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IMP Reference Guide  develop.b79bf0c255,2019/12/05
The Integrative Modeling Platform
IMP.EMageFit.domino_model Namespace Reference

Classes to manage a model using DOMINO. More...

Detailed Description

Classes to manage a model using DOMINO.

Classes

class  DominoModel
 Management of a model using DOMINO. More...
 

Functions

def anchor_assembly
 "Anchor" a set of rigid bodies, by setting the position of one of them at the origin (0,0,0). More...
 
def get_coordinates
 Return a list of the coordinates of all the members of the rigid bodies. More...
 
def measure_model
 Get the drms, cdrms and crmsd for a model. More...
 

Function Documentation

def IMP.EMageFit.domino_model.anchor_assembly (   components_rbs,
  anchored 
)

"Anchor" a set of rigid bodies, by setting the position of one of them at the origin (0,0,0).

Parameters
components_rbsRigid bodies of the components
anchored- List of True/False values indicating if the components of the assembly are anchored. The function sets the FIRST anchored component in the (0,0,0) coordinate and moves the other components with the same translation. If all the values are False, the function does not do anything
Note
This function is only available in Python.

Definition at line 1008 of file domino_model.py.

def IMP.EMageFit.domino_model.get_coordinates (   rigid_bodies)

Return a list of the coordinates of all the members of the rigid bodies.

Note
This function is only available in Python.

Definition at line 1065 of file domino_model.py.

def IMP.EMageFit.domino_model.measure_model (   assembly,
  native_assembly,
  rbs,
  native_rbs 
)

Get the drms, cdrms and crmsd for a model.

Parameters
assemblyHierarchy for an assembly
native_assemblyHierarchy of the native structure
rbsRigid bodies for the components of the assembly
native_rbsRigid bodies for the components of the native structure
Returns
cdrms, cdrms, crmsd
  • drms - typical drms measure
  • cdrms - drms for the centroids of the rigid bodies of the components of the assembly
  • crmsd - rmsd for the centroids
Note
This function is only available in Python.

Definition at line 1039 of file domino_model.py.