14 from sys
import version_info
as _swig_python_version_info
18 import builtins
as __builtin__
24 strthis =
"proxy of " + self.this.__repr__()
25 except __builtin__.Exception:
27 return "<%s.%s; %s >" % (self.__class__.__module__, self.__class__.__name__, strthis,)
30 def _swig_setattr_nondynamic_instance_variable(set):
31 def set_instance_attr(self, name, value):
33 set(self, name, value)
34 elif name ==
"thisown":
36 elif hasattr(self, name)
and isinstance(getattr(type(self), name), property):
37 set(self, name, value)
39 raise AttributeError(
"You cannot add instance attributes to %s" % self)
40 return set_instance_attr
43 def _swig_setattr_nondynamic_class_variable(set):
44 def set_class_attr(cls, name, value):
45 if hasattr(cls, name)
and not isinstance(getattr(cls, name), property):
48 raise AttributeError(
"You cannot add class attributes to %s" % cls)
52 def _swig_add_metaclass(metaclass):
53 """Class decorator for adding a metaclass to a SWIG wrapped class - a slimmed down version of six.add_metaclass"""
55 return metaclass(cls.__name__, cls.__bases__, cls.__dict__.copy())
59 class _SwigNonDynamicMeta(type):
60 """Meta class to enforce nondynamic attributes (no new attributes) for a class"""
61 __setattr__ = _swig_setattr_nondynamic_class_variable(type.__setattr__)
66 class IMP_KERNEL_SwigPyIterator(object):
67 r"""Proxy of C++ swig::IMP_KERNEL_SwigPyIterator class."""
69 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
71 def __init__(self, *args, **kwargs):
72 raise AttributeError(
"No constructor defined - class is abstract")
74 __swig_destroy__ = _IMP_kernel.delete_IMP_KERNEL_SwigPyIterator
77 r"""value(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
78 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_value(self)
81 r"""incr(IMP_KERNEL_SwigPyIterator self, size_t n=1) -> IMP_KERNEL_SwigPyIterator"""
82 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_incr(self, n)
85 r"""decr(IMP_KERNEL_SwigPyIterator self, size_t n=1) -> IMP_KERNEL_SwigPyIterator"""
86 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_decr(self, n)
88 def distance(self, x):
89 r"""distance(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> ptrdiff_t"""
90 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_distance(self, x)
93 r"""equal(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> bool"""
94 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_equal(self, x)
97 r"""copy(IMP_KERNEL_SwigPyIterator self) -> IMP_KERNEL_SwigPyIterator"""
98 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_copy(self)
101 r"""next(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
102 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_next(self)
105 r"""__next__(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
106 return _IMP_kernel.IMP_KERNEL_SwigPyIterator___next__(self)
109 r"""previous(IMP_KERNEL_SwigPyIterator self) -> PyObject *"""
110 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_previous(self)
112 def advance(self, n):
113 r"""advance(IMP_KERNEL_SwigPyIterator self, ptrdiff_t n) -> IMP_KERNEL_SwigPyIterator"""
114 return _IMP_kernel.IMP_KERNEL_SwigPyIterator_advance(self, n)
117 r"""__eq__(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> bool"""
118 return _IMP_kernel.IMP_KERNEL_SwigPyIterator___eq__(self, x)
121 r"""__ne__(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> bool"""
122 return _IMP_kernel.IMP_KERNEL_SwigPyIterator___ne__(self, x)
124 def __iadd__(self, n):
125 r"""__iadd__(IMP_KERNEL_SwigPyIterator self, ptrdiff_t n) -> IMP_KERNEL_SwigPyIterator"""
126 return _IMP_kernel.IMP_KERNEL_SwigPyIterator___iadd__(self, n)
128 def __isub__(self, n):
129 r"""__isub__(IMP_KERNEL_SwigPyIterator self, ptrdiff_t n) -> IMP_KERNEL_SwigPyIterator"""
130 return _IMP_kernel.IMP_KERNEL_SwigPyIterator___isub__(self, n)
132 def __add__(self, n):
133 r"""__add__(IMP_KERNEL_SwigPyIterator self, ptrdiff_t n) -> IMP_KERNEL_SwigPyIterator"""
134 return _IMP_kernel.IMP_KERNEL_SwigPyIterator___add__(self, n)
136 def __sub__(self, *args):
138 __sub__(IMP_KERNEL_SwigPyIterator self, ptrdiff_t n) -> IMP_KERNEL_SwigPyIterator
139 __sub__(IMP_KERNEL_SwigPyIterator self, IMP_KERNEL_SwigPyIterator x) -> ptrdiff_t
141 return _IMP_kernel.IMP_KERNEL_SwigPyIterator___sub__(self, *args)
146 _IMP_kernel.IMP_KERNEL_SwigPyIterator_swigregister(IMP_KERNEL_SwigPyIterator)
153 IMP_DEBUG = _IMP_kernel.IMP_DEBUG
155 IMP_RELEASE = _IMP_kernel.IMP_RELEASE
157 IMP_SILENT = _IMP_kernel.IMP_SILENT
159 IMP_PROGRESS = _IMP_kernel.IMP_PROGRESS
161 IMP_TERSE = _IMP_kernel.IMP_TERSE
163 IMP_VERBOSE = _IMP_kernel.IMP_VERBOSE
165 IMP_MEMORY = _IMP_kernel.IMP_MEMORY
167 IMP_NONE = _IMP_kernel.IMP_NONE
169 IMP_USAGE = _IMP_kernel.IMP_USAGE
171 IMP_INTERNAL = _IMP_kernel.IMP_INTERNAL
173 IMP_KERNEL_HAS_LOG4CXX = _IMP_kernel.IMP_KERNEL_HAS_LOG4CXX
175 IMP_COMPILER_HAS_CEREAL_RAW_POINTER = _IMP_kernel.IMP_COMPILER_HAS_CEREAL_RAW_POINTER
177 IMP_COMPILER_HAS_DEBUG_VECTOR = _IMP_kernel.IMP_COMPILER_HAS_DEBUG_VECTOR
179 IMP_COMPILER_HAS_RANDOM_SHUFFLE = _IMP_kernel.IMP_COMPILER_HAS_RANDOM_SHUFFLE
181 IMP_COMPILER_HAS_THREE_WAY = _IMP_kernel.IMP_COMPILER_HAS_THREE_WAY
183 IMP_KERNEL_HAS_BOOST_RANDOM = _IMP_kernel.IMP_KERNEL_HAS_BOOST_RANDOM
185 IMP_KERNEL_HAS_NUMPY = _IMP_kernel.IMP_KERNEL_HAS_NUMPY
187 IMP_KERNEL_HAS_GPERFTOOLS = _IMP_kernel.IMP_KERNEL_HAS_GPERFTOOLS
189 IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER = _IMP_kernel.IMP_KERNEL_HAS_TCMALLOC_HEAPCHECKER
191 IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER = _IMP_kernel.IMP_KERNEL_HAS_TCMALLOC_HEAPPROFILER
193 IMPKERNEL_SHOW_WARNINGS = _IMP_kernel.IMPKERNEL_SHOW_WARNINGS
197 class _DirectorObjects:
198 """@internal Simple class to keep references to director objects
199 to prevent premature deletion."""
202 def register(self, obj):
203 """Take a reference to a director object; will only work for
204 refcounted C++ classes"""
205 if hasattr(obj,
'get_ref_count'):
206 self._objects.append(obj)
208 """Only drop our reference and allow cleanup by Python if no other
209 Python references exist (we hold 3 references: one in self._objects,
210 one in x, and one in the argument list for getrefcount) *and* no
211 other C++ references exist (the Python object always holds one)"""
212 objs = [x
for x
in self._objects
if sys.getrefcount(x) > 3 \
213 or x.get_ref_count() > 1]
217 def get_object_count(self):
218 """Get number of director objects (useful for testing only)"""
219 return len(self._objects)
220 _director_objects = _DirectorObjects()
222 DEFAULT_CHECK = _IMP_kernel.DEFAULT_CHECK
224 NONE = _IMP_kernel.NONE
226 USAGE = _IMP_kernel.USAGE
228 USAGE_AND_INTERNAL = _IMP_kernel.USAGE_AND_INTERNAL
232 r"""set_check_level(IMP::CheckLevel tf)"""
233 return _IMP_kernel.set_check_level(tf)
236 r"""get_check_level() -> IMP::CheckLevel"""
237 return _IMP_kernel.get_check_level()
239 from _IMP_kernel
import Exception, InternalException, ModelException, EventException
240 from _IMP_kernel
import UsageException, IndexException, IOException, ValueException
241 from _IMP_kernel
import TypeException
243 class _ostream(object):
244 r"""Proxy of C++ std::ostream class."""
246 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
248 def __init__(self, *args, **kwargs):
249 raise AttributeError(
"No constructor defined")
250 __repr__ = _swig_repr
252 def write(self, osa_buf):
253 r"""write(_ostream self, char const * osa_buf)"""
254 return _IMP_kernel._ostream_write(self, osa_buf)
257 _IMP_kernel._ostream_swigregister(_ostream)
258 IMP_C_OPEN_BINARY = _IMP_kernel.IMP_C_OPEN_BINARY
261 from .
import _list_util
264 _models_set = weakref.WeakSet()
266 def _models_set_get(m):
267 for x
in _models_set:
272 _raii_types.append(
"SetLogState")
275 _raii_types.append(
"SetNumberOfThreads")
278 _raii_types.append(
"SetCheckState")
281 _object_types.append(
"Object")
284 def _object_cast_to_Object(o):
285 r"""_object_cast_to_Object(Object * o) -> Object"""
286 return _IMP_kernel._object_cast_to_Object(o)
288 _object_types.append(
"_TestObject")
291 def _object_cast_to__TestObject(o):
292 r"""_object_cast_to__TestObject(Object * o) -> _TestObject"""
293 return _IMP_kernel._object_cast_to__TestObject(o)
296 _plural_types.append(
"VersionInfos")
297 _value_types.append(
"VersionInfo")
300 _raii_types.append(
"CreateLogContext")
303 _raii_types.append(
"WarningContext")
306 _raii_types.append(
"SetLogTarget")
310 _plural_types.append(
"_TestValues")
311 _value_types.append(
"_TestValue")
315 _plural_types.append(
"Floats")
316 _value_types.append(
"Float")
320 _plural_types.append(
"Ints")
321 _value_types.append(
"Int")
325 _plural_types.append(
"Strings")
326 _value_types.append(
"String")
330 _plural_types.append(
"_Protections")
331 _value_types.append(
"_Protection")
333 class _InputAdaptor(object):
334 r"""Proxy of C++ IMP::InputAdaptor class."""
336 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
338 def __init__(self, *args, **kwargs):
339 raise AttributeError(
"No constructor defined")
340 __repr__ = _swig_repr
342 def __getstate__(self):
343 raise NotImplementedError(str(self.__class__)
344 +
" does not support serialization")
346 __swig_destroy__ = _IMP_kernel.delete__InputAdaptor
349 _IMP_kernel._InputAdaptor_swigregister(_InputAdaptor)
350 class _NonCopyable(object):
351 r"""Proxy of C++ IMP::NonCopyable class."""
353 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
355 def __init__(self, *args, **kwargs):
356 raise AttributeError(
"No constructor defined")
357 __repr__ = _swig_repr
358 __swig_destroy__ = _IMP_kernel.delete__NonCopyable
361 _IMP_kernel._NonCopyable_swigregister(_NonCopyable)
362 class _RAII(_NonCopyable):
363 r"""Proxy of C++ IMP::RAII class."""
365 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
367 def __init__(self, *args, **kwargs):
368 raise AttributeError(
"No constructor defined")
369 __repr__ = _swig_repr
370 __swig_destroy__ = _IMP_kernel.delete__RAII
373 _IMP_kernel._RAII_swigregister(_RAII)
374 class _Value(object):
375 r"""Proxy of C++ IMP::Value class."""
377 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
379 def __init__(self, *args, **kwargs):
380 raise AttributeError(
"No constructor defined")
381 __repr__ = _swig_repr
383 def __getstate__(self):
384 raise NotImplementedError(str(self.__class__)
385 +
" does not support serialization")
387 __swig_destroy__ = _IMP_kernel.delete__Value
390 _IMP_kernel._Value_swigregister(_Value)
393 r"""get_executable_name() -> std::string"""
394 return _IMP_kernel.get_executable_name()
398 setup_from_argv(IMP::Strings const & argv, std::string description)
399 setup_from_argv(IMP::Strings const & argv, std::string description, std::string positional_description, int num_positional) -> IMP::Strings
401 return _IMP_kernel.setup_from_argv(*args)
404 r"""add_string_flag(std::string name, std::string default_value, std::string description)"""
405 return _IMP_kernel.add_string_flag(name, default_value, description)
408 r"""get_string_flag(std::string name) -> std::string"""
409 return _IMP_kernel.get_string_flag(name)
412 r"""add_int_flag(std::string name, size_t default_value, std::string description)"""
413 return _IMP_kernel.add_int_flag(name, default_value, description)
416 r"""get_int_flag(std::string name) -> size_t"""
417 return _IMP_kernel.get_int_flag(name)
420 r"""add_bool_flag(std::string name, std::string description)"""
421 return _IMP_kernel.add_bool_flag(name, description)
424 r"""get_bool_flag(std::string name) -> bool"""
425 return _IMP_kernel.get_bool_flag(name)
428 r"""add_float_flag(std::string name, double default_value, std::string description)"""
429 return _IMP_kernel.add_float_flag(name, default_value, description)
432 r"""get_float_flag(std::string name) -> double"""
433 return _IMP_kernel.get_float_flag(name)
436 r"""write_help(_ostream out=std::cerr)"""
437 return _IMP_kernel.write_help(*args)
440 r"""get_is_quick_test() -> bool"""
441 return _IMP_kernel.get_is_quick_test()
442 DEFAULT = _IMP_kernel.DEFAULT
444 SILENT = _IMP_kernel.SILENT
446 WARNING = _IMP_kernel.WARNING
448 PROGRESS = _IMP_kernel.PROGRESS
450 TERSE = _IMP_kernel.TERSE
452 VERBOSE = _IMP_kernel.VERBOSE
454 MEMORY = _IMP_kernel.MEMORY
456 ALL_LOG = _IMP_kernel.ALL_LOG
458 class VersionInfo(_Value):
459 r"""Proxy of C++ IMP::VersionInfo class."""
461 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
463 def __init__(self, *args):
465 __init__(VersionInfo self, std::string module, std::string version) -> VersionInfo
466 __init__(VersionInfo self) -> VersionInfo
468 _IMP_kernel.VersionInfo_swiginit(self, _IMP_kernel.new_VersionInfo(*args))
470 def get_module(self):
471 r"""get_module(VersionInfo self) -> std::string"""
472 return _IMP_kernel.VersionInfo_get_module(self)
474 def get_version(self):
475 r"""get_version(VersionInfo self) -> std::string"""
476 return _IMP_kernel.VersionInfo_get_version(self)
478 def show(self, *args):
479 r"""show(VersionInfo self, _ostream out=std::cout)"""
480 return _IMP_kernel.VersionInfo_show(self, *args)
482 def __cmp__(self, o):
483 r"""__cmp__(VersionInfo self, VersionInfo o) -> int"""
484 return _IMP_kernel.VersionInfo___cmp__(self, o)
487 r"""__eq__(VersionInfo self, VersionInfo o) -> bool"""
488 return _IMP_kernel.VersionInfo___eq__(self, o)
491 r"""__ne__(VersionInfo self, VersionInfo o) -> bool"""
492 return _IMP_kernel.VersionInfo___ne__(self, o)
495 r"""__lt__(VersionInfo self, VersionInfo o) -> bool"""
496 return _IMP_kernel.VersionInfo___lt__(self, o)
499 r"""__gt__(VersionInfo self, VersionInfo o) -> bool"""
500 return _IMP_kernel.VersionInfo___gt__(self, o)
503 r"""__ge__(VersionInfo self, VersionInfo o) -> bool"""
504 return _IMP_kernel.VersionInfo___ge__(self, o)
507 r"""__le__(VersionInfo self, VersionInfo o) -> bool"""
508 return _IMP_kernel.VersionInfo___le__(self, o)
511 r"""__str__(VersionInfo self) -> std::string"""
512 return _IMP_kernel.VersionInfo___str__(self)
515 r"""__repr__(VersionInfo self) -> std::string"""
516 return _IMP_kernel.VersionInfo___repr__(self)
518 def _get_as_binary(self):
519 r"""_get_as_binary(VersionInfo self) -> PyObject *"""
520 return _IMP_kernel.VersionInfo__get_as_binary(self)
522 def _set_from_binary(self, p):
523 r"""_set_from_binary(VersionInfo self, PyObject * p)"""
524 return _IMP_kernel.VersionInfo__set_from_binary(self, p)
526 def __getstate__(self):
527 p = self._get_as_binary()
528 if len(self.__dict__) > 1:
529 d = self.__dict__.copy()
534 def __setstate__(self, p):
535 if not hasattr(self,
'this'):
537 if isinstance(p, tuple):
539 self.__dict__.update(d)
540 return self._set_from_binary(p)
542 __swig_destroy__ = _IMP_kernel.delete_VersionInfo
545 _IMP_kernel.VersionInfo_swigregister(VersionInfo)
546 class TextOutput(_InputAdaptor):
547 r"""Proxy of C++ IMP::TextOutput class."""
