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News & Updates
Official Release PyMOL, AxPyMOL, and JyMO v1.7 have all been released today, January 14, 2014.
New Plugin Bondpack is a collection of PyMOL plugins for easy visualization of atomic bonds.
New Plugin MOLE 2.0 is a new plugin for rapid analysis of biomacromolecular channels in PyMOL.
3D using Geforce PyMOL can now be visualized in 3D using Nvidia GeForce video cards (series 400+) with 120Hz monitors and Nvidia 3D Vision, this was previously only possible with Quadro video cards.
New Plugin GROMACS_Plugin is a new plugin that ties together PyMOL and GROMACS.
New Software CMPyMOL is a software that interactively visualizes 2D contact maps of proteins in PyMOL.
New Script cgo_arrow draws an arrow between two picked atoms.
Tips & Tricks Instructions for generating movie PDFs using .mpg movies from PyMOL.
Older News See Older News.
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Save sep

== Description ==

Saves all objects as separate PDB files. Useful if you want to do things like combine separate *.pse files.

Code

from pymol import cmd
import glob
import re
 
def save_sep(prefix=''):
  """
  save_sep <prefix>
 
  saves multiple objects into multiple files using an optional prefix name.
 
  e.g. save_sep prefix
  """
  obj_list = cmd.get_names("all")
 
  if obj_list:
    for i in range(len(obj_list)):
      obj_name = "%s%s.pdb" % (prefix, obj_list[i])
      cmd.save(obj_name, obj_list[i])
      print "Saving %s" %  obj_name
  else:
    print "No objects found"
 
cmd.extend('save_sep',save_sep)
A Random PyMOL-generated Cover. See Covers.


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