[PyMOL] Swissprot

2004-10-18 Thread Jules Jacobsen
Hello List, I'm trying to make a plugin which will load various features from a swissprot entry onto a model loaded in PyMol but need to know a few things such as: Where are the sequences of the models stored in pymol and how do I retrieve them? Are these taken from the ATOM or SEQRES

Re: [PyMOL] Swissprot

2004-10-18 Thread Filipe Maia
Is there a PDB parser class somewhere for reading in the PDB files? layer2/ObjectMolecule2.c:ObjectMoleculePDBStr2CoordSet() is probably a good place to start. -- All generalizations are false, including this one. -- Mark Twain

[PyMOL] Help with labels?

2004-10-18 Thread jwallen
Hi, I am trying to add labels to my figures to get them ready for publication. I have figures in both stereo and mono, and I'm trying to figure out how to move/orient labels so that they are easy to view. Are there ways to move labels in a figure? cheers Jamie Wallen

Re: [PyMOL] Swissprot

2004-10-18 Thread Charles Moad
I think you want to avoid the c files. Look at the pdb loader plugin I wrote: http://euclid.uits.iupui.edu/~cmoad/pymolPlugins/remote_pdb_load.py Specifically, one clean way to load a pdb is: cmd.read_pdbstr(pdbString, label) There is also a command for loading from a file. - Charlie On

[PyMOL] Help with labels?

2004-10-18 Thread Scott Classen
Hi Jamie, I've attached an email from a response to a similar question posted awhile ago. I hope it is helpful. Ciao, Scott On Oct 18, 2004, at 8:07 AM, jwal...@csb.wfu.edu wrote: Hi, I am trying to add labels to my figures to get them ready for publication. I have figures in both stereo

Re: [PyMOL] Help with labels?

2004-10-18 Thread Andreas Förster
A little side note: Ray tracing in stereo should be done with: ray width, height, angle=-3 png image_right ray width, height, angle=3 png image_left instead of with turn y, -3 to the first script turn y, 3 to the second one in order to get the shadows right Andreas