549 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
550 __repr__ = _swig_repr
552 def __init__(self, *args):
554 __init__(TextOutput self, int arg2) -> TextOutput
555 __init__(TextOutput self, double arg2) -> TextOutput
556 __init__(TextOutput self, char const * c, bool append=False) -> TextOutput
557 __init__(TextOutput self, IMP::TextProxy< std::ostream > p) -> TextOutput
558 __init__(TextOutput self) -> TextOutput
559 __init__(TextOutput self, std::string file_name, bool append=False) -> TextOutput
561 _IMP_kernel.TextOutput_swiginit(self, _IMP_kernel.new_TextOutput(*args))
563 def show(self, *args):
564 r"""show(TextOutput self, _ostream out=std::cout)"""
565 return _IMP_kernel.TextOutput_show(self, *args)
568 r"""get_name(TextOutput self) -> std::string"""
569 return _IMP_kernel.TextOutput_get_name(self)
570 __swig_destroy__ = _IMP_kernel.delete_TextOutput
573 _IMP_kernel.TextOutput_swigregister(TextOutput)
574 class TextInput(_InputAdaptor):
575 r"""Proxy of C++ IMP::TextInput class."""
577 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
578 __repr__ = _swig_repr
580 def __init__(self, *args):
582 __init__(TextInput self, int arg2) -> TextInput
583 __init__(TextInput self, double arg2) -> TextInput
584 __init__(TextInput self, char const * c) -> TextInput
585 __init__(TextInput self, IMP::TextProxy< std::istream > p) -> TextInput
586 __init__(TextInput self) -> TextInput
587 __init__(TextInput self, std::string file_name) -> TextInput
589 _IMP_kernel.TextInput_swiginit(self, _IMP_kernel.new_TextInput(*args))
591 def show(self, *args):
592 r"""show(TextInput self, _ostream out=std::cout)"""
593 return _IMP_kernel.TextInput_show(self, *args)
596 r"""get_name(TextInput self) -> std::string"""
597 return _IMP_kernel.TextInput_get_name(self)
599 def set_binary_open_mode(self, binary):
600 r"""set_binary_open_mode(TextInput self, bool binary)"""
601 return _IMP_kernel.TextInput_set_binary_open_mode(self, binary)
602 __swig_destroy__ = _IMP_kernel.delete_TextInput
605 _IMP_kernel.TextInput_swigregister(TextInput)
606 class SetLogTarget(_RAII):
607 r"""Proxy of C++ IMP::SetLogTarget class."""
609 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
611 def __init__(self, *args):
613 __init__(SetLogTarget self) -> SetLogTarget
614 __init__(SetLogTarget self, TextOutput to) -> SetLogTarget
616 _IMP_kernel.SetLogTarget_swiginit(self, _IMP_kernel.new_SetLogTarget(*args))
619 r"""set(SetLogTarget self, TextOutput to)"""
620 return _IMP_kernel.SetLogTarget_set(self, to)
623 r"""reset(SetLogTarget self)"""
624 return _IMP_kernel.SetLogTarget_reset(self)
625 __swig_destroy__ = _IMP_kernel.delete_SetLogTarget
627 def show(self, *args):
628 r"""show(SetLogTarget self, _ostream out=std::cout)"""
629 return _IMP_kernel.SetLogTarget_show(self, *args)
633 def __exit__(self, exc_type, exc_val, exc_tb):
639 r"""__str__(SetLogTarget self) -> std::string"""
640 return _IMP_kernel.SetLogTarget___str__(self)
643 r"""__repr__(SetLogTarget self) -> std::string"""
644 return _IMP_kernel.SetLogTarget___repr__(self)
647 _IMP_kernel.SetLogTarget_swigregister(SetLogTarget)
650 r"""create_temporary_file(std::string prefix="imp_temp", std::string suffix="") -> TextOutput"""
651 return _IMP_kernel.create_temporary_file(*args)
654 r"""create_temporary_file_name(std::string prefix="imp_temp", std::string suffix="") -> std::string"""
655 return _IMP_kernel.create_temporary_file_name(*args)
658 r"""get_relative_path(std::string base, std::string relative) -> std::string"""
659 return _IMP_kernel.get_relative_path(base, relative)
662 r"""get_absolute_path(std::string file) -> std::string"""
663 return _IMP_kernel.get_absolute_path(file)
665 def push_log_context(functionname, object):
666 r"""push_log_context(char const * functionname, void const * object)"""
667 return _IMP_kernel.push_log_context(functionname, object)
669 def pop_log_context():
670 r"""pop_log_context()"""
671 return _IMP_kernel.pop_log_context()
675 add_to_log(std::string to_write)
676 add_to_log(IMP::LogLevel level, std::string to_write)
678 return _IMP_kernel.add_to_log(*args)
681 r"""set_log_level(IMP::LogLevel l)"""
682 return _IMP_kernel.set_log_level(l)
685 r"""set_log_timer(bool tb)"""
686 return _IMP_kernel.set_log_timer(tb)
689 r"""reset_log_timer()"""
690 return _IMP_kernel.reset_log_timer()
693 r"""get_log_level() -> IMP::LogLevel"""
694 return _IMP_kernel.get_log_level()
697 r"""set_progress_display(std::string description, unsigned int steps)"""
698 return _IMP_kernel.set_progress_display(description, steps)
701 r"""add_to_progress_display(unsigned int step=1)"""
702 return _IMP_kernel.add_to_progress_display(step)
703 class Object(_NonCopyable):
704 r"""Proxy of C++ IMP::Object class."""
706 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
708 def __init__(self, name):
709 r"""__init__(Object self, std::string name) -> Object"""
710 if self.__class__ == Object:
714 _IMP_kernel.Object_swiginit(self, _IMP_kernel.new_Object(_self, name))
716 if self.__class__ != Object:
717 _director_objects.register(self)
721 __swig_destroy__ = _IMP_kernel.delete_Object
724 r"""__hash__(Object self) -> std::size_t"""
725 return _IMP_kernel.Object___hash__(self)
728 r"""set_log_level(Object self, IMP::LogLevel l)"""
729 return _IMP_kernel.Object_set_log_level(self, l)
732 r"""set_check_level(Object self, IMP::CheckLevel l)"""
733 return _IMP_kernel.Object_set_check_level(self, l)
736 r"""get_log_level(Object self) -> IMP::LogLevel"""
737 return _IMP_kernel.Object_get_log_level(self)
740 r"""get_check_level(Object self) -> IMP::CheckLevel"""
741 return _IMP_kernel.Object_get_check_level(self)
743 def get_version_info(self):
744 r"""get_version_info(Object self) -> VersionInfo"""
745 return _IMP_kernel.Object_get_version_info(self)
748 r"""get_name(Object self) -> std::string const &"""
749 return _IMP_kernel.Object_get_name(self)
751 def set_name(self, name):
752 r"""set_name(Object self, std::string name)"""
753 return _IMP_kernel.Object_set_name(self, name)
755 def get_type_name(self):
756 r"""get_type_name(Object self) -> std::string"""
757 return _IMP_kernel.Object_get_type_name(self)
759 def set_was_used(self, tf):
760 r"""set_was_used(Object self, bool tf)"""
761 return _IMP_kernel.Object_set_was_used(self, tf)
763 def show(self, *args):
764 r"""show(Object self, _ostream out=std::cout)"""
765 return _IMP_kernel.Object_show(self, *args)
767 def get_string(self):
768 r"""get_string(Object self) -> std::string"""
769 return _IMP_kernel.Object_get_string(self)
771 def _on_destruction(self):
772 r"""_on_destruction(Object self)"""
773 return _IMP_kernel.Object__on_destruction(self)
775 def get_is_valid(self):
776 r"""get_is_valid(Object self) -> bool"""
777 return _IMP_kernel.Object_get_is_valid(self)
779 def get_ref_count(self):
780 r"""get_ref_count(Object self) -> unsigned int"""
781 return _IMP_kernel.Object_get_ref_count(self)
784 def get_number_of_live_objects():
785 r"""get_number_of_live_objects() -> unsigned int"""
786 return _IMP_kernel.Object_get_number_of_live_objects()
788 def get_is_shared(self):
789 r"""get_is_shared(Object self) -> bool"""
790 return _IMP_kernel.Object_get_is_shared(self)
792 def clear_caches(self):
793 r"""clear_caches(Object self)"""
794 return _IMP_kernel.Object_clear_caches(self)
796 def do_destroy(self):
797 r"""do_destroy(Object self)"""
798 return _IMP_kernel.Object_do_destroy(self)
800 def __getstate__(self):
801 raise NotImplementedError(str(self.__class__)
802 +
" does not support serialization")
806 r"""__eq__(Object self, Object o) -> bool"""
807 return _IMP_kernel.Object___eq__(self, o)
810 r"""__ne__(Object self, Object o) -> bool"""
811 return _IMP_kernel.Object___ne__(self, o)
814 r"""__le__(Object self, Object o) -> bool"""
815 return _IMP_kernel.Object___le__(self, o)
818 r"""__lt__(Object self, Object o) -> bool"""
819 return _IMP_kernel.Object___lt__(self, o)
822 r"""__ge__(Object self, Object o) -> bool"""
823 return _IMP_kernel.Object___ge__(self, o)
826 r"""__gt__(Object self, Object o) -> bool"""
827 return _IMP_kernel.Object___gt__(self, o)
830 r"""__str__(Object self) -> std::string"""
831 return _IMP_kernel.Object___str__(self)
834 r"""__repr__(Object self) -> std::string"""
835 return _IMP_kernel.Object___repr__(self)
839 return _object_cast_to_Object(o)
841 def __disown__(self):
843 _IMP_kernel.disown_Object(self)
844 return weakref.proxy(self)
847 _IMP_kernel.Object_swigregister(Object)
848 class SetLogState(_RAII):
849 r"""Proxy of C++ IMP::SetLogState class."""
851 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
854 r"""reset(SetLogState self)"""
855 return _IMP_kernel.SetLogState_reset(self)
856 __swig_destroy__ = _IMP_kernel.delete_SetLogState
858 def show(self, *args):
859 r"""show(SetLogState self, _ostream out=std::cout)"""
860 return _IMP_kernel.SetLogState_show(self, *args)
862 def __init__(self, *args):
864 __init__(SetLogState self) -> SetLogState
865 __init__(SetLogState self, Object o, IMP::LogLevel l) -> SetLogState
866 __init__(SetLogState self, IMP::LogLevel l) -> SetLogState
868 _IMP_kernel.SetLogState_swiginit(self, _IMP_kernel.new_SetLogState(*args))
870 def set(self, *args):
872 set(SetLogState self, Object o, IMP::LogLevel l)
873 set(SetLogState self, IMP::LogLevel l)
875 return _IMP_kernel.SetLogState_set(self, *args)
879 def __exit__(self, exc_type, exc_val, exc_tb):
885 r"""__str__(SetLogState self) -> std::string"""
886 return _IMP_kernel.SetLogState___str__(self)
889 r"""__repr__(SetLogState self) -> std::string"""
890 return _IMP_kernel.SetLogState___repr__(self)
893 _IMP_kernel.SetLogState_swigregister(SetLogState)
894 class WarningContext(object):
895 r"""Proxy of C++ IMP::WarningContext class."""
897 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
898 data_ = property(_IMP_kernel.WarningContext_data__get, _IMP_kernel.WarningContext_data__set, doc=
r"""data_ : boost::unordered_set<(std::string)>""")
900 def add_warning(self, key, warning):
901 r"""add_warning(WarningContext self, std::string key, std::string warning)"""
902 return _IMP_kernel.WarningContext_add_warning(self, key, warning)
904 def clear_warnings(self):
905 r"""clear_warnings(WarningContext self)"""
906 return _IMP_kernel.WarningContext_clear_warnings(self)
908 def dump_warnings(self):
909 r"""dump_warnings(WarningContext self)"""
910 return _IMP_kernel.WarningContext_dump_warnings(self)
911 __swig_destroy__ = _IMP_kernel.delete_WarningContext
913 def show(self, *args):
914 r"""show(WarningContext self, _ostream out=std::cout)"""
915 return _IMP_kernel.WarningContext_show(self, *args)
919 def __exit__(self, exc_type, exc_val, exc_tb):
925 r"""__str__(WarningContext self) -> std::string"""
926 return _IMP_kernel.WarningContext___str__(self)
929 r"""__repr__(WarningContext self) -> std::string"""
930 return _IMP_kernel.WarningContext___repr__(self)
933 r"""__init__(WarningContext self) -> WarningContext"""
934 _IMP_kernel.WarningContext_swiginit(self, _IMP_kernel.new_WarningContext())
937 _IMP_kernel.WarningContext_swigregister(WarningContext)
938 class CreateLogContext(_RAII):
939 r"""Proxy of C++ IMP::CreateLogContext class."""
941 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
943 def __init__(self, *args):
945 __init__(CreateLogContext self, std::string fname, Object object=None) -> CreateLogContext
946 __init__(CreateLogContext self) -> CreateLogContext
947 __init__(CreateLogContext self, char const * fname, Object object=None) -> CreateLogContext
949 _IMP_kernel.CreateLogContext_swiginit(self, _IMP_kernel.new_CreateLogContext(*args))
951 def set(self, fname, object=None):
952 r"""set(CreateLogContext self, char const * fname, Object object=None)"""
953 return _IMP_kernel.CreateLogContext_set(self, fname, object)
956 r"""reset(CreateLogContext self)"""
957 return _IMP_kernel.CreateLogContext_reset(self)
958 __swig_destroy__ = _IMP_kernel.delete_CreateLogContext
960 def show(self, *args):
961 r"""show(CreateLogContext self, _ostream out=std::cout)"""
962 return _IMP_kernel.CreateLogContext_show(self, *args)
966 def __exit__(self, exc_type, exc_val, exc_tb):
972 r"""__str__(CreateLogContext self) -> std::string"""
973 return _IMP_kernel.CreateLogContext___str__(self)
976 r"""__repr__(CreateLogContext self) -> std::string"""
977 return _IMP_kernel.CreateLogContext___repr__(self)
980 _IMP_kernel.CreateLogContext_swigregister(CreateLogContext)
981 class SetCheckState(_RAII):
982 r"""Proxy of C++ IMP::SetCheckState class."""
984 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
987 r"""reset(SetCheckState self)"""
988 return _IMP_kernel.SetCheckState_reset(self)
989 __swig_destroy__ = _IMP_kernel.delete_SetCheckState
991 def show(self, *args):
992 r"""show(SetCheckState self, _ostream out=std::cout)"""
993 return _IMP_kernel.SetCheckState_show(self, *args)
995 def __init__(self, *args):
997 __init__(SetCheckState self) -> SetCheckState
998 __init__(SetCheckState self, Object o, IMP::CheckLevel l) -> SetCheckState
999 __init__(SetCheckState self, IMP::CheckLevel l) -> SetCheckState
1001 _IMP_kernel.SetCheckState_swiginit(self, _IMP_kernel.new_SetCheckState(*args))
1003 def set(self, *args):
1005 set(SetCheckState self, Object o, IMP::CheckLevel l)
1006 set(SetCheckState self, IMP::CheckLevel l)
1008 return _IMP_kernel.SetCheckState_set(self, *args)
1010 def __enter__(self):
1012 def __exit__(self, exc_type, exc_val, exc_tb):
1018 r"""__str__(SetCheckState self) -> std::string"""
1019 return _IMP_kernel.SetCheckState___str__(self)
1022 r"""__repr__(SetCheckState self) -> std::string"""
1023 return _IMP_kernel.SetCheckState___repr__(self)
1026 _IMP_kernel.SetCheckState_swigregister(SetCheckState)
1029 r"""get_unique_name(std::string templ) -> std::string"""
1030 return _IMP_kernel.get_unique_name(templ)
1033 r"""get_copyright() -> std::string"""
1034 return _IMP_kernel.get_copyright()
1035 class _Protection(object):
1036 r"""Proxy of C++ IMP::internal::_Protection class."""
1038 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
1040 def __init__(self, *args, **kwargs):
1041 raise AttributeError(
"No constructor defined")
1043 def show(self, *args):
1044 r"""show(_Protection self, _ostream out=std::cout)"""
1045 return _IMP_kernel._Protection_show(self, *args)
1048 r"""__str__(_Protection self) -> std::string"""
1049 return _IMP_kernel._Protection___str__(self)
1052 r"""__repr__(_Protection self) -> std::string"""
1053 return _IMP_kernel._Protection___repr__(self)
1054 __swig_destroy__ = _IMP_kernel.delete__Protection
1057 _IMP_kernel._Protection_swigregister(_Protection)
1061 return _IMP_kernel._test_log()
1063 def _test_intranges(ips):
1064 r"""_test_intranges(IMP::IntRanges const & ips) -> int"""
1065 return _IMP_kernel._test_intranges(ips)
1067 def _test_intrange(*args):
1069 _test_intrange(IMP::IntRange const & ips) -> IMP::IntRange
1070 _test_intrange() -> IMP::IntRange
1072 return _IMP_kernel._test_intrange(*args)
1075 r"""_test_ifile(TextInput a) -> std::string"""
1076 return _IMP_kernel._test_ifile(a)
1079 r"""_test_ofile(TextOutput a) -> std::string"""
1080 return _IMP_kernel._test_ofile(a)
1082 def _test_ifile_overloaded(*args):
1084 _test_ifile_overloaded(TextInput a, int i) -> std::string
1085 _test_ifile_overloaded(TextInput a, std::string st) -> std::string
1087 return _IMP_kernel._test_ifile_overloaded(*args)
1089 def _test_ofile_overloaded(*args):
1091 _test_ofile_overloaded(TextOutput a, int i) -> std::string
1092 _test_ofile_overloaded(TextOutput a, std::string st) -> std::string
1094 return _IMP_kernel._test_ofile_overloaded(*args)
1095 class _TestValue(object):
1096 r"""Proxy of C++ IMP::internal::_TestValue class."""
