I know there has been some work done on using AMBER trajectories with PyMol. Any pointers???
Mike Ford pymol-users-requ...@lists.sourceforge.net wrote: > Send PyMOL-users mailing list submissions to > pymol-users@lists.sourceforge.net > > To subscribe or unsubscribe via the World Wide Web, visit > https://lists.sourceforge.net/lists/listinfo/pymol-users > or, via email, send a message with subject or body 'help' to > pymol-users-requ...@lists.sourceforge.net > > You can reach the person managing the list at > pymol-users-ad...@lists.sourceforge.net > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of PyMOL-users digest..." > > Today's Topics: > > 1. PyMOL input for the Mac and movie question (Scott Classen) > 2. RE: PyMOL input for the Mac and movie question (DeLano, Warren) > > --__--__-- > > Message: 1 > Date: Mon, 9 Sep 2002 10:46:05 -0700 > From: Scott Classen <clas...@uclink.berkeley.edu> > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] PyMOL input for the Mac and movie question > > Mac PyMOL users > A lab mate has a Microsoft 3 button optical mouse so I tried it out on > my G3 powerbook and it works very well with PyMOL. Yeah!!! I guess I'll > have to but a mouse. > > OK I am now trying to make a movie and I have a question > I start the movie out like this: > > mset 1 x72 > mdo 1: turn x,5; turn y,5 > mdo 2: turn x,5; turn y,5 > mdo 3: turn x,5; turn y,5 > mdo 4: turn x,5; turn y,5 > mdo 5: turn x,5; turn y,5 > etc > etc > > So I've made a 72 frame movie with 5 degree rotations about the x and y > axes. If I'm thinking about this properly the molecule should be in the > exact same orientation at the end of the movie (i.e. 72x5=360degrees) > however this is not the case. Why? > > Warren, > could you make available the script you used to make the lambda > demo movie that came with PyMOL? This would help greatly with my > understanding of how to do more complicated motions in PyMOL. > > Thanks, > Scott > > ============================================== > Scott Classen > clas...@uclink4.berkeley.edu > University of California, Berkeley > Department of Molecular & Cell Biology > 229 Stanley Hall #3206 > Berkeley, CA 94720-3206 > LAB 510.643.9491 > FAX 510.643.9290 > ============================================== > > --__--__-- > > Message: 2 > Subject: RE: [PyMOL] PyMOL input for the Mac and movie question > Date: Mon, 9 Sep 2002 10:57:10 -0700 > From: "DeLano, Warren" <war...@sunesis.com> > To: "Scott Classen" <clas...@uclink.berkeley.edu>, > <pymol-users@lists.sourceforge.net> > > Scott, > > > From: Scott Classen [mailto:clas...@uclink.berkeley.edu] > > > OK I am now trying to make a movie and I have a question > > I start the movie out like this: > >=20 > > mset 1 x72 > > mdo 1: turn x,5; turn y,5 > > mdo 2: turn x,5; turn y,5 > > mdo 3: turn x,5; turn y,5 > > mdo 4: turn x,5; turn y,5 > > mdo 5: turn x,5; turn y,5 > > etc > > etc > >=20 > > > So I've made a 72 frame movie with 5 degree rotations about=20 > > the x and y=20 > > axes. If I'm thinking about this properly the molecule should=20 > > be in the=20 > > exact same orientation at the end of the movie (i.e. = > 72x5=3D360degrees)=20 > > however this is not the case. Why? > > No it won't because you're not rotating 360 degress. Instead, you're = > splitting 720 degrees of rotation about two axes which are constantly = > changing (relative to original orientation). > > Try this instead: > > mset 1 x72 > movie.nutate 1,72,20 > > >=20 > > Warren, > > could you make available the script you used to make the lambda=20 > > demo movie that came with PyMOL? This would help greatly with my=20 > > understanding of how to do more complicated motions in PyMOL. > >=20 > > On the mac version (only?) I think it can be found in = > examples/devel/D01lambda.py (or something similar). > > Cheers, > Warren > > --__--__-- > > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users > > End of PyMOL-users Digest
