> > every new frame no matter how slow they are rendered and plays in a 
> > movie player at 25 frames per second (adjustable with a movie encode 
> > command option).  Chimera movie recording capabilities are very limited 
> > now but it is an area we intend to improve.
> > 
> >     Tom
> > 
> > 
> > Benoit Zuber wrote:
> >> Hi,
> >>
> >> I have got some questions regarding plane display of volumes:
> >> Is there a way to cycle through a limited range of planes? For example 
> >> if the thickness of my volume is 300, is it possible to cycle from z = 
> >> 100 to z = 120, instead of from z = 0 to z = 299?
> >>
> >> Is there a way to make the cycling through the planes start in the other 
> >> direction than when it stopped last time? For example, I click stop 
> >> while the display is cycling from low z value to high z value. If I then 
> >> click start, the display is going to cycle again from low to high z 
> >> value but I would like it to cycle from high to low z value.
> >>
> >> Is it possible to specify a starting plane and an end plane, and to have 
> >> the display going from the starting plane to the end plane only once 
> >> (without cycling)?
> >>
> >> Finally, can all of this be specified through the command line?
> >>
> >> Cheers,
> >> Ben
> >>
> >>
> >> Benoît Zuber
> >> MRC Laboratory of Molecular Biology
> >> Hills Road
> >> Cambridge
> >> CB2 0QH
> >> United Kingdom
> >> +44 1223 402209
> >> bzuber at mrc-lmb.cam.ac.uk
> >>
> >> _______________________________________________
> >> Chimera-users mailing list
> >> Chimera-users at cgl.ucsf.edu
> >> http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
> >>   
> > 
> > _______________________________________________
> > Chimera-users mailing list
> > Chimera-users at cgl.ucsf.edu
> > http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
> 
> plain text document attachment (planes.py)
> # -----------------------------------------------------------------------------
> # Start or stop volume plane display.  Useful for making a movie that steps
> # through data planes.  Example Chimera command sequence to make movie
> # showing 10 planes starting at plane 47 of a 2048x2048x100 data set.
> #
> #   volume #0 region 0,0,47,2047,2047,47
> #   cd /location/of/planes/script
> #   movie record supersample 3
> #   open planes.py ; wait 10 ; open planes.py
> #   movie stop
> #   movie encode output planes.mov
> #
> from VolumeViewer.volumedialog import volume_dialog
> p = volume_dialog().plane_panel
> if p.cycle_planes.get():
>     p.cycle_planes.set(False)       # Stop playback.
> else:
> #    p.axis.set(p.axis_names[2])         # Set plane axis 0 is x, 1 is y, 2 is z
> #    p.plane.set(50)                     # Set starting plane number (0,1,2...)
>     p.play_direction = 1                # Forward.  Use -1 for backward play.
>     p.cycle_planes_count.set(100000)    # Reverse direction after N planes.
>     p.cycle_frame_rate.set(30)          # Maximum frames per second.
>     p.cycle_planes.set(True)            # Start playback.