CharmmRstFile¶
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class
simtk.openmm.app.charmmcrdfiles.
CharmmRstFile
(fname)¶ Reads and parses data, velocities and coordinates from a CHARMM restart file (.rst) of file name ‘fname’ into class attributes
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natom
¶ int
Number of atoms in the system
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resname
¶ list
Names of all residues
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positions
¶ list
All cartesian coordinates [x1, y1, z1, x2, ...]
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positionsold
¶ list
Old cartesian coordinates
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velocities
¶ list
List of all cartesian velocities
Examples
>>> chm = CharmmRstFile('testfiles/sample-charmm.rst') >>> print chm.header[0] REST 37 1 >>> natom, nc, nco = chm.natom, len(chm.positions), len(chm.positionsold) >>> nv = len(chm.velocities) >>> print '%d atoms; %d crds; %d old crds; %d vels' % (natom, nc, nco, nv) 256 atoms; 256 crds; 256 old crds; 256 vels
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__init__
(fname)¶
Methods
__init__
(fname)printcoords
(crds)-
__delattr__
¶ x.__delattr__(‘name’) <==> del x.name
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__format__
()¶ default object formatter
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__getattribute__
¶ x.__getattribute__(‘name’) <==> x.name
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__hash__
¶
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__reduce__
()¶ helper for pickle
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__reduce_ex__
()¶ helper for pickle
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__repr__
¶
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__setattr__
¶ x.__setattr__(‘name’, value) <==> x.name = value
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__sizeof__
() → int¶ size of object in memory, in bytes
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__str__
¶
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