1098 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
1100 def __init__(self, i):
1101 r"""__init__(_TestValue self, int i) -> _TestValue"""
1102 _IMP_kernel._TestValue_swiginit(self, _IMP_kernel.new__TestValue(i))
1104 def show(self, *args):
1105 r"""show(_TestValue self, _ostream out=std::cout)"""
1106 return _IMP_kernel._TestValue_show(self, *args)
1108 def __cmp__(self, o):
1109 r"""__cmp__(_TestValue self, _TestValue o) -> int"""
1110 return _IMP_kernel._TestValue___cmp__(self, o)
1112 def __eq__(self, o):
1113 r"""__eq__(_TestValue self, _TestValue o) -> bool"""
1114 return _IMP_kernel._TestValue___eq__(self, o)
1116 def __ne__(self, o):
1117 r"""__ne__(_TestValue self, _TestValue o) -> bool"""
1118 return _IMP_kernel._TestValue___ne__(self, o)
1120 def __lt__(self, o):
1121 r"""__lt__(_TestValue self, _TestValue o) -> bool"""
1122 return _IMP_kernel._TestValue___lt__(self, o)
1124 def __gt__(self, o):
1125 r"""__gt__(_TestValue self, _TestValue o) -> bool"""
1126 return _IMP_kernel._TestValue___gt__(self, o)
1128 def __ge__(self, o):
1129 r"""__ge__(_TestValue self, _TestValue o) -> bool"""
1130 return _IMP_kernel._TestValue___ge__(self, o)
1132 def __le__(self, o):
1133 r"""__le__(_TestValue self, _TestValue o) -> bool"""
1134 return _IMP_kernel._TestValue___le__(self, o)
1137 r"""get(_TestValue self) -> int"""
1138 return _IMP_kernel._TestValue_get(self)
1140 def get_float(self):
1141 r"""get_float(_TestValue self) -> float const &"""
1142 return _IMP_kernel._TestValue_get_float(self)
1144 def get_double(self):
1145 r"""get_double(_TestValue self) -> double const &"""
1146 return _IMP_kernel._TestValue_get_double(self)
1148 def get_Float(self):
1149 r"""get_Float(_TestValue self) -> IMP::Float const &"""
1150 return _IMP_kernel._TestValue_get_Float(self)
1153 r"""get_int(_TestValue self) -> int const &"""
1154 return _IMP_kernel._TestValue_get_int(self)
1157 r"""get_Int(_TestValue self) -> IMP::Int const &"""
1158 return _IMP_kernel._TestValue_get_Int(self)
1160 def get_string(self):
1161 r"""get_string(_TestValue self) -> std::string const &"""
1162 return _IMP_kernel._TestValue_get_string(self)
1164 def get_String(self):
1165 r"""get_String(_TestValue self) -> IMP::String const &"""
1166 return _IMP_kernel._TestValue_get_String(self)
1169 r"""__str__(_TestValue self) -> std::string"""
1170 return _IMP_kernel._TestValue___str__(self)
1173 r"""__repr__(_TestValue self) -> std::string"""
1174 return _IMP_kernel._TestValue___repr__(self)
1175 __swig_destroy__ = _IMP_kernel.delete__TestValue
1178 _IMP_kernel._TestValue_swigregister(_TestValue)
1180 def _pass_plain_pair(p):
1181 r"""_pass_plain_pair(IMP::FloatPair p) -> IMP::FloatPair"""
1182 return _IMP_kernel._pass_plain_pair(p)
1184 def _pass_overloaded_strings(*args):
1186 _pass_overloaded_strings(IMP::Strings const & a, int arg2) -> IMP::Strings
1187 _pass_overloaded_strings(IMP::Strings const & a) -> IMP::Strings
1189 return _IMP_kernel._pass_overloaded_strings(*args)
1192 r"""_pass_pair(IMP::DerivativePair const & p) -> IMP::DerivativePair"""
1193 return _IMP_kernel._pass_pair(p)
1195 def _pass_floats(input):
1196 r"""_pass_floats(IMP::Floats const & input) -> IMP::Floats"""
1197 return _IMP_kernel._pass_floats(input)
1199 def _pass_ints(input):
1200 r"""_pass_ints(IMP::Ints input) -> IMP::Ints"""
1201 return _IMP_kernel._pass_ints(input)
1203 def _pass_ints_list(input):
1204 r"""_pass_ints_list(IMP::IntsList const & input) -> IMP::IntsList"""
1205 return _IMP_kernel._pass_ints_list(input)
1207 def _pass_ints_lists(input):
1208 r"""_pass_ints_lists(IMP::IntsLists const & input) -> IMP::IntsLists"""
1209 return _IMP_kernel._pass_ints_lists(input)
1211 def _pass_strings(input):
1212 r"""_pass_strings(IMP::Strings const & input) -> IMP::Strings const &"""
1213 return _IMP_kernel._pass_strings(input)
1214 class _TestObject(Object):
1215 r"""Proxy of C++ IMP::internal::_TestObject class."""
1217 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
1220 r"""__init__(_TestObject self) -> _TestObject"""
1221 _IMP_kernel._TestObject_swiginit(self, _IMP_kernel.new__TestObject())
1223 def get_version_info(self):
1224 r"""get_version_info(_TestObject self) -> VersionInfo"""
1225 return _IMP_kernel._TestObject_get_version_info(self)
1226 __swig_destroy__ = _IMP_kernel.delete__TestObject
1229 r"""__str__(_TestObject self) -> std::string"""
1230 return _IMP_kernel._TestObject___str__(self)
1233 r"""__repr__(_TestObject self) -> std::string"""
1234 return _IMP_kernel._TestObject___repr__(self)
1238 return _object_cast_to__TestObject(o)
1242 _IMP_kernel._TestObject_swigregister(_TestObject)
1245 r"""get_live_object_names() -> IMP::Strings"""
1246 return _IMP_kernel.get_live_object_names()
1249 r"""get_live_objects() -> IMP::Objects"""
1250 return _IMP_kernel.get_live_objects()
1253 r"""set_show_leaked_objects(bool tf)"""
1254 return _IMP_kernel.set_show_leaked_objects(tf)
1257 r"""set_deprecation_warnings(bool tf)"""
1258 return _IMP_kernel.set_deprecation_warnings(tf)
1261 r"""set_deprecation_exceptions(bool tf)"""
1262 return _IMP_kernel.set_deprecation_exceptions(tf)
1265 r"""get_deprecation_exceptions() -> bool"""
1266 return _IMP_kernel.get_deprecation_exceptions()
1269 r"""handle_use_deprecated(std::string message)"""
1270 return _IMP_kernel.handle_use_deprecated(message)
1273 r"""get_number_of_threads() -> unsigned int"""
1274 return _IMP_kernel.get_number_of_threads()
1277 r"""set_number_of_threads(unsigned int n)"""
1278 return _IMP_kernel.set_number_of_threads(n)
1279 class SetNumberOfThreads(_RAII):
1280 r"""Proxy of C++ IMP::SetNumberOfThreads class."""
1282 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
1284 def __init__(self, *args):
1286 __init__(SetNumberOfThreads self) -> SetNumberOfThreads
1287 __init__(SetNumberOfThreads self, unsigned int n) -> SetNumberOfThreads
1289 _IMP_kernel.SetNumberOfThreads_swiginit(self, _IMP_kernel.new_SetNumberOfThreads(*args))
1292 r"""set(SetNumberOfThreads self, unsigned int n)"""
1293 return _IMP_kernel.SetNumberOfThreads_set(self, n)
1296 r"""reset(SetNumberOfThreads self)"""
1297 return _IMP_kernel.SetNumberOfThreads_reset(self)
1298 __swig_destroy__ = _IMP_kernel.delete_SetNumberOfThreads
1300 def show(self, *args):
1301 r"""show(SetNumberOfThreads self, _ostream out=std::cout)"""
1302 return _IMP_kernel.SetNumberOfThreads_show(self, *args)
1304 def __enter__(self):
1306 def __exit__(self, exc_type, exc_val, exc_tb):
1312 r"""__str__(SetNumberOfThreads self) -> std::string"""
1313 return _IMP_kernel.SetNumberOfThreads___str__(self)
1316 r"""__repr__(SetNumberOfThreads self) -> std::string"""
1317 return _IMP_kernel.SetNumberOfThreads___repr__(self)
1320 _IMP_kernel.SetNumberOfThreads_swigregister(SetNumberOfThreads)
1323 i_m_p=
"IMP_MODULE_PATH"
1324 if i_m_p
in os.environ.keys():
1325 __path__.insert(0, os.environ[i_m_p])
1327 def _forward_add_attribute(self, name, value, opt=None):
1329 self.get_particle().add_attribute(name, value, opt)
1331 self.get_particle().add_attribute(name, value)
1332 def _forward_get_value(self, name):
1333 self.get_particle().get_value(name)
1334 def _forward_set_value(self, name, value):
1335 self.get_particle().set_value(name, value)
1341 _object_types.append(
"Constraint")
1344 def _object_cast_to_Constraint(o):
1345 r"""_object_cast_to_Constraint(Object o) -> Constraint"""
1346 return _IMP_kernel._object_cast_to_Constraint(o)
1348 _object_types.append(
"Undecorator")
1351 def _object_cast_to_Undecorator(o):
1352 r"""_object_cast_to_Undecorator(Object o) -> Undecorator"""
1353 return _IMP_kernel._object_cast_to_Undecorator(o)
1355 _object_types.append(
"Container")
1358 def _object_cast_to_Container(o):
1359 r"""_object_cast_to_Container(Object o) -> Container"""
1360 return _IMP_kernel._object_cast_to_Container(o)
1362 _object_types.append(
"Optimizer")
1365 def _object_cast_to_Optimizer(o):
1366 r"""_object_cast_to_Optimizer(Object o) -> Optimizer"""
1367 return _IMP_kernel._object_cast_to_Optimizer(o)
1369 _object_types.append(
"AttributeOptimizer")
1372 def _object_cast_to_AttributeOptimizer(o):
1373 r"""_object_cast_to_AttributeOptimizer(Object o) -> AttributeOptimizer"""
1374 return _IMP_kernel._object_cast_to_AttributeOptimizer(o)
1376 _object_types.append(
"OptimizerState")
1379 def _object_cast_to_OptimizerState(o):
1380 r"""_object_cast_to_OptimizerState(Object o) -> OptimizerState"""
1381 return _IMP_kernel._object_cast_to_OptimizerState(o)
1383 _object_types.append(
"PairContainer")
1386 def _object_cast_to_PairContainer(o):
1387 r"""_object_cast_to_PairContainer(Object o) -> PairContainer"""
1388 return _IMP_kernel._object_cast_to_PairContainer(o)
1390 _object_types.append(
"PairModifier")
1393 def _object_cast_to_PairModifier(o):
1394 r"""_object_cast_to_PairModifier(Object o) -> PairModifier"""
1395 return _IMP_kernel._object_cast_to_PairModifier(o)
1397 _object_types.append(
"PairScore")
1400 def _object_cast_to_PairScore(o):
1401 r"""_object_cast_to_PairScore(Object o) -> PairScore"""
1402 return _IMP_kernel._object_cast_to_PairScore(o)
1404 _object_types.append(
"QuadContainer")
1407 def _object_cast_to_QuadContainer(o):
1408 r"""_object_cast_to_QuadContainer(Object o) -> QuadContainer"""
1409 return _IMP_kernel._object_cast_to_QuadContainer(o)
1411 _object_types.append(
"QuadModifier")
1414 def _object_cast_to_QuadModifier(o):
1415 r"""_object_cast_to_QuadModifier(Object o) -> QuadModifier"""
1416 return _IMP_kernel._object_cast_to_QuadModifier(o)
1418 _object_types.append(
"QuadScore")
1421 def _object_cast_to_QuadScore(o):
1422 r"""_object_cast_to_QuadScore(Object o) -> QuadScore"""
1423 return _IMP_kernel._object_cast_to_QuadScore(o)
1425 _object_types.append(
"Refiner")
1428 def _object_cast_to_Refiner(o):
1429 r"""_object_cast_to_Refiner(Object o) -> Refiner"""
1430 return _IMP_kernel._object_cast_to_Refiner(o)
1432 _object_types.append(
"Restraint")
1435 def _object_cast_to_Restraint(o):
1436 r"""_object_cast_to_Restraint(Object o) -> Restraint"""
1437 return _IMP_kernel._object_cast_to_Restraint(o)
1439 _object_types.append(
"Sampler")
1442 def _object_cast_to_Sampler(o):
1443 r"""_object_cast_to_Sampler(Object o) -> Sampler"""
1444 return _IMP_kernel._object_cast_to_Sampler(o)
1446 _object_types.append(
"ScoreState")
1449 def _object_cast_to_ScoreState(o):
1450 r"""_object_cast_to_ScoreState(Object o) -> ScoreState"""
1451 return _IMP_kernel._object_cast_to_ScoreState(o)
1453 _object_types.append(
"SingletonContainer")
1456 def _object_cast_to_SingletonContainer(o):
1457 r"""_object_cast_to_SingletonContainer(Object o) -> SingletonContainer"""
1458 return _IMP_kernel._object_cast_to_SingletonContainer(o)
1460 _object_types.append(
"SingletonModifier")
1463 def _object_cast_to_SingletonModifier(o):
1464 r"""_object_cast_to_SingletonModifier(Object o) -> SingletonModifier"""
1465 return _IMP_kernel._object_cast_to_SingletonModifier(o)
1467 _object_types.append(
"SingletonScore")
1470 def _object_cast_to_SingletonScore(o):
1471 r"""_object_cast_to_SingletonScore(Object o) -> SingletonScore"""
1472 return _IMP_kernel._object_cast_to_SingletonScore(o)
1474 _object_types.append(
"TripletContainer")
1477 def _object_cast_to_TripletContainer(o):
1478 r"""_object_cast_to_TripletContainer(Object o) -> TripletContainer"""
1479 return _IMP_kernel._object_cast_to_TripletContainer(o)
1481 _object_types.append(
"TripletModifier")
1484 def _object_cast_to_TripletModifier(o):
1485 r"""_object_cast_to_TripletModifier(Object o) -> TripletModifier"""
1486 return _IMP_kernel._object_cast_to_TripletModifier(o)
1488 _object_types.append(
"TripletScore")
1491 def _object_cast_to_TripletScore(o):
1492 r"""_object_cast_to_TripletScore(Object o) -> TripletScore"""
1493 return _IMP_kernel._object_cast_to_TripletScore(o)
1495 _object_types.append(
"UnaryFunction")
1498 def _object_cast_to_UnaryFunction(o):
1499 r"""_object_cast_to_UnaryFunction(Object o) -> UnaryFunction"""
1500 return _IMP_kernel._object_cast_to_UnaryFunction(o)
1502 _object_types.append(
"RestraintInfo")
1505 def _object_cast_to_RestraintInfo(o):
1506 r"""_object_cast_to_RestraintInfo(Object o) -> RestraintInfo"""
1507 return _IMP_kernel._object_cast_to_RestraintInfo(o)
1509 _object_types.append(
"ConfigurationSet")
1512 def _object_cast_to_ConfigurationSet(o):
1513 r"""_object_cast_to_ConfigurationSet(Object o) -> ConfigurationSet"""
1514 return _IMP_kernel._object_cast_to_ConfigurationSet(o)
1516 _object_types.append(
"Configuration")
1519 def _object_cast_to_Configuration(o):
1520 r"""_object_cast_to_Configuration(Object o) -> Configuration"""
1521 return _IMP_kernel._object_cast_to_Configuration(o)
1523 _object_types.append(
"Model")
1526 def _object_cast_to_Model(o):
1527 r"""_object_cast_to_Model(Object o) -> Model"""
1528 return _IMP_kernel._object_cast_to_Model(o)
1530 _object_types.append(
"Particle")
1533 def _object_cast_to_Particle(o):
1534 r"""_object_cast_to_Particle(Object o) -> Particle"""
1535 return _IMP_kernel._object_cast_to_Particle(o)
1537 _object_types.append(
"RestraintSet")
1540 def _object_cast_to_RestraintSet(o):
1541 r"""_object_cast_to_RestraintSet(Object o) -> RestraintSet"""
1542 return _IMP_kernel._object_cast_to_RestraintSet(o)
1544 ParticlePairsTemp=list
1545 _plural_types.append(
"ParticlePairsTemp")
1546 _value_types.append(
"ParticlePair")
1549 ParticleTripletsTemp=list
1550 _plural_types.append(
"ParticleTripletsTemp")
1551 _value_types.append(
"ParticleTriplet")
1554 ParticleQuadsTemp=list
1555 _plural_types.append(
"ParticleQuadsTemp")
1556 _value_types.append(
"ParticleQuad")
1559 ParticleIndexPairs=list
1560 _plural_types.append(
"ParticleIndexPairs")
1561 _value_types.append(
"ParticleIndexPair")
1564 ParticleIndexTriplets=list
