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IMP Reference Guide
2.22.0
The Integrative Modeling Platform
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Restrain particles to be above, below, or inside a planar membrane. More...
Inherits RestraintBase.
Restrain particles to be above, below, or inside a planar membrane.
The membrane is defined to lie on the xy plane with a given z coordinate and thickness, and particles are restrained (by their z coordinates) with a simple sigmoid score.
Public Member Functions | |
| def | __init__ |
| Setup the restraint. More... | |
| def | create_membrane_density |
| Create an MRC density file to visualize the membrane. More... | |
| def IMP.pmi.restraints.basic.MembraneRestraint.__init__ | ( | self, | |
| hier, | |||
objects_above = None, |
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objects_inside = None, |
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objects_below = None, |
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center = 0.0, |
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thickness = 30.0, |
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softness = 3.0, |
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plateau = 1e-10, |
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resolution = 1, |
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weight = 1.0, |
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label = None |
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| ) |
Setup the restraint.
| objects_inside | list or tuples of objects in membrane (e.g. ['p1', (10, 30,'p2')]) |
| objects_above | list or tuples of objects above membrane |
| objects_below | list or tuples of objects below membrane |
| thickness | Thickness of the membrane along the z-axis |
| softness | Softness of the limiter in the sigmoid function |
| plateau | Parameter to set the probability (=1- plateau)) at the plateau phase of the sigmoid |
| weight | Weight of restraint |
| label | A unique label to be used in outputs and particle/restraint names. |
| def IMP.pmi.restraints.basic.MembraneRestraint.create_membrane_density | ( | self, | |
file_out = 'membrane_localization.mrc' |
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| ) |