schrodinger.application.bindingsite.atomtyping module

class schrodinger.application.bindingsite.atomtyping.AtomTyper

Bases: object

Maps PDB residue/atom names onto SYBYL atom types. Uses ChmAtomTyperMol2 as fallback.

__init__()

Initialize self. See help(type(self)) for accurate signature.

__call__(st, atom_indices=None, logger=None)

Assigns SYBYL atom types.

Parameters:
Returns:

List of atom index-type pairs.
Return type:

list(tuple(int, str or None))
__class__

alias of builtins.type

__delattr__

Implement delattr(self, name).

__dict__ = mappingproxy({'__module__': 'schrodinger.application.bindingsite.atomtyping', '__doc__': '\n Maps PDB residue/atom names onto SYBYL atom types.\n Uses ChmAtomTyperMol2 as fallback.\n ', '__init__': <function AtomTyper.__init__>, '__call__': <function AtomTyper.__call__>, '__dict__': <attribute '__dict__' of 'AtomTyper' objects>, '__weakref__': <attribute '__weakref__' of 'AtomTyper' objects>})
__dir__() → list

default dir() implementation

__eq__

Return self==value.

__format__()

default object formatter

__ge__

Return self>=value.

__getattribute__

Return getattr(self, name).

__gt__

Return self>value.

__hash__

Return hash(self).

__init_subclass__()

This method is called when a class is subclassed.

The default implementation does nothing. It may be overridden to extend subclasses.

__le__

Return self<=value.

__lt__

Return self<value.

__module__ = 'schrodinger.application.bindingsite.atomtyping'
__ne__

Return self!=value.

__new__()

Create and return a new object. See help(type) for accurate signature.

__reduce__()

helper for pickle

__reduce_ex__()

helper for pickle

__repr__

Return repr(self).

__setattr__

Implement setattr(self, name, value).

__sizeof__() → int

size of object in memory, in bytes

__str__

Return str(self).

__subclasshook__()

Abstract classes can override this to customize issubclass().

This is invoked early on by abc.ABCMeta.__subclasscheck__(). It should return True, False or NotImplemented. If it returns NotImplemented, the normal algorithm is used. Otherwise, it overrides the normal algorithm (and the outcome is cached).

__weakref__

list of weak references to the object (if defined)