1565 _plural_types.append(
"ParticleIndexTriplets")
1566 _value_types.append(
"ParticleIndexTriplet")
1569 ParticleIndexQuads=list
1570 _plural_types.append(
"ParticleIndexQuads")
1571 _value_types.append(
"ParticleIndexQuad")
1574 _object_types.append(
"SingletonPredicate")
1577 def _object_cast_to_SingletonPredicate(o):
1578 r"""_object_cast_to_SingletonPredicate(Object o) -> SingletonPredicate"""
1579 return _IMP_kernel._object_cast_to_SingletonPredicate(o)
1581 _object_types.append(
"PairPredicate")
1584 def _object_cast_to_PairPredicate(o):
1585 r"""_object_cast_to_PairPredicate(Object o) -> PairPredicate"""
1586 return _IMP_kernel._object_cast_to_PairPredicate(o)
1588 _object_types.append(
"TripletPredicate")
1591 def _object_cast_to_TripletPredicate(o):
1592 r"""_object_cast_to_TripletPredicate(Object o) -> TripletPredicate"""
1593 return _IMP_kernel._object_cast_to_TripletPredicate(o)
1595 _object_types.append(
"QuadPredicate")
1598 def _object_cast_to_QuadPredicate(o):
1599 r"""_object_cast_to_QuadPredicate(Object o) -> QuadPredicate"""
1600 return _IMP_kernel._object_cast_to_QuadPredicate(o)
1602 _object_types.append(
"SaveToConfigurationSetOptimizerState")
1605 def _object_cast_to_SaveToConfigurationSetOptimizerState(o):
1606 r"""_object_cast_to_SaveToConfigurationSetOptimizerState(Object o) -> SaveToConfigurationSetOptimizerState"""
1607 return _IMP_kernel._object_cast_to_SaveToConfigurationSetOptimizerState(o)
1609 EvaluationStates=list
1610 _plural_types.append(
"EvaluationStates")
1611 _value_types.append(
"EvaluationState")
1614 ScoreAccumulators=list
1615 _plural_types.append(
"ScoreAccumulators")
1616 _value_types.append(
"ScoreAccumulator")
1619 ParticleIndexes=list
1620 _plural_types.append(
"ParticleIndexes")
1621 _value_types.append(
"ParticleIndex")
1625 _plural_types.append(
"FloatIndexes")
1626 _value_types.append(
"FloatIndex")
1630 _plural_types.append(
"FloatKeys")
1631 _value_types.append(
"FloatKey")
1635 _plural_types.append(
"FloatsKeys")
1636 _value_types.append(
"FloatsKey")
1640 _plural_types.append(
"IntKeys")
1641 _value_types.append(
"IntKey")
1645 _plural_types.append(
"IntsKeys")
1646 _value_types.append(
"IntsKey")
1650 _plural_types.append(
"StringKeys")
1651 _value_types.append(
"StringKey")
1654 ParticleIndexKeys=list
1655 _plural_types.append(
"ParticleIndexKeys")
1656 _value_types.append(
"ParticleIndexKey")
1659 ParticleIndexesKeys=list
1660 _plural_types.append(
"ParticleIndexesKeys")
1661 _value_types.append(
"ParticleIndexesKey")
1665 _plural_types.append(
"ObjectKeys")
1666 _value_types.append(
"ObjectKey")
1670 _plural_types.append(
"ModelKeys")
1671 _value_types.append(
"ModelKey")
1675 _plural_types.append(
"TriggerKeys")
1676 _value_types.append(
"TriggerKey")
1679 SparseFloatKeys=list
1680 _plural_types.append(
"SparseFloatKeys")
1681 _value_types.append(
"SparseFloatKey")
1685 _plural_types.append(
"SparseIntKeys")
1686 _value_types.append(
"SparseIntKey")
1689 SparseStringKeys=list
1690 _plural_types.append(
"SparseStringKeys")
1691 _value_types.append(
"SparseStringKey")
1694 SparseParticleIndexKeys=list
1695 _plural_types.append(
"SparseParticleIndexKeys")
1696 _value_types.append(
"SparseParticleIndexKey")
1699 _raii_types.append(
"ScopedSetFloatAttribute")
1702 _object_types.append(
"ScoringFunction")
1705 def _object_cast_to_ScoringFunction(o):
1706 r"""_object_cast_to_ScoringFunction(Object o) -> ScoringFunction"""
1707 return _IMP_kernel._object_cast_to_ScoringFunction(o)
1709 _object_types.append(
"ModelObject")
1712 def _object_cast_to_ModelObject(o):
1713 r"""_object_cast_to_ModelObject(Object o) -> ModelObject"""
1714 return _IMP_kernel._object_cast_to_ModelObject(o)
1716 def _TrivialDecorators(l=[]):
1717 return [_TrivialDecorator(x)
for x
in l]
1718 _plural_types.append(
"_TrivialDecorators")
1721 _value_types.append(
"_TrivialDecorator")
1724 def _TrivialDerivedDecorators(l=[]):
1725 return [_TrivialDerivedDecorator(x)
for x
in l]
1726 _plural_types.append(
"_TrivialDerivedDecorators")
1729 _value_types.append(
"_TrivialDerivedDecorator")
1732 def _TrivialTraitsDecorators(l=[]):
1733 return [_TrivialTraitsDecorator(x)
for x
in l]
1734 _plural_types.append(
"_TrivialTraitsDecorators")
1737 _value_types.append(
"_TrivialTraitsDecorator")
1740 _object_types.append(
"_ConstRestraint")
1743 def _object_cast_to__ConstRestraint(o):
1744 r"""_object_cast_to__ConstRestraint(Object o) -> _ConstRestraint"""
1745 return _IMP_kernel._object_cast_to__ConstRestraint(o)
1747 _object_types.append(
"_ConstOptimizer")
1750 def _object_cast_to__ConstOptimizer(o):
1751 r"""_object_cast_to__ConstOptimizer(Object o) -> _ConstOptimizer"""
1752 return _IMP_kernel._object_cast_to__ConstOptimizer(o)
1754 _object_types.append(
"_ConstSingletonScore")
1757 def _object_cast_to__ConstSingletonScore(o):
1758 r"""_object_cast_to__ConstSingletonScore(Object o) -> _ConstSingletonScore"""
1759 return _IMP_kernel._object_cast_to__ConstSingletonScore(o)
1761 _object_types.append(
"_ConstPairScore")
1764 def _object_cast_to__ConstPairScore(o):
1765 r"""_object_cast_to__ConstPairScore(Object o) -> _ConstPairScore"""
1766 return _IMP_kernel._object_cast_to__ConstPairScore(o)
1768 r"""Proxy of C++ IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex > class."""
1770 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
1771 __repr__ = _swig_repr
1774 r"""__init__(DependencyGraph self) -> DependencyGraph"""
1775 _IMP_kernel.DependencyGraph_swiginit(self, _IMP_kernel.new_DependencyGraph())
1777 def get_graph(self):
1778 r"""get_graph(DependencyGraph self) -> IMP::DependencyGraph const &"""
1779 return _IMP_kernel.DependencyGraph_get_graph(self)
1782 r"""get_vertices(DependencyGraph self) -> IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptors"""
1783 return _IMP_kernel.DependencyGraph_get_vertices(self)
1785 def get_vertex_name(self, i):
1786 r"""get_vertex_name(DependencyGraph self, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor i) -> ModelObject"""
1787 return _IMP_kernel.DependencyGraph_get_vertex_name(self, i)
1789 def get_in_neighbors(self, v):
1790 r"""get_in_neighbors(DependencyGraph self, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor v) -> IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptors"""
1791 return _IMP_kernel.DependencyGraph_get_in_neighbors(self, v)
1793 def get_out_neighbors(self, v):
1794 r"""get_out_neighbors(DependencyGraph self, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor v) -> IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptors"""
1795 return _IMP_kernel.DependencyGraph_get_out_neighbors(self, v)
1798 r"""show_graphviz(DependencyGraph self, _ostream out=std::cout)"""
1799 return _IMP_kernel.DependencyGraph_show_graphviz(self, *args)
1801 def get_graphviz_string(self):
1802 r"""get_graphviz_string(DependencyGraph self) -> std::string"""
1803 return _IMP_kernel.DependencyGraph_get_graphviz_string(self)
1805 def add_edge(self, v0, v1):
1806 r"""add_edge(DependencyGraph self, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor v0, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor v1)"""
1807 return _IMP_kernel.DependencyGraph_add_edge(self, v0, v1)
1809 def add_vertex(self, l):
1810 r"""add_vertex(DependencyGraph self, ModelObject l) -> IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor"""
1811 return _IMP_kernel.DependencyGraph_add_vertex(self, l)
1813 def remove_vertex(self, l):
1814 r"""remove_vertex(DependencyGraph self, IMP::internal::BoostDigraph< IMP::DependencyGraph,IMP::ModelObject *,IMP::ShowDependencyGraphVertex >::VertexDescriptor l)"""
1815 return _IMP_kernel.DependencyGraph_remove_vertex(self, l)
1816 __swig_destroy__ = _IMP_kernel.delete_DependencyGraph
1819 _IMP_kernel.DependencyGraph_swigregister(DependencyGraph)
1821 _value_types.append(
"DependencyGraph")
1824 r"""Proxy of C++ IMP::Key< 0 > class."""
1826 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
1828 def __init__(self, *args):
1830 __init__(FloatKey self) -> FloatKey
1831 __init__(FloatKey self, std::string const & c, bool is_implicit_add_permitted=True) -> FloatKey
1832 __init__(FloatKey self, unsigned int i) -> FloatKey
1834 _IMP_kernel.FloatKey_swiginit(self, _IMP_kernel.new_FloatKey(*args))
1838 r"""add_key(std::string sc) -> unsigned int"""
1839 return _IMP_kernel.FloatKey_add_key(sc)
1842 def get_key_exists(sc):
1843 r"""get_key_exists(std::string sc) -> bool"""
1844 return _IMP_kernel.FloatKey_get_key_exists(sc)
1846 def get_string(self):
1847 r"""get_string(FloatKey self) -> std::string const"""
1848 return _IMP_kernel.FloatKey_get_string(self)
1850 def __cmp__(self, o):
1851 r"""__cmp__(FloatKey self, FloatKey o) -> int"""
1852 return _IMP_kernel.FloatKey___cmp__(self, o)
1854 def __eq__(self, o):
1855 r"""__eq__(FloatKey self, FloatKey o) -> bool"""
1856 return _IMP_kernel.FloatKey___eq__(self, o)
1858 def __ne__(self, o):
1859 r"""__ne__(FloatKey self, FloatKey o) -> bool"""
1860 return _IMP_kernel.FloatKey___ne__(self, o)
1862 def __lt__(self, o):
1863 r"""__lt__(FloatKey self, FloatKey o) -> bool"""
1864 return _IMP_kernel.FloatKey___lt__(self, o)
1866 def __gt__(self, o):
1867 r"""__gt__(FloatKey self, FloatKey o) -> bool"""
1868 return _IMP_kernel.FloatKey___gt__(self, o)
1870 def __ge__(self, o):
1871 r"""__ge__(FloatKey self, FloatKey o) -> bool"""
1872 return _IMP_kernel.FloatKey___ge__(self, o)
1874 def __le__(self, o):
1875 r"""__le__(FloatKey self, FloatKey o) -> bool"""
1876 return _IMP_kernel.FloatKey___le__(self, o)
1879 r"""__hash__(FloatKey self) -> std::size_t"""
1880 return _IMP_kernel.FloatKey___hash__(self)
1882 def show(self, *args):
1883 r"""show(FloatKey self, _ostream out=std::cout)"""
1884 return _IMP_kernel.FloatKey_show(self, *args)
1887 def add_alias(old_key, new_name):
1888 r"""add_alias(FloatKey old_key, std::string new_name) -> FloatKey"""
1889 return _IMP_kernel.FloatKey_add_alias(old_key, new_name)
1892 def get_number_of_keys():
1893 r"""get_number_of_keys() -> unsigned int"""
1894 return _IMP_kernel.FloatKey_get_number_of_keys()
1897 r"""get_index(FloatKey self) -> unsigned int"""
1898 return _IMP_kernel.FloatKey_get_index(self)
1902 r"""show_all(_ostream out)"""
1903 return _IMP_kernel.FloatKey_show_all(out)
1906 def get_all_strings():
1907 r"""get_all_strings() -> IMP::Vector< std::string >"""
1908 return _IMP_kernel.FloatKey_get_all_strings()
1911 def get_number_unique():
1912 r"""get_number_unique() -> unsigned int"""
1913 return _IMP_kernel.FloatKey_get_number_unique()
1916 r"""__str__(FloatKey self) -> std::string"""
1917 return _IMP_kernel.FloatKey___str__(self)
1920 r"""__repr__(FloatKey self) -> std::string"""
1921 return _IMP_kernel.FloatKey___repr__(self)
1922 __swig_destroy__ = _IMP_kernel.delete_FloatKey
1925 _IMP_kernel.FloatKey_swigregister(FloatKey)
1927 r"""Proxy of C++ IMP::Key< 1 > class."""
1929 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
1931 def __init__(self, *args):
1933 __init__(IntKey self) -> IntKey
1934 __init__(IntKey self, std::string const & c, bool is_implicit_add_permitted=True) -> IntKey
1935 __init__(IntKey self, unsigned int i) -> IntKey
1937 _IMP_kernel.IntKey_swiginit(self, _IMP_kernel.new_IntKey(*args))
1941 r"""add_key(std::string sc) -> unsigned int"""
1942 return _IMP_kernel.IntKey_add_key(sc)
1945 def get_key_exists(sc):
1946 r"""get_key_exists(std::string sc) -> bool"""
1947 return _IMP_kernel.IntKey_get_key_exists(sc)
1949 def get_string(self):
1950 r"""get_string(IntKey self) -> std::string const"""
1951 return _IMP_kernel.IntKey_get_string(self)
1953 def __cmp__(self, o):
1954 r"""__cmp__(IntKey self, IntKey o) -> int"""
1955 return _IMP_kernel.IntKey___cmp__(self, o)
1957 def __eq__(self, o):
1958 r"""__eq__(IntKey self, IntKey o) -> bool"""
1959 return _IMP_kernel.IntKey___eq__(self, o)
1961 def __ne__(self, o):
1962 r"""__ne__(IntKey self, IntKey o) -> bool"""
1963 return _IMP_kernel.IntKey___ne__(self, o)
1965 def __lt__(self, o):
1966 r"""__lt__(IntKey self, IntKey o) -> bool"""
1967 return _IMP_kernel.IntKey___lt__(self, o)
1969 def __gt__(self, o):
1970 r"""__gt__(IntKey self, IntKey o) -> bool"""
1971 return _IMP_kernel.IntKey___gt__(self, o)
1973 def __ge__(self, o):
1974 r"""__ge__(IntKey self, IntKey o) -> bool"""
1975 return _IMP_kernel.IntKey___ge__(self, o)
1977 def __le__(self, o):
1978 r"""__le__(IntKey self, IntKey o) -> bool"""
1979 return _IMP_kernel.IntKey___le__(self, o)
1982 r"""__hash__(IntKey self) -> std::size_t"""
1983 return _IMP_kernel.IntKey___hash__(self)
1985 def show(self, *args):
1986 r"""show(IntKey self, _ostream out=std::cout)"""
1987 return _IMP_kernel.IntKey_show(self, *args)
1990 def add_alias(old_key, new_name):
1991 r"""add_alias(IntKey old_key, std::string new_name) -> IntKey"""
1992 return _IMP_kernel.IntKey_add_alias(old_key, new_name)
1995 def get_number_of_keys():
1996 r"""get_number_of_keys() -> unsigned int"""
1997 return _IMP_kernel.IntKey_get_number_of_keys()
2000 r"""get_index(IntKey self) -> unsigned int"""
2001 return _IMP_kernel.IntKey_get_index(self)
2005 r"""show_all(_ostream out)"""
2006 return _IMP_kernel.IntKey_show_all(out)
2009 def get_all_strings():
2010 r"""get_all_strings() -> IMP::Vector< std::string >"""
2011 return _IMP_kernel.IntKey_get_all_strings()
2014 def get_number_unique():
2015 r"""get_number_unique() -> unsigned int"""
2016 return _IMP_kernel.IntKey_get_number_unique()
2019 r"""__str__(IntKey self) -> std::string"""
2020 return _IMP_kernel.IntKey___str__(self)
2023 r"""__repr__(IntKey self) -> std::string"""
2024 return _IMP_kernel.IntKey___repr__(self)
2025 __swig_destroy__ = _IMP_kernel.delete_IntKey
2028 _IMP_kernel.IntKey_swigregister(IntKey)
2030 r"""Proxy of C++ IMP::Key< 2 > class."""
2032 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2034 def __init__(self, *args):
2036 __init__(StringKey self) -> StringKey
2037 __init__(StringKey self, std::string const & c, bool is_implicit_add_permitted=True) -> StringKey
2038 __init__(StringKey self, unsigned int i) -> StringKey
2040 _IMP_kernel.StringKey_swiginit(self, _IMP_kernel.new_StringKey(*args))
2044 r"""add_key(std::string sc) -> unsigned int"""
2045 return _IMP_kernel.StringKey_add_key(sc)
2048 def get_key_exists(sc):
2049 r"""get_key_exists(std::string sc) -> bool"""
2050 return _IMP_kernel.StringKey_get_key_exists(sc)
2052 def get_string(self):
2053 r"""get_string(StringKey self) -> std::string const"""
2054 return _IMP_kernel.StringKey_get_string(self)
2056 def __cmp__(self, o):
2057 r"""__cmp__(StringKey self, StringKey o) -> int"""
2058 return _IMP_kernel.StringKey___cmp__(self, o)
2060 def __eq__(self, o):
2061 r"""__eq__(StringKey self, StringKey o) -> bool"""
2062 return _IMP_kernel.StringKey___eq__(self, o)
2064 def __ne__(self, o):
2065 r"""__ne__(StringKey self, StringKey o) -> bool"""
2066 return _IMP_kernel.StringKey___ne__(self, o)
2068 def __lt__(self, o):
2069 r"""__lt__(StringKey self, StringKey o) -> bool"""
2070 return _IMP_kernel.StringKey___lt__(self, o)
2072 def __gt__(self, o):
2073 r"""__gt__(StringKey self, StringKey o) -> bool"""
2074 return _IMP_kernel.StringKey___gt__(self, o)
2076 def __ge__(self, o):
2077 r"""__ge__(StringKey self, StringKey o) -> bool"""
2078 return _IMP_kernel.StringKey___ge__(self, o)
2080 def __le__(self, o):
2081 r"""__le__(StringKey self, StringKey o) -> bool"""
2082 return _IMP_kernel.StringKey___le__(self, o)
2085 r"""__hash__(StringKey self) -> std::size_t"""
2086 return _IMP_kernel.StringKey___hash__(self)
2088 def show(self, *args):
2089 r"""show(StringKey self, _ostream out=std::cout)"""
2090 return _IMP_kernel.StringKey_show(self, *args)
2093 def add_alias(old_key, new_name):
2094 r"""add_alias(StringKey old_key, std::string new_name) -> StringKey"""
2095 return _IMP_kernel.StringKey_add_alias(old_key, new_name)
2098 def get_number_of_keys():
2099 r"""get_number_of_keys() -> unsigned int"""
2100 return _IMP_kernel.StringKey_get_number_of_keys()
2103 r"""get_index(StringKey self) -> unsigned int"""
2104 return _IMP_kernel.StringKey_get_index(self)
2108 r"""show_all(_ostream out)"""
2109 return _IMP_kernel.StringKey_show_all(out)
2112 def get_all_strings():
2113 r"""get_all_strings() -> IMP::Vector< std::string >"""
2114 return _IMP_kernel.StringKey_get_all_strings()
2117 def get_number_unique():
2118 r"""get_number_unique() -> unsigned int"""
2119 return _IMP_kernel.StringKey_get_number_unique()
2122 r"""__str__(StringKey self) -> std::string"""
2123 return _IMP_kernel.StringKey___str__(self)
2126 r"""__repr__(StringKey self) -> std::string"""
2127 return _IMP_kernel.StringKey___repr__(self)
2128 __swig_destroy__ = _IMP_kernel.delete_StringKey
2131 _IMP_kernel.StringKey_swigregister(StringKey)
2133 r"""Proxy of C++ IMP::Key< 3 > class."""
2135 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2137 def __init__(self, *args):
2139 __init__(ParticleIndexKey self) -> ParticleIndexKey
2140 __init__(ParticleIndexKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ParticleIndexKey
2141 __init__(ParticleIndexKey self, unsigned int i) -> ParticleIndexKey
2143 _IMP_kernel.ParticleIndexKey_swiginit(self, _IMP_kernel.new_ParticleIndexKey(*args))
2147 r"""add_key(std::string sc) -> unsigned int"""
2148 return _IMP_kernel.ParticleIndexKey_add_key(sc)
2151 def get_key_exists(sc):
2152 r"""get_key_exists(std::string sc) -> bool"""
2153 return _IMP_kernel.ParticleIndexKey_get_key_exists(sc)
2155 def get_string(self):
2156 r"""get_string(ParticleIndexKey self) -> std::string const"""
2157 return _IMP_kernel.ParticleIndexKey_get_string(self)
2159 def __cmp__(self, o):
2160 r"""__cmp__(ParticleIndexKey self, ParticleIndexKey o) -> int"""
2161 return _IMP_kernel.ParticleIndexKey___cmp__(self, o)
2163 def __eq__(self, o):
2164 r"""__eq__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2165 return _IMP_kernel.ParticleIndexKey___eq__(self, o)
2167 def __ne__(self, o):
2168 r"""__ne__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2169 return _IMP_kernel.ParticleIndexKey___ne__(self, o)
2171 def __lt__(self, o):
2172 r"""__lt__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2173 return _IMP_kernel.ParticleIndexKey___lt__(self, o)
2175 def __gt__(self, o):
2176 r"""__gt__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2177 return _IMP_kernel.ParticleIndexKey___gt__(self, o)
2179 def __ge__(self, o):
2180 r"""__ge__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2181 return _IMP_kernel.ParticleIndexKey___ge__(self, o)
2183 def __le__(self, o):
2184 r"""__le__(ParticleIndexKey self, ParticleIndexKey o) -> bool"""
2185 return _IMP_kernel.ParticleIndexKey___le__(self, o)
2188 r"""__hash__(ParticleIndexKey self) -> std::size_t"""
2189 return _IMP_kernel.ParticleIndexKey___hash__(self)
2191 def show(self, *args):
2192 r"""show(ParticleIndexKey self, _ostream out=std::cout)"""
2193 return _IMP_kernel.ParticleIndexKey_show(self, *args)
2196 def add_alias(old_key, new_name):
2197 r"""add_alias(ParticleIndexKey old_key, std::string new_name) -> ParticleIndexKey"""
2198 return _IMP_kernel.ParticleIndexKey_add_alias(old_key, new_name)
2201 def get_number_of_keys():
2202 r"""get_number_of_keys() -> unsigned int"""
2203 return _IMP_kernel.ParticleIndexKey_get_number_of_keys()
2206 r"""get_index(ParticleIndexKey self) -> unsigned int"""
2207 return _IMP_kernel.ParticleIndexKey_get_index(self)
2211 r"""show_all(_ostream out)"""
2212 return _IMP_kernel.ParticleIndexKey_show_all(out)
2215 def get_all_strings():
2216 r"""get_all_strings() -> IMP::Vector< std::string >"""
2217 return _IMP_kernel.ParticleIndexKey_get_all_strings()
2220 def get_number_unique():
2221 r"""get_number_unique() -> unsigned int"""
2222 return _IMP_kernel.ParticleIndexKey_get_number_unique()
2225 r"""__str__(ParticleIndexKey self) -> std::string"""
2226 return _IMP_kernel.ParticleIndexKey___str__(self)
2229 r"""__repr__(ParticleIndexKey self) -> std::string"""
2230 return _IMP_kernel.ParticleIndexKey___repr__(self)
2231 __swig_destroy__ = _IMP_kernel.delete_ParticleIndexKey
2234 _IMP_kernel.ParticleIndexKey_swigregister(ParticleIndexKey)
2236 r"""Proxy of C++ IMP::Key< 4 > class."""
2238 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2240 def __init__(self, *args):
2242 __init__(ObjectKey self) -> ObjectKey
2243 __init__(ObjectKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ObjectKey
2244 __init__(ObjectKey self, unsigned int i) -> ObjectKey
2246 _IMP_kernel.ObjectKey_swiginit(self, _IMP_kernel.new_ObjectKey(*args))
2250 r"""add_key(std::string sc) -> unsigned int"""
2251 return _IMP_kernel.ObjectKey_add_key(sc)
2254 def get_key_exists(sc):
2255 r"""get_key_exists(std::string sc) -> bool"""
2256 return _IMP_kernel.ObjectKey_get_key_exists(sc)
2258 def get_string(self):
2259 r"""get_string(ObjectKey self) -> std::string const"""
2260 return _IMP_kernel.ObjectKey_get_string(self)
2262 def __cmp__(self, o):
2263 r"""__cmp__(ObjectKey self, ObjectKey o) -> int"""
2264 return _IMP_kernel.ObjectKey___cmp__(self, o)
2266 def __eq__(self, o):
2267 r"""__eq__(ObjectKey self, ObjectKey o) -> bool"""
2268 return _IMP_kernel.ObjectKey___eq__(self, o)
2270 def __ne__(self, o):
2271 r"""__ne__(ObjectKey self, ObjectKey o) -> bool"""
2272 return _IMP_kernel.ObjectKey___ne__(self, o)
2274 def __lt__(self, o):
2275 r"""__lt__(ObjectKey self, ObjectKey o) -> bool"""
2276 return _IMP_kernel.ObjectKey___lt__(self, o)
2278 def __gt__(self, o):
2279 r"""__gt__(ObjectKey self, ObjectKey o) -> bool"""
2280 return _IMP_kernel.ObjectKey___gt__(self, o)
2282 def __ge__(self, o):
2283 r"""__ge__(ObjectKey self, ObjectKey o) -> bool"""
2284 return _IMP_kernel.ObjectKey___ge__(self, o)
2286 def __le__(self, o):
2287 r"""__le__(ObjectKey self, ObjectKey o) -> bool"""
2288 return _IMP_kernel.ObjectKey___le__(self, o)
2291 r"""__hash__(ObjectKey self) -> std::size_t"""
2292 return _IMP_kernel.ObjectKey___hash__(self)
2294 def show(self, *args):
2295 r"""show(ObjectKey self, _ostream out=std::cout)"""
2296 return _IMP_kernel.ObjectKey_show(self, *args)
2299 def add_alias(old_key, new_name):
2300 r"""add_alias(ObjectKey old_key, std::string new_name) -> ObjectKey"""
2301 return _IMP_kernel.ObjectKey_add_alias(old_key, new_name)
2304 def get_number_of_keys():
2305 r"""get_number_of_keys() -> unsigned int"""
2306 return _IMP_kernel.ObjectKey_get_number_of_keys()
2309 r"""get_index(ObjectKey self) -> unsigned int"""
2310 return _IMP_kernel.ObjectKey_get_index(self)
2314 r"""show_all(_ostream out)"""
2315 return _IMP_kernel.ObjectKey_show_all(out)
2318 def get_all_strings():
2319 r"""get_all_strings() -> IMP::Vector< std::string >"""
2320 return _IMP_kernel.ObjectKey_get_all_strings()
2323 def get_number_unique():
2324 r"""get_number_unique() -> unsigned int"""
2325 return _IMP_kernel.ObjectKey_get_number_unique()
2328 r"""__str__(ObjectKey self) -> std::string"""
2329 return _IMP_kernel.ObjectKey___str__(self)
2332 r"""__repr__(ObjectKey self) -> std::string"""
2333 return _IMP_kernel.ObjectKey___repr__(self)
2334 __swig_destroy__ = _IMP_kernel.delete_ObjectKey
2337 _IMP_kernel.ObjectKey_swigregister(ObjectKey)
2339 r"""Proxy of C++ IMP::Key< 5 > class."""
2341 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2343 def __init__(self, *args):
2345 __init__(IntsKey self) -> IntsKey
2346 __init__(IntsKey self, std::string const & c, bool is_implicit_add_permitted=True) -> IntsKey
2347 __init__(IntsKey self, unsigned int i) -> IntsKey
2349 _IMP_kernel.IntsKey_swiginit(self, _IMP_kernel.new_IntsKey(*args))
2353 r"""add_key(std::string sc) -> unsigned int"""
2354 return _IMP_kernel.IntsKey_add_key(sc)
2357 def get_key_exists(sc):
2358 r"""get_key_exists(std::string sc) -> bool"""
2359 return _IMP_kernel.IntsKey_get_key_exists(sc)
2361 def get_string(self):
2362 r"""get_string(IntsKey self) -> std::string const"""
2363 return _IMP_kernel.IntsKey_get_string(self)
2365 def __cmp__(self, o):
2366 r"""__cmp__(IntsKey self, IntsKey o) -> int"""
2367 return _IMP_kernel.IntsKey___cmp__(self, o)
2369 def __eq__(self, o):
2370 r"""__eq__(IntsKey self, IntsKey o) -> bool"""
2371 return _IMP_kernel.IntsKey___eq__(self, o)
2373 def __ne__(self, o):
2374 r"""__ne__(IntsKey self, IntsKey o) -> bool"""
2375 return _IMP_kernel.IntsKey___ne__(self, o)
2377 def __lt__(self, o):
2378 r"""__lt__(IntsKey self, IntsKey o) -> bool"""
2379 return _IMP_kernel.IntsKey___lt__(self, o)
2381 def __gt__(self, o):
2382 r"""__gt__(IntsKey self, IntsKey o) -> bool"""
2383 return _IMP_kernel.IntsKey___gt__(self, o)
2385 def __ge__(self, o):
2386 r"""__ge__(IntsKey self, IntsKey o) -> bool"""
2387 return _IMP_kernel.IntsKey___ge__(self, o)
2389 def __le__(self, o):
2390 r"""__le__(IntsKey self, IntsKey o) -> bool"""
2391 return _IMP_kernel.IntsKey___le__(self, o)
2394 r"""__hash__(IntsKey self) -> std::size_t"""
2395 return _IMP_kernel.IntsKey___hash__(self)
2397 def show(self, *args):
2398 r"""show(IntsKey self, _ostream out=std::cout)"""
2399 return _IMP_kernel.IntsKey_show(self, *args)
2402 def add_alias(old_key, new_name):
2403 r"""add_alias(IntsKey old_key, std::string new_name) -> IntsKey"""
2404 return _IMP_kernel.IntsKey_add_alias(old_key, new_name)
2407 def get_number_of_keys():
2408 r"""get_number_of_keys() -> unsigned int"""
2409 return _IMP_kernel.IntsKey_get_number_of_keys()
2412 r"""get_index(IntsKey self) -> unsigned int"""
2413 return _IMP_kernel.IntsKey_get_index(self)
2417 r"""show_all(_ostream out)"""
2418 return _IMP_kernel.IntsKey_show_all(out)
2421 def get_all_strings():
2422 r"""get_all_strings() -> IMP::Vector< std::string >"""
2423 return _IMP_kernel.IntsKey_get_all_strings()
2426 def get_number_unique():
2427 r"""get_number_unique() -> unsigned int"""
2428 return _IMP_kernel.IntsKey_get_number_unique()
2431 r"""__str__(IntsKey self) -> std::string"""
2432 return _IMP_kernel.IntsKey___str__(self)
2435 r"""__repr__(IntsKey self) -> std::string"""
2436 return _IMP_kernel.IntsKey___repr__(self)
2437 __swig_destroy__ = _IMP_kernel.delete_IntsKey
2440 _IMP_kernel.IntsKey_swigregister(IntsKey)
2442 r"""Proxy of C++ IMP::Key< 6 > class."""
2444 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2446 def __init__(self, *args):
2448 __init__(ParticleIndexesKey self) -> ParticleIndexesKey
2449 __init__(ParticleIndexesKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ParticleIndexesKey
2450 __init__(ParticleIndexesKey self, unsigned int i) -> ParticleIndexesKey
2452 _IMP_kernel.ParticleIndexesKey_swiginit(self, _IMP_kernel.new_ParticleIndexesKey(*args))
2456 r"""add_key(std::string sc) -> unsigned int"""
2457 return _IMP_kernel.ParticleIndexesKey_add_key(sc)
2460 def get_key_exists(sc):
2461 r"""get_key_exists(std::string sc) -> bool"""
2462 return _IMP_kernel.ParticleIndexesKey_get_key_exists(sc)
2464 def get_string(self):
2465 r"""get_string(ParticleIndexesKey self) -> std::string const"""
2466 return _IMP_kernel.ParticleIndexesKey_get_string(self)
2468 def __cmp__(self, o):
2469 r"""__cmp__(ParticleIndexesKey self, ParticleIndexesKey o) -> int"""
2470 return _IMP_kernel.ParticleIndexesKey___cmp__(self, o)
2472 def __eq__(self, o):
2473 r"""__eq__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
2474 return _IMP_kernel.ParticleIndexesKey___eq__(self, o)
2476 def __ne__(self, o):
2477 r"""__ne__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
2478 return _IMP_kernel.ParticleIndexesKey___ne__(self, o)
2480 def __lt__(self, o):
2481 r"""__lt__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
2482 return _IMP_kernel.ParticleIndexesKey___lt__(self, o)
2484 def __gt__(self, o):
2485 r"""__gt__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
2486 return _IMP_kernel.ParticleIndexesKey___gt__(self, o)
2488 def __ge__(self, o):
2489 r"""__ge__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
2490 return _IMP_kernel.ParticleIndexesKey___ge__(self, o)
2492 def __le__(self, o):
2493 r"""__le__(ParticleIndexesKey self, ParticleIndexesKey o) -> bool"""
2494 return _IMP_kernel.ParticleIndexesKey___le__(self, o)
2497 r"""__hash__(ParticleIndexesKey self) -> std::size_t"""
2498 return _IMP_kernel.ParticleIndexesKey___hash__(self)
2500 def show(self, *args):
2501 r"""show(ParticleIndexesKey self, _ostream out=std::cout)"""
2502 return _IMP_kernel.ParticleIndexesKey_show(self, *args)
2505 def add_alias(old_key, new_name):
2506 r"""add_alias(ParticleIndexesKey old_key, std::string new_name) -> ParticleIndexesKey"""
2507 return _IMP_kernel.ParticleIndexesKey_add_alias(old_key, new_name)
2510 def get_number_of_keys():
2511 r"""get_number_of_keys() -> unsigned int"""
2512 return _IMP_kernel.ParticleIndexesKey_get_number_of_keys()
2515 r"""get_index(ParticleIndexesKey self) -> unsigned int"""
2516 return _IMP_kernel.ParticleIndexesKey_get_index(self)
2520 r"""show_all(_ostream out)"""
2521 return _IMP_kernel.ParticleIndexesKey_show_all(out)
2524 def get_all_strings():
2525 r"""get_all_strings() -> IMP::Vector< std::string >"""
2526 return _IMP_kernel.ParticleIndexesKey_get_all_strings()
2529 def get_number_unique():
2530 r"""get_number_unique() -> unsigned int"""
2531 return _IMP_kernel.ParticleIndexesKey_get_number_unique()
2534 r"""__str__(ParticleIndexesKey self) -> std::string"""
2535 return _IMP_kernel.ParticleIndexesKey___str__(self)
2538 r"""__repr__(ParticleIndexesKey self) -> std::string"""
2539 return _IMP_kernel.ParticleIndexesKey___repr__(self)
2540 __swig_destroy__ = _IMP_kernel.delete_ParticleIndexesKey
2543 _IMP_kernel.ParticleIndexesKey_swigregister(ParticleIndexesKey)
2545 r"""Proxy of C++ IMP::Key< 8 > class."""
