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IMP Reference Guide  2.13.0
The Integrative Modeling Platform
IMP.pmi.output.Output Class Reference

Class for easy writing of PDBs, RMFs, and stat files. More...

Inherits object.

Detailed Description

Class for easy writing of PDBs, RMFs, and stat files.

Note
Model should be updated prior to writing outputs.
This class is only available in Python.

Definition at line 198 of file output.py.

Public Member Functions

def get_pdb_names
 Get a list of all PDB files being output by this instance. More...
 
def get_prot_name_from_particle
 Get the protein name from the particle. More...
 
def init_pdb
 Init PDB Writing. More...
 
def init_rmf
 Initialize an RMF file. More...
 

Member Function Documentation

def IMP.pmi.output.Output.get_pdb_names (   self)

Get a list of all PDB files being output by this instance.

Definition at line 225 of file output.py.

def IMP.pmi.output.Output.get_prot_name_from_particle (   self,
  name,
  p 
)

Get the protein name from the particle.

This is done by traversing the hierarchy.

Definition at line 334 of file output.py.

def IMP.pmi.output.Output.init_pdb (   self,
  name,
  prot,
  mmcif = False 
)

Init PDB Writing.

Parameters
nameThe PDB filename
protThe hierarchy to write to this pdb file
mmcifIf True, write PDBs in mmCIF format
Note
if the PDB name is 'System' then will use Selection to get molecules

Definition at line 253 of file output.py.

def IMP.pmi.output.Output.init_rmf (   self,
  name,
  hierarchies,
  rs = None,
  geometries = None,
  listofobjects = None 
)

Initialize an RMF file.

Parameters
namethe name of the RMF file
hierarchiesthe hierarchies to be included (it is a list)
rsoptional, the restraint sets (it is a list)
geometriesoptional, the geometries (it is a list)
listofobjectsoptional, the list of objects for the stat (it is a list)

Definition at line 540 of file output.py.


The documentation for this class was generated from the following file: