Editing Slerpy (section)

==Tips and Tricks==
 
===Converting scenes to movies===
 
You can just step through the scenes and type sscene for each one. This will create a duplicate slerpy scene for each of the scenes you'd already saved but that's not such a disaster. Be sure to swrite when you're done.
 
Note that there is some overhead associated with recalling scenes. To avoid pauses at view transitions, I prefer to actually issue the set of show and hide commands that will generate the scene rather than using the above method.

===Starting off right===
 
It's a bit of a pain, but I like to associate with the first frame of the movie an action list that hides everything and then turns on all the objects that I want to have visible at the beginning. This ensures that when your movie loops back to the beginning it will look the same as it did the first time through. For example:

 sgo 0
 saction "hide everything; show lines, prot; show surface, activesite; show sticks, ligand"

Alternatively, start your slerpy work with an ''sscene''.

===Live pymol presentations during a talk===
Be sure to run your movie once it's been opened and before your presentation if you're presenting in pymol. This will ensure that any objects that don't appear until the middle of the movie are available in memory and won't need to be rebuilt while your audience waits.

Of course showing your movie from within pymol allows you to show movies in stereo if you've got a presentation system that allows this.  If you pass out stereo glasses first it's guaranteed that everyone will remember your talk...

===Pausing on a view===

Just sgo to the view you want to stay on for a while and do an sinsert.  This will insert a new view with the same orientation etc as the one you were just on.  You can adjust the length of the pause by changing the number of frames for the transistion between these two identical views  using the ssetf command.

===Morphing and multi-state models===

Morphs and multi-conformation models are represented in pymol as single objects with multiple states.  Cycling through the states as an animation is very straightforward in pymol.  Slerpy allows you to include this animation over the states of an object as a transition between slerpy views within the context of larger movie.  This is done using the ''smorph'' command (see [[#Command Reference|Command Reference]]).  ''smorph'' allows you to specify the starting and ending pymol state numbers to use during the transition from the current to the next view.  It will often be appropriate to have the movie continue after the morph using the final state of the morphing model, that is, the conformation to which you morphed.  Since the default for a typical slerpy view is to show the first state of an object, you'll probably need to have available, in addition to your multi-state model, a single-state object containing the final conformation.  You can then hide the multistate object and show the single-state final conformation as an action associated with the final view of your morphing sequence.

To generate morphs you can use the [http://www.delanoscientific.com/rigimol.html rigimol] program provided by Warren as part of the incentive pymol package for subscribers or use [http://alpha2.bmc.uu.se/usf/mol_morph.html lsqman] from Gerard Kleywegt.