2547 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2549 def __init__(self, *args):
2551 __init__(ModelKey self) -> ModelKey
2552 __init__(ModelKey self, std::string const & c, bool is_implicit_add_permitted=True) -> ModelKey
2553 __init__(ModelKey self, unsigned int i) -> ModelKey
2555 _IMP_kernel.ModelKey_swiginit(self, _IMP_kernel.new_ModelKey(*args))
2559 r"""add_key(std::string sc) -> unsigned int"""
2560 return _IMP_kernel.ModelKey_add_key(sc)
2563 def get_key_exists(sc):
2564 r"""get_key_exists(std::string sc) -> bool"""
2565 return _IMP_kernel.ModelKey_get_key_exists(sc)
2567 def get_string(self):
2568 r"""get_string(ModelKey self) -> std::string const"""
2569 return _IMP_kernel.ModelKey_get_string(self)
2571 def __cmp__(self, o):
2572 r"""__cmp__(ModelKey self, ModelKey o) -> int"""
2573 return _IMP_kernel.ModelKey___cmp__(self, o)
2575 def __eq__(self, o):
2576 r"""__eq__(ModelKey self, ModelKey o) -> bool"""
2577 return _IMP_kernel.ModelKey___eq__(self, o)
2579 def __ne__(self, o):
2580 r"""__ne__(ModelKey self, ModelKey o) -> bool"""
2581 return _IMP_kernel.ModelKey___ne__(self, o)
2583 def __lt__(self, o):
2584 r"""__lt__(ModelKey self, ModelKey o) -> bool"""
2585 return _IMP_kernel.ModelKey___lt__(self, o)
2587 def __gt__(self, o):
2588 r"""__gt__(ModelKey self, ModelKey o) -> bool"""
2589 return _IMP_kernel.ModelKey___gt__(self, o)
2591 def __ge__(self, o):
2592 r"""__ge__(ModelKey self, ModelKey o) -> bool"""
2593 return _IMP_kernel.ModelKey___ge__(self, o)
2595 def __le__(self, o):
2596 r"""__le__(ModelKey self, ModelKey o) -> bool"""
2597 return _IMP_kernel.ModelKey___le__(self, o)
2600 r"""__hash__(ModelKey self) -> std::size_t"""
2601 return _IMP_kernel.ModelKey___hash__(self)
2603 def show(self, *args):
2604 r"""show(ModelKey self, _ostream out=std::cout)"""
2605 return _IMP_kernel.ModelKey_show(self, *args)
2608 def add_alias(old_key, new_name):
2609 r"""add_alias(ModelKey old_key, std::string new_name) -> ModelKey"""
2610 return _IMP_kernel.ModelKey_add_alias(old_key, new_name)
2613 def get_number_of_keys():
2614 r"""get_number_of_keys() -> unsigned int"""
2615 return _IMP_kernel.ModelKey_get_number_of_keys()
2618 r"""get_index(ModelKey self) -> unsigned int"""
2619 return _IMP_kernel.ModelKey_get_index(self)
2623 r"""show_all(_ostream out)"""
2624 return _IMP_kernel.ModelKey_show_all(out)
2627 def get_all_strings():
2628 r"""get_all_strings() -> IMP::Vector< std::string >"""
2629 return _IMP_kernel.ModelKey_get_all_strings()
2632 def get_number_unique():
2633 r"""get_number_unique() -> unsigned int"""
2634 return _IMP_kernel.ModelKey_get_number_unique()
2637 r"""__str__(ModelKey self) -> std::string"""
2638 return _IMP_kernel.ModelKey___str__(self)
2641 r"""__repr__(ModelKey self) -> std::string"""
2642 return _IMP_kernel.ModelKey___repr__(self)
2643 __swig_destroy__ = _IMP_kernel.delete_ModelKey
2646 _IMP_kernel.ModelKey_swigregister(ModelKey)
2648 r"""Proxy of C++ IMP::Key< 11 > class."""
2650 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2652 def __init__(self, *args):
2654 __init__(TriggerKey self) -> TriggerKey
2655 __init__(TriggerKey self, std::string const & c, bool is_implicit_add_permitted=True) -> TriggerKey
2656 __init__(TriggerKey self, unsigned int i) -> TriggerKey
2658 _IMP_kernel.TriggerKey_swiginit(self, _IMP_kernel.new_TriggerKey(*args))
2662 r"""add_key(std::string sc) -> unsigned int"""
2663 return _IMP_kernel.TriggerKey_add_key(sc)
2666 def get_key_exists(sc):
2667 r"""get_key_exists(std::string sc) -> bool"""
2668 return _IMP_kernel.TriggerKey_get_key_exists(sc)
2670 def get_string(self):
2671 r"""get_string(TriggerKey self) -> std::string const"""
2672 return _IMP_kernel.TriggerKey_get_string(self)
2674 def __cmp__(self, o):
2675 r"""__cmp__(TriggerKey self, TriggerKey o) -> int"""
2676 return _IMP_kernel.TriggerKey___cmp__(self, o)
2678 def __eq__(self, o):
2679 r"""__eq__(TriggerKey self, TriggerKey o) -> bool"""
2680 return _IMP_kernel.TriggerKey___eq__(self, o)
2682 def __ne__(self, o):
2683 r"""__ne__(TriggerKey self, TriggerKey o) -> bool"""
2684 return _IMP_kernel.TriggerKey___ne__(self, o)
2686 def __lt__(self, o):
2687 r"""__lt__(TriggerKey self, TriggerKey o) -> bool"""
2688 return _IMP_kernel.TriggerKey___lt__(self, o)
2690 def __gt__(self, o):
2691 r"""__gt__(TriggerKey self, TriggerKey o) -> bool"""
2692 return _IMP_kernel.TriggerKey___gt__(self, o)
2694 def __ge__(self, o):
2695 r"""__ge__(TriggerKey self, TriggerKey o) -> bool"""
2696 return _IMP_kernel.TriggerKey___ge__(self, o)
2698 def __le__(self, o):
2699 r"""__le__(TriggerKey self, TriggerKey o) -> bool"""
2700 return _IMP_kernel.TriggerKey___le__(self, o)
2703 r"""__hash__(TriggerKey self) -> std::size_t"""
2704 return _IMP_kernel.TriggerKey___hash__(self)
2706 def show(self, *args):
2707 r"""show(TriggerKey self, _ostream out=std::cout)"""
2708 return _IMP_kernel.TriggerKey_show(self, *args)
2711 def add_alias(old_key, new_name):
2712 r"""add_alias(TriggerKey old_key, std::string new_name) -> TriggerKey"""
2713 return _IMP_kernel.TriggerKey_add_alias(old_key, new_name)
2716 def get_number_of_keys():
2717 r"""get_number_of_keys() -> unsigned int"""
2718 return _IMP_kernel.TriggerKey_get_number_of_keys()
2721 r"""get_index(TriggerKey self) -> unsigned int"""
2722 return _IMP_kernel.TriggerKey_get_index(self)
2726 r"""show_all(_ostream out)"""
2727 return _IMP_kernel.TriggerKey_show_all(out)
2730 def get_all_strings():
2731 r"""get_all_strings() -> IMP::Vector< std::string >"""
2732 return _IMP_kernel.TriggerKey_get_all_strings()
2735 def get_number_unique():
2736 r"""get_number_unique() -> unsigned int"""
2737 return _IMP_kernel.TriggerKey_get_number_unique()
2740 r"""__str__(TriggerKey self) -> std::string"""
2741 return _IMP_kernel.TriggerKey___str__(self)
2744 r"""__repr__(TriggerKey self) -> std::string"""
2745 return _IMP_kernel.TriggerKey___repr__(self)
2746 __swig_destroy__ = _IMP_kernel.delete_TriggerKey
2749 _IMP_kernel.TriggerKey_swigregister(TriggerKey)
2751 r"""Proxy of C++ IMP::Index< IMP::ParticleIndexTag > class."""
2753 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2755 def __init__(self, *args):
2757 __init__(ParticleIndex self, int i) -> ParticleIndex
2758 __init__(ParticleIndex self) -> ParticleIndex
2760 _IMP_kernel.ParticleIndex_swiginit(self, _IMP_kernel.new_ParticleIndex(*args))
2763 r"""get_index(ParticleIndex self) -> int"""
2764 return _IMP_kernel.ParticleIndex_get_index(self)
2766 def __cmp__(self, o):
2767 r"""__cmp__(ParticleIndex self, ParticleIndex o) -> int"""
2768 return _IMP_kernel.ParticleIndex___cmp__(self, o)
2770 def __eq__(self, o):
2771 r"""__eq__(ParticleIndex self, ParticleIndex o) -> bool"""
2772 return _IMP_kernel.ParticleIndex___eq__(self, o)
2774 def __ne__(self, o):
2775 r"""__ne__(ParticleIndex self, ParticleIndex o) -> bool"""
2776 return _IMP_kernel.ParticleIndex___ne__(self, o)
2778 def __lt__(self, o):
2779 r"""__lt__(ParticleIndex self, ParticleIndex o) -> bool"""
2780 return _IMP_kernel.ParticleIndex___lt__(self, o)
2782 def __gt__(self, o):
2783 r"""__gt__(ParticleIndex self, ParticleIndex o) -> bool"""
2784 return _IMP_kernel.ParticleIndex___gt__(self, o)
2786 def __ge__(self, o):
2787 r"""__ge__(ParticleIndex self, ParticleIndex o) -> bool"""
2788 return _IMP_kernel.ParticleIndex___ge__(self, o)
2790 def __le__(self, o):
2791 r"""__le__(ParticleIndex self, ParticleIndex o) -> bool"""
2792 return _IMP_kernel.ParticleIndex___le__(self, o)
2794 def show(self, *args):
2795 r"""show(ParticleIndex self, _ostream out=std::cout)"""
2796 return _IMP_kernel.ParticleIndex_show(self, *args)
2799 r"""__hash__(ParticleIndex self) -> std::size_t"""
2800 return _IMP_kernel.ParticleIndex___hash__(self)
2803 r"""__str__(ParticleIndex self) -> std::string"""
2804 return _IMP_kernel.ParticleIndex___str__(self)
2807 r"""__repr__(ParticleIndex self) -> std::string"""
2808 return _IMP_kernel.ParticleIndex___repr__(self)
2809 __swig_destroy__ = _IMP_kernel.delete_ParticleIndex
2812 _IMP_kernel.ParticleIndex_swigregister(ParticleIndex)
2814 r"""Proxy of C++ IMP::Key< 10 > class."""
2816 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2818 def __init__(self, *args):
2820 __init__(FloatsKey self) -> FloatsKey
2821 __init__(FloatsKey self, std::string const & c, bool is_implicit_add_permitted=True) -> FloatsKey
2822 __init__(FloatsKey self, unsigned int i) -> FloatsKey
2824 _IMP_kernel.FloatsKey_swiginit(self, _IMP_kernel.new_FloatsKey(*args))
2828 r"""add_key(std::string sc) -> unsigned int"""
2829 return _IMP_kernel.FloatsKey_add_key(sc)
2832 def get_key_exists(sc):
2833 r"""get_key_exists(std::string sc) -> bool"""
2834 return _IMP_kernel.FloatsKey_get_key_exists(sc)
2836 def get_string(self):
2837 r"""get_string(FloatsKey self) -> std::string const"""
2838 return _IMP_kernel.FloatsKey_get_string(self)
2840 def __cmp__(self, o):
2841 r"""__cmp__(FloatsKey self, FloatsKey o) -> int"""
2842 return _IMP_kernel.FloatsKey___cmp__(self, o)
2844 def __eq__(self, o):
2845 r"""__eq__(FloatsKey self, FloatsKey o) -> bool"""
2846 return _IMP_kernel.FloatsKey___eq__(self, o)
2848 def __ne__(self, o):
2849 r"""__ne__(FloatsKey self, FloatsKey o) -> bool"""
2850 return _IMP_kernel.FloatsKey___ne__(self, o)
2852 def __lt__(self, o):
2853 r"""__lt__(FloatsKey self, FloatsKey o) -> bool"""
2854 return _IMP_kernel.FloatsKey___lt__(self, o)
2856 def __gt__(self, o):
2857 r"""__gt__(FloatsKey self, FloatsKey o) -> bool"""
2858 return _IMP_kernel.FloatsKey___gt__(self, o)
2860 def __ge__(self, o):
2861 r"""__ge__(FloatsKey self, FloatsKey o) -> bool"""
2862 return _IMP_kernel.FloatsKey___ge__(self, o)
2864 def __le__(self, o):
2865 r"""__le__(FloatsKey self, FloatsKey o) -> bool"""
2866 return _IMP_kernel.FloatsKey___le__(self, o)
2869 r"""__hash__(FloatsKey self) -> std::size_t"""
2870 return _IMP_kernel.FloatsKey___hash__(self)
2872 def show(self, *args):
2873 r"""show(FloatsKey self, _ostream out=std::cout)"""
2874 return _IMP_kernel.FloatsKey_show(self, *args)
2877 def add_alias(old_key, new_name):
2878 r"""add_alias(FloatsKey old_key, std::string new_name) -> FloatsKey"""
2879 return _IMP_kernel.FloatsKey_add_alias(old_key, new_name)
2882 def get_number_of_keys():
2883 r"""get_number_of_keys() -> unsigned int"""
2884 return _IMP_kernel.FloatsKey_get_number_of_keys()
2887 r"""get_index(FloatsKey self) -> unsigned int"""
2888 return _IMP_kernel.FloatsKey_get_index(self)
2892 r"""show_all(_ostream out)"""
2893 return _IMP_kernel.FloatsKey_show_all(out)
2896 def get_all_strings():
2897 r"""get_all_strings() -> IMP::Vector< std::string >"""
2898 return _IMP_kernel.FloatsKey_get_all_strings()
2901 def get_number_unique():
2902 r"""get_number_unique() -> unsigned int"""
2903 return _IMP_kernel.FloatsKey_get_number_unique()
2906 r"""__str__(FloatsKey self) -> std::string"""
2907 return _IMP_kernel.FloatsKey___str__(self)
2910 r"""__repr__(FloatsKey self) -> std::string"""
2911 return _IMP_kernel.FloatsKey___repr__(self)
2912 __swig_destroy__ = _IMP_kernel.delete_FloatsKey
2915 _IMP_kernel.FloatsKey_swigregister(FloatsKey)
2917 r"""Proxy of C++ IMP::Key< 12 > class."""
2919 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
2921 def __init__(self, *args):
2923 __init__(SparseStringKey self) -> SparseStringKey
2924 __init__(SparseStringKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseStringKey
2925 __init__(SparseStringKey self, unsigned int i) -> SparseStringKey
2927 _IMP_kernel.SparseStringKey_swiginit(self, _IMP_kernel.new_SparseStringKey(*args))
2931 r"""add_key(std::string sc) -> unsigned int"""
2932 return _IMP_kernel.SparseStringKey_add_key(sc)
2935 def get_key_exists(sc):
2936 r"""get_key_exists(std::string sc) -> bool"""
2937 return _IMP_kernel.SparseStringKey_get_key_exists(sc)
2939 def get_string(self):
2940 r"""get_string(SparseStringKey self) -> std::string const"""
2941 return _IMP_kernel.SparseStringKey_get_string(self)
2943 def __cmp__(self, o):
2944 r"""__cmp__(SparseStringKey self, SparseStringKey o) -> int"""
2945 return _IMP_kernel.SparseStringKey___cmp__(self, o)
2947 def __eq__(self, o):
2948 r"""__eq__(SparseStringKey self, SparseStringKey o) -> bool"""
2949 return _IMP_kernel.SparseStringKey___eq__(self, o)
2951 def __ne__(self, o):
2952 r"""__ne__(SparseStringKey self, SparseStringKey o) -> bool"""
2953 return _IMP_kernel.SparseStringKey___ne__(self, o)
2955 def __lt__(self, o):
2956 r"""__lt__(SparseStringKey self, SparseStringKey o) -> bool"""
2957 return _IMP_kernel.SparseStringKey___lt__(self, o)
2959 def __gt__(self, o):
2960 r"""__gt__(SparseStringKey self, SparseStringKey o) -> bool"""
2961 return _IMP_kernel.SparseStringKey___gt__(self, o)
2963 def __ge__(self, o):
2964 r"""__ge__(SparseStringKey self, SparseStringKey o) -> bool"""
2965 return _IMP_kernel.SparseStringKey___ge__(self, o)
2967 def __le__(self, o):
2968 r"""__le__(SparseStringKey self, SparseStringKey o) -> bool"""
2969 return _IMP_kernel.SparseStringKey___le__(self, o)
2972 r"""__hash__(SparseStringKey self) -> std::size_t"""
2973 return _IMP_kernel.SparseStringKey___hash__(self)
2975 def show(self, *args):
2976 r"""show(SparseStringKey self, _ostream out=std::cout)"""
2977 return _IMP_kernel.SparseStringKey_show(self, *args)
2980 def add_alias(old_key, new_name):
2981 r"""add_alias(SparseStringKey old_key, std::string new_name) -> SparseStringKey"""
2982 return _IMP_kernel.SparseStringKey_add_alias(old_key, new_name)
2985 def get_number_of_keys():
2986 r"""get_number_of_keys() -> unsigned int"""
2987 return _IMP_kernel.SparseStringKey_get_number_of_keys()
2990 r"""get_index(SparseStringKey self) -> unsigned int"""
2991 return _IMP_kernel.SparseStringKey_get_index(self)
2995 r"""show_all(_ostream out)"""
2996 return _IMP_kernel.SparseStringKey_show_all(out)
2999 def get_all_strings():
3000 r"""get_all_strings() -> IMP::Vector< std::string >"""
3001 return _IMP_kernel.SparseStringKey_get_all_strings()
3004 def get_number_unique():
3005 r"""get_number_unique() -> unsigned int"""
3006 return _IMP_kernel.SparseStringKey_get_number_unique()
3009 r"""__str__(SparseStringKey self) -> std::string"""
3010 return _IMP_kernel.SparseStringKey___str__(self)
3013 r"""__repr__(SparseStringKey self) -> std::string"""
3014 return _IMP_kernel.SparseStringKey___repr__(self)
3015 __swig_destroy__ = _IMP_kernel.delete_SparseStringKey
3018 _IMP_kernel.SparseStringKey_swigregister(SparseStringKey)
3020 r"""Proxy of C++ IMP::Key< 13 > class."""
3022 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3024 def __init__(self, *args):
3026 __init__(SparseIntKey self) -> SparseIntKey
3027 __init__(SparseIntKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseIntKey
3028 __init__(SparseIntKey self, unsigned int i) -> SparseIntKey
3030 _IMP_kernel.SparseIntKey_swiginit(self, _IMP_kernel.new_SparseIntKey(*args))
3034 r"""add_key(std::string sc) -> unsigned int"""
3035 return _IMP_kernel.SparseIntKey_add_key(sc)
3038 def get_key_exists(sc):
3039 r"""get_key_exists(std::string sc) -> bool"""
3040 return _IMP_kernel.SparseIntKey_get_key_exists(sc)
3042 def get_string(self):
3043 r"""get_string(SparseIntKey self) -> std::string const"""
3044 return _IMP_kernel.SparseIntKey_get_string(self)
3046 def __cmp__(self, o):
3047 r"""__cmp__(SparseIntKey self, SparseIntKey o) -> int"""
3048 return _IMP_kernel.SparseIntKey___cmp__(self, o)
3050 def __eq__(self, o):
3051 r"""__eq__(SparseIntKey self, SparseIntKey o) -> bool"""
3052 return _IMP_kernel.SparseIntKey___eq__(self, o)
3054 def __ne__(self, o):
3055 r"""__ne__(SparseIntKey self, SparseIntKey o) -> bool"""
3056 return _IMP_kernel.SparseIntKey___ne__(self, o)
3058 def __lt__(self, o):
3059 r"""__lt__(SparseIntKey self, SparseIntKey o) -> bool"""
3060 return _IMP_kernel.SparseIntKey___lt__(self, o)
3062 def __gt__(self, o):
3063 r"""__gt__(SparseIntKey self, SparseIntKey o) -> bool"""
3064 return _IMP_kernel.SparseIntKey___gt__(self, o)
3066 def __ge__(self, o):
3067 r"""__ge__(SparseIntKey self, SparseIntKey o) -> bool"""
3068 return _IMP_kernel.SparseIntKey___ge__(self, o)
3070 def __le__(self, o):
3071 r"""__le__(SparseIntKey self, SparseIntKey o) -> bool"""
3072 return _IMP_kernel.SparseIntKey___le__(self, o)
3075 r"""__hash__(SparseIntKey self) -> std::size_t"""
3076 return _IMP_kernel.SparseIntKey___hash__(self)
3078 def show(self, *args):
3079 r"""show(SparseIntKey self, _ostream out=std::cout)"""
3080 return _IMP_kernel.SparseIntKey_show(self, *args)
3083 def add_alias(old_key, new_name):
3084 r"""add_alias(SparseIntKey old_key, std::string new_name) -> SparseIntKey"""
3085 return _IMP_kernel.SparseIntKey_add_alias(old_key, new_name)
3088 def get_number_of_keys():
3089 r"""get_number_of_keys() -> unsigned int"""
3090 return _IMP_kernel.SparseIntKey_get_number_of_keys()
3093 r"""get_index(SparseIntKey self) -> unsigned int"""
3094 return _IMP_kernel.SparseIntKey_get_index(self)
3098 r"""show_all(_ostream out)"""
3099 return _IMP_kernel.SparseIntKey_show_all(out)
3102 def get_all_strings():
3103 r"""get_all_strings() -> IMP::Vector< std::string >"""
3104 return _IMP_kernel.SparseIntKey_get_all_strings()
3107 def get_number_unique():
3108 r"""get_number_unique() -> unsigned int"""
3109 return _IMP_kernel.SparseIntKey_get_number_unique()
3112 r"""__str__(SparseIntKey self) -> std::string"""
3113 return _IMP_kernel.SparseIntKey___str__(self)
3116 r"""__repr__(SparseIntKey self) -> std::string"""
3117 return _IMP_kernel.SparseIntKey___repr__(self)
3118 __swig_destroy__ = _IMP_kernel.delete_SparseIntKey
3121 _IMP_kernel.SparseIntKey_swigregister(SparseIntKey)
3123 r"""Proxy of C++ IMP::Key< 14 > class."""
3125 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3127 def __init__(self, *args):
3129 __init__(SparseFloatKey self) -> SparseFloatKey
3130 __init__(SparseFloatKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseFloatKey
3131 __init__(SparseFloatKey self, unsigned int i) -> SparseFloatKey
3133 _IMP_kernel.SparseFloatKey_swiginit(self, _IMP_kernel.new_SparseFloatKey(*args))
3137 r"""add_key(std::string sc) -> unsigned int"""
3138 return _IMP_kernel.SparseFloatKey_add_key(sc)
3141 def get_key_exists(sc):
3142 r"""get_key_exists(std::string sc) -> bool"""
3143 return _IMP_kernel.SparseFloatKey_get_key_exists(sc)
3145 def get_string(self):
3146 r"""get_string(SparseFloatKey self) -> std::string const"""
3147 return _IMP_kernel.SparseFloatKey_get_string(self)
3149 def __cmp__(self, o):
3150 r"""__cmp__(SparseFloatKey self, SparseFloatKey o) -> int"""
3151 return _IMP_kernel.SparseFloatKey___cmp__(self, o)
3153 def __eq__(self, o):
3154 r"""__eq__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3155 return _IMP_kernel.SparseFloatKey___eq__(self, o)
3157 def __ne__(self, o):
3158 r"""__ne__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3159 return _IMP_kernel.SparseFloatKey___ne__(self, o)
3161 def __lt__(self, o):
3162 r"""__lt__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3163 return _IMP_kernel.SparseFloatKey___lt__(self, o)
3165 def __gt__(self, o):
3166 r"""__gt__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3167 return _IMP_kernel.SparseFloatKey___gt__(self, o)
3169 def __ge__(self, o):
3170 r"""__ge__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3171 return _IMP_kernel.SparseFloatKey___ge__(self, o)
3173 def __le__(self, o):
3174 r"""__le__(SparseFloatKey self, SparseFloatKey o) -> bool"""
3175 return _IMP_kernel.SparseFloatKey___le__(self, o)
3178 r"""__hash__(SparseFloatKey self) -> std::size_t"""
3179 return _IMP_kernel.SparseFloatKey___hash__(self)
3181 def show(self, *args):
3182 r"""show(SparseFloatKey self, _ostream out=std::cout)"""
3183 return _IMP_kernel.SparseFloatKey_show(self, *args)
3186 def add_alias(old_key, new_name):
3187 r"""add_alias(SparseFloatKey old_key, std::string new_name) -> SparseFloatKey"""
3188 return _IMP_kernel.SparseFloatKey_add_alias(old_key, new_name)
3191 def get_number_of_keys():
3192 r"""get_number_of_keys() -> unsigned int"""
3193 return _IMP_kernel.SparseFloatKey_get_number_of_keys()
3196 r"""get_index(SparseFloatKey self) -> unsigned int"""
3197 return _IMP_kernel.SparseFloatKey_get_index(self)
3201 r"""show_all(_ostream out)"""
3202 return _IMP_kernel.SparseFloatKey_show_all(out)
3205 def get_all_strings():
3206 r"""get_all_strings() -> IMP::Vector< std::string >"""
3207 return _IMP_kernel.SparseFloatKey_get_all_strings()
3210 def get_number_unique():
3211 r"""get_number_unique() -> unsigned int"""
3212 return _IMP_kernel.SparseFloatKey_get_number_unique()
3215 r"""__str__(SparseFloatKey self) -> std::string"""
3216 return _IMP_kernel.SparseFloatKey___str__(self)
3219 r"""__repr__(SparseFloatKey self) -> std::string"""
3220 return _IMP_kernel.SparseFloatKey___repr__(self)
3221 __swig_destroy__ = _IMP_kernel.delete_SparseFloatKey
3224 _IMP_kernel.SparseFloatKey_swigregister(SparseFloatKey)
3226 r"""Proxy of C++ IMP::Key< 15 > class."""
3228 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3230 def __init__(self, *args):
3232 __init__(SparseParticleIndexKey self) -> SparseParticleIndexKey
3233 __init__(SparseParticleIndexKey self, std::string const & c, bool is_implicit_add_permitted=True) -> SparseParticleIndexKey
3234 __init__(SparseParticleIndexKey self, unsigned int i) -> SparseParticleIndexKey
3236 _IMP_kernel.SparseParticleIndexKey_swiginit(self, _IMP_kernel.new_SparseParticleIndexKey(*args))
3240 r"""add_key(std::string sc) -> unsigned int"""
3241 return _IMP_kernel.SparseParticleIndexKey_add_key(sc)
3244 def get_key_exists(sc):
3245 r"""get_key_exists(std::string sc) -> bool"""
3246 return _IMP_kernel.SparseParticleIndexKey_get_key_exists(sc)
3248 def get_string(self):
3249 r"""get_string(SparseParticleIndexKey self) -> std::string const"""
3250 return _IMP_kernel.SparseParticleIndexKey_get_string(self)
3252 def __cmp__(self, o):
3253 r"""__cmp__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> int"""
3254 return _IMP_kernel.SparseParticleIndexKey___cmp__(self, o)
3256 def __eq__(self, o):
3257 r"""__eq__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3258 return _IMP_kernel.SparseParticleIndexKey___eq__(self, o)
3260 def __ne__(self, o):
3261 r"""__ne__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3262 return _IMP_kernel.SparseParticleIndexKey___ne__(self, o)
3264 def __lt__(self, o):
3265 r"""__lt__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3266 return _IMP_kernel.SparseParticleIndexKey___lt__(self, o)
3268 def __gt__(self, o):
3269 r"""__gt__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3270 return _IMP_kernel.SparseParticleIndexKey___gt__(self, o)
3272 def __ge__(self, o):
3273 r"""__ge__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3274 return _IMP_kernel.SparseParticleIndexKey___ge__(self, o)
3276 def __le__(self, o):
3277 r"""__le__(SparseParticleIndexKey self, SparseParticleIndexKey o) -> bool"""
3278 return _IMP_kernel.SparseParticleIndexKey___le__(self, o)
3281 r"""__hash__(SparseParticleIndexKey self) -> std::size_t"""
3282 return _IMP_kernel.SparseParticleIndexKey___hash__(self)
3284 def show(self, *args):
3285 r"""show(SparseParticleIndexKey self, _ostream out=std::cout)"""
3286 return _IMP_kernel.SparseParticleIndexKey_show(self, *args)
3289 def add_alias(old_key, new_name):
3290 r"""add_alias(SparseParticleIndexKey old_key, std::string new_name) -> SparseParticleIndexKey"""
3291 return _IMP_kernel.SparseParticleIndexKey_add_alias(old_key, new_name)
3294 def get_number_of_keys():
3295 r"""get_number_of_keys() -> unsigned int"""
3296 return _IMP_kernel.SparseParticleIndexKey_get_number_of_keys()
3299 r"""get_index(SparseParticleIndexKey self) -> unsigned int"""
3300 return _IMP_kernel.SparseParticleIndexKey_get_index(self)
3304 r"""show_all(_ostream out)"""
3305 return _IMP_kernel.SparseParticleIndexKey_show_all(out)
3308 def get_all_strings():
3309 r"""get_all_strings() -> IMP::Vector< std::string >"""
3310 return _IMP_kernel.SparseParticleIndexKey_get_all_strings()
3313 def get_number_unique():
3314 r"""get_number_unique() -> unsigned int"""
3315 return _IMP_kernel.SparseParticleIndexKey_get_number_unique()
3318 r"""__str__(SparseParticleIndexKey self) -> std::string"""
3319 return _IMP_kernel.SparseParticleIndexKey___str__(self)
3322 r"""__repr__(SparseParticleIndexKey self) -> std::string"""
3323 return _IMP_kernel.SparseParticleIndexKey___repr__(self)
3324 __swig_destroy__ = _IMP_kernel.delete_SparseParticleIndexKey
3327 _IMP_kernel.SparseParticleIndexKey_swigregister(SparseParticleIndexKey)
3336 class FloatIndex(_Value):
3337 r"""Proxy of C++ IMP::FloatIndex class."""
3339 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3341 def __init__(self, *args):
3342 r"""__init__(FloatIndex self, ParticleIndex i0=ParticleIndex(), FloatKey i1=FloatKey()) -> FloatIndex"""
3343 _IMP_kernel.FloatIndex_swiginit(self, _IMP_kernel.new_FloatIndex(*args))
3346 r"""__hash__(FloatIndex self) -> std::size_t"""
3347 return _IMP_kernel.FloatIndex___hash__(self)
3349 def show(self, *args):
3350 r"""show(FloatIndex self, _ostream out=std::cout)"""
3351 return _IMP_kernel.FloatIndex_show(self, *args)
3353 def __cmp__(self, o):
3354 r"""__cmp__(FloatIndex self, FloatIndex o) -> int"""
3355 return _IMP_kernel.FloatIndex___cmp__(self, o)
3357 def __eq__(self, o):
3358 r"""__eq__(FloatIndex self, FloatIndex o) -> bool"""
3359 return _IMP_kernel.FloatIndex___eq__(self, o)
3361 def __ne__(self, o):
3362 r"""__ne__(FloatIndex self, FloatIndex o) -> bool"""
3363 return _IMP_kernel.FloatIndex___ne__(self, o)
3365 def __lt__(self, o):
3366 r"""__lt__(FloatIndex self, FloatIndex o) -> bool"""
3367 return _IMP_kernel.FloatIndex___lt__(self, o)
3369 def __gt__(self, o):
3370 r"""__gt__(FloatIndex self, FloatIndex o) -> bool"""
3371 return _IMP_kernel.FloatIndex___gt__(self, o)
3373 def __ge__(self, o):
3374 r"""__ge__(FloatIndex self, FloatIndex o) -> bool"""
3375 return _IMP_kernel.FloatIndex___ge__(self, o)
3377 def __le__(self, o):
3378 r"""__le__(FloatIndex self, FloatIndex o) -> bool"""
3379 return _IMP_kernel.FloatIndex___le__(self, o)
3381 def get_particle(self):
3382 r"""get_particle(FloatIndex self) -> ParticleIndex const &"""
3383 return _IMP_kernel.FloatIndex_get_particle(self)
3385 def set_particle(self, v):
3386 r"""set_particle(FloatIndex self, ParticleIndex const & v)"""
3387 return _IMP_kernel.FloatIndex_set_particle(self, v)
3390 r"""get_key(FloatIndex self) -> FloatKey const &"""
3391 return _IMP_kernel.FloatIndex_get_key(self)
3393 def set_key(self, v):
3394 r"""set_key(FloatIndex self, FloatKey const & v)"""
3395 return _IMP_kernel.FloatIndex_set_key(self, v)
3398 r"""__str__(FloatIndex self) -> std::string"""
3399 return _IMP_kernel.FloatIndex___str__(self)
3402 r"""__repr__(FloatIndex self) -> std::string"""
3403 return _IMP_kernel.FloatIndex___repr__(self)
3404 __swig_destroy__ = _IMP_kernel.delete_FloatIndex
3407 _IMP_kernel.FloatIndex_swigregister(FloatIndex)
3408 class _ParticleIndexTag(object):
3409 r"""Proxy of C++ IMP::ParticleIndexTag class."""
3411 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3412 __repr__ = _swig_repr
3415 r"""__init__(_ParticleIndexTag self) -> _ParticleIndexTag"""
3416 _IMP_kernel._ParticleIndexTag_swiginit(self, _IMP_kernel.new__ParticleIndexTag())
3417 __swig_destroy__ = _IMP_kernel.delete__ParticleIndexTag
3420 _IMP_kernel._ParticleIndexTag_swigregister(_ParticleIndexTag)
3421 class ModelObject(Object):
3422 r"""Proxy of C++ IMP::ModelObject class."""
3424 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3426 def __init__(self, *args):
3428 __init__(ModelObject self, Model m, std::string name) -> ModelObject
3429 __init__(ModelObject self) -> ModelObject
3431 if self.__class__ == ModelObject:
3435 _IMP_kernel.ModelObject_swiginit(self, _IMP_kernel.new_ModelObject(_self, *args))
3437 if self.__class__ != ModelObject:
3438 _director_objects.register(self)
3442 __swig_destroy__ = _IMP_kernel.delete_ModelObject
3444 def get_model(self):
3445 m = _IMP_kernel.ModelObject_get_model(self)
3446 if m
in _models_set:
3447 m = _models_set_get(m)
3452 def get_inputs(self):
3453 r"""get_inputs(ModelObject self) -> IMP::ModelObjectsTemp"""
3454 return _IMP_kernel.ModelObject_get_inputs(self)
3456 def get_outputs(self):
3457 r"""get_outputs(ModelObject self) -> IMP::ModelObjectsTemp"""
3458 return _IMP_kernel.ModelObject_get_outputs(self)
3460 def get_interactions(self):
3461 r"""get_interactions(ModelObject self) -> IMP::ModelObjectsTemps"""
3462 return _IMP_kernel.ModelObject_get_interactions(self)
3464 def get_has_dependencies(self):
3465 r"""get_has_dependencies(ModelObject self) -> bool"""
3466 return _IMP_kernel.ModelObject_get_has_dependencies(self)
3468 def set_has_dependencies(self, tf):
3469 r"""set_has_dependencies(ModelObject self, bool tf)"""
3470 return _IMP_kernel.ModelObject_set_has_dependencies(self, tf)
3472 def set_has_required_score_states(self, tf):
3473 r"""set_has_required_score_states(ModelObject self, bool tf)"""
3474 return _IMP_kernel.ModelObject_set_has_required_score_states(self, tf)
3476 def get_has_required_score_states(self):
3477 r"""get_has_required_score_states(ModelObject self) -> bool"""
3478 return _IMP_kernel.ModelObject_get_has_required_score_states(self)
3480 def get_required_score_states(self):
3481 r"""get_required_score_states(ModelObject self) -> IMP::ScoreStatesTemp const &"""
3482 return _IMP_kernel.ModelObject_get_required_score_states(self)
3484 def handle_set_has_required_score_states(self, arg0):
3485 r"""handle_set_has_required_score_states(ModelObject self, bool arg0)"""
3486 return _IMP_kernel.ModelObject_handle_set_has_required_score_states(self, arg0)
3488 def do_get_inputs(self):
3489 r"""do_get_inputs(ModelObject self) -> IMP::ModelObjectsTemp"""
3490 return _IMP_kernel.ModelObject_do_get_inputs(self)
3492 def do_get_outputs(self):
3493 r"""do_get_outputs(ModelObject self) -> IMP::ModelObjectsTemp"""
3494 return _IMP_kernel.ModelObject_do_get_outputs(self)
3496 def do_get_interactions(self):
3497 r"""do_get_interactions(ModelObject self) -> IMP::ModelObjectsTemps"""
3498 return _IMP_kernel.ModelObject_do_get_interactions(self)
3501 r"""__str__(ModelObject self) -> std::string"""
3502 return _IMP_kernel.ModelObject___str__(self)
3505 r"""__repr__(ModelObject self) -> std::string"""
3506 return _IMP_kernel.ModelObject___repr__(self)
3510 return _object_cast_to_ModelObject(o)
3513 def get_type_name(self):
3514 return self.__class__.__name__
3515 def do_show(self, out):
3517 def get_version_info(self):
3519 return VersionInfo(self.__module__,
3526 return _object_cast_to_ModelObject(o)
3528 def __disown__(self):
3530 _IMP_kernel.disown_ModelObject(self)
3531 return weakref.proxy(self)
3533 def do_destroy(self):
3534 r"""do_destroy(ModelObject self)"""
3535 return _IMP_kernel.ModelObject_do_destroy(self)
3538 _IMP_kernel.ModelObject_swigregister(ModelObject)
3539 cvar = _IMP_kernel.cvar
3540 NO_MAX = cvar.NO_MAX
3541 BAD_SCORE = cvar.BAD_SCORE
3543 class _ParticleInputs(object):
3544 r"""Proxy of C++ IMP::ParticleInputs class."""
3546 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3548 def __init__(self, *args, **kwargs):
3549 raise AttributeError(
"No constructor defined - class is abstract")
3550 __repr__ = _swig_repr
3552 def get_inputs(self, m, pis):
3553 r"""get_inputs(_ParticleInputs self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
3554 return _IMP_kernel._ParticleInputs_get_inputs(self, m, pis)
3557 _IMP_kernel._ParticleInputs_swigregister(_ParticleInputs)
3558 class _ParticleOutputs(object):
3559 r"""Proxy of C++ IMP::ParticleOutputs class."""
3561 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3563 def __init__(self, *args, **kwargs):
3564 raise AttributeError(
"No constructor defined - class is abstract")
3565 __repr__ = _swig_repr
3567 def get_outputs(self, m, pis):
3568 r"""get_outputs(_ParticleOutputs self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
3569 return _IMP_kernel._ParticleOutputs_get_outputs(self, m, pis)
3572 _IMP_kernel._ParticleOutputs_swigregister(_ParticleOutputs)
3575 r"""get_input_particles(IMP::ModelObjectsTemp const & mos) -> IMP::ParticlesTemp"""
3576 return _IMP_kernel.get_input_particles(mos)
3579 r"""get_input_containers(IMP::ModelObjectsTemp const & mos) -> IMP::ContainersTemp"""
3580 return _IMP_kernel.get_input_containers(mos)
3583 r"""get_output_particles(IMP::ModelObjectsTemp const & mos) -> IMP::ParticlesTemp"""
3584 return _IMP_kernel.get_output_particles(mos)
3587 r"""get_output_containers(IMP::ModelObjectsTemp const & mos) -> IMP::ContainersTemp"""
3588 return _IMP_kernel.get_output_containers(mos)
3589 class DerivativeAccumulator(object):
3590 r"""Proxy of C++ IMP::DerivativeAccumulator class."""
3592 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3593 __repr__ = _swig_repr
3595 def __init__(self, *args):
3597 __init__(DerivativeAccumulator self, DerivativeAccumulator arg2) -> DerivativeAccumulator
3598 __init__(DerivativeAccumulator self, double weight=1.0) -> DerivativeAccumulator
3599 __init__(DerivativeAccumulator self, DerivativeAccumulator copy, double weight) -> DerivativeAccumulator
3601 _IMP_kernel.DerivativeAccumulator_swiginit(self, _IMP_kernel.new_DerivativeAccumulator(*args))
3603 def __call__(self, value):
3604 r"""__call__(DerivativeAccumulator self, double const value) -> double"""
3605 return _IMP_kernel.DerivativeAccumulator___call__(self, value)
3607 def get_weight(self):
3608 r"""get_weight(DerivativeAccumulator self) -> double"""
3609 return _IMP_kernel.DerivativeAccumulator_get_weight(self)
3611 def show(self, *args):
3612 r"""show(DerivativeAccumulator self, _ostream out=std::cout)"""
3613 return _IMP_kernel.DerivativeAccumulator_show(self, *args)
3614 __swig_destroy__ = _IMP_kernel.delete_DerivativeAccumulator
3617 _IMP_kernel.DerivativeAccumulator_swigregister(DerivativeAccumulator)
3618 class EvaluationState(object):
3619 r"""Proxy of C++ IMP::EvaluationState class."""
3621 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3622 score = property(_IMP_kernel.EvaluationState_score_get, _IMP_kernel.EvaluationState_score_set, doc=
r"""score : double""")
3623 good = property(_IMP_kernel.EvaluationState_good_get, _IMP_kernel.EvaluationState_good_set, doc=
r"""good : bool""")
3625 def __init__(self, *args):
3627 __init__(EvaluationState self, double oscore, bool ogood) -> EvaluationState
3628 __init__(EvaluationState self) -> EvaluationState
3630 _IMP_kernel.EvaluationState_swiginit(self, _IMP_kernel.new_EvaluationState(*args))
3632 def show(self, *args):
3633 r"""show(EvaluationState self, _ostream out=std::cout)"""
3634 return _IMP_kernel.EvaluationState_show(self, *args)
3637 r"""__str__(EvaluationState self) -> std::string"""
3638 return _IMP_kernel.EvaluationState___str__(self)
3641 r"""__repr__(EvaluationState self) -> std::string"""
3642 return _IMP_kernel.EvaluationState___repr__(self)
3643 __swig_destroy__ = _IMP_kernel.delete_EvaluationState
3646 _IMP_kernel.EvaluationState_swigregister(EvaluationState)
3647 class ScoreAccumulator(_Value):
3648 r"""Proxy of C++ IMP::ScoreAccumulator class."""
3650 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3652 def __init__(self, *args):
3654 __init__(ScoreAccumulator self, ScoreAccumulator arg2) -> ScoreAccumulator
3655 __init__(ScoreAccumulator self) -> ScoreAccumulator
3656 __init__(ScoreAccumulator self, ScoreAccumulator o, Restraint r) -> ScoreAccumulator
3657 __init__(ScoreAccumulator self, ScoreAccumulator o, double weight, double local_max) -> ScoreAccumulator
3659 _IMP_kernel.ScoreAccumulator_swiginit(self, _IMP_kernel.new_ScoreAccumulator(*args))
3661 def add_score(self, score):
3662 r"""add_score(ScoreAccumulator self, double score)"""
3663 return _IMP_kernel.ScoreAccumulator_add_score(self, score)
3665 def get_abort_evaluation(self):
3666 r"""get_abort_evaluation(ScoreAccumulator self) -> bool"""
3667 return _IMP_kernel.ScoreAccumulator_get_abort_evaluation(self)
3669 def get_is_evaluate_if_below(self):
3670 r"""get_is_evaluate_if_below(ScoreAccumulator self) -> bool"""
3671 return _IMP_kernel.ScoreAccumulator_get_is_evaluate_if_below(self)
3673 def get_is_evaluate_if_good(self):
3674 r"""get_is_evaluate_if_good(ScoreAccumulator self) -> bool"""
3675 return _IMP_kernel.ScoreAccumulator_get_is_evaluate_if_good(self)
3677 def get_maximum(self):
3678 r"""get_maximum(ScoreAccumulator self) -> double"""
3679 return _IMP_kernel.ScoreAccumulator_get_maximum(self)
3681 def get_derivative_accumulator(self):
3682 r"""get_derivative_accumulator(ScoreAccumulator self) -> DerivativeAccumulator"""
3683 return _IMP_kernel.ScoreAccumulator_get_derivative_accumulator(self)
3685 def show(self, *args):
3686 r"""show(ScoreAccumulator self, _ostream out=std::cout)"""
3687 return _IMP_kernel.ScoreAccumulator_show(self, *args)
3690 r"""__str__(ScoreAccumulator self) -> std::string"""
3691 return _IMP_kernel.ScoreAccumulator___str__(self)
3694 r"""__repr__(ScoreAccumulator self) -> std::string"""
3695 return _IMP_kernel.ScoreAccumulator___repr__(self)
3696 __swig_destroy__ = _IMP_kernel.delete_ScoreAccumulator
3699 _IMP_kernel.ScoreAccumulator_swigregister(ScoreAccumulator)
3700 class ScoreState(ModelObject):
3701 r"""Proxy of C++ IMP::ScoreState class."""
3703 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3705 def set_can_skip(self, can_skip):
3706 r"""set_can_skip(ScoreState self, bool can_skip)"""
3707 return _IMP_kernel.ScoreState_set_can_skip(self, can_skip)
3709 def __init__(self, *args):
3711 __init__(ScoreState self, Model m, std::string name) -> ScoreState
3712 __init__(ScoreState self) -> ScoreState
3714 if self.__class__ == ScoreState:
3718 _IMP_kernel.ScoreState_swiginit(self, _IMP_kernel.new_ScoreState(_self, *args))
3720 if self.__class__ != ScoreState:
3721 _director_objects.register(self)
3726 def before_evaluate(self):
3727 r"""before_evaluate(ScoreState self)"""
3728 return _IMP_kernel.ScoreState_before_evaluate(self)
3730 def after_evaluate(self, accpt):
3731 r"""after_evaluate(ScoreState self, DerivativeAccumulator accpt)"""
3732 return _IMP_kernel.ScoreState_after_evaluate(self, accpt)
3734 def get_can_skip(self):
3735 r"""get_can_skip(ScoreState self) -> bool"""
3736 return _IMP_kernel.ScoreState_get_can_skip(self)
3738 def get_has_update_order(self):
3739 r"""get_has_update_order(ScoreState self) -> bool"""
3740 return _IMP_kernel.ScoreState_get_has_update_order(self)
3743 r"""get_update_order(ScoreState self) -> unsigned int"""
3744 return _IMP_kernel.ScoreState_get_update_order(self)
3746 def handle_set_has_required_score_states(self, tf):
3747 r"""handle_set_has_required_score_states(ScoreState self, bool tf)"""
3748 return _IMP_kernel.ScoreState_handle_set_has_required_score_states(self, tf)
3750 def do_before_evaluate(self):
3751 r"""do_before_evaluate(ScoreState self)"""
3752 return _IMP_kernel.ScoreState_do_before_evaluate(self)
3754 def do_after_evaluate(self, accpt):
3755 r"""do_after_evaluate(ScoreState self, DerivativeAccumulator accpt)"""
3756 return _IMP_kernel.ScoreState_do_after_evaluate(self, accpt)
3757 __swig_destroy__ = _IMP_kernel.delete_ScoreState
3760 r"""__str__(ScoreState self) -> std::string"""
3761 return _IMP_kernel.ScoreState___str__(self)
3764 r"""__repr__(ScoreState self) -> std::string"""
3765 return _IMP_kernel.ScoreState___repr__(self)
3769 return _object_cast_to_ScoreState(o)
3772 def get_type_name(self):
3773 return self.__class__.__name__
3774 def do_show(self, out):
3776 def get_version_info(self):
3778 return VersionInfo(self.__module__,
3785 return _object_cast_to_ScoreState(o)
3787 def __disown__(self):
3789 _IMP_kernel.disown_ScoreState(self)
3790 return weakref.proxy(self)
3792 def do_destroy(self):
3793 r"""do_destroy(ScoreState self)"""
3794 return _IMP_kernel.ScoreState_do_destroy(self)
3796 def do_get_inputs(self):
3797 r"""do_get_inputs(ScoreState self) -> IMP::ModelObjectsTemp"""
3798 return _IMP_kernel.ScoreState_do_get_inputs(self)
3800 def do_get_outputs(self):
3801 r"""do_get_outputs(ScoreState self) -> IMP::ModelObjectsTemp"""
3802 return _IMP_kernel.ScoreState_do_get_outputs(self)
3804 def do_get_interactions(self):
3805 r"""do_get_interactions(ScoreState self) -> IMP::ModelObjectsTemps"""
3806 return _IMP_kernel.ScoreState_do_get_interactions(self)
3809 _IMP_kernel.ScoreState_swigregister(ScoreState)
3812 r"""get_update_order(IMP::ScoreStatesTemp input) -> IMP::ScoreStatesTemp"""
3813 return _IMP_kernel.get_update_order(input)
3814 class Constraint(ScoreState):
3815 r"""Proxy of C++ IMP::Constraint class."""
3817 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3819 def __init__(self, *args):
3821 __init__(Constraint self, Model m, std::string name="Constraint %1%") -> Constraint
3822 __init__(Constraint self) -> Constraint
3824 if self.__class__ == Constraint:
3828 _IMP_kernel.Constraint_swiginit(self, _IMP_kernel.new_Constraint(_self, *args))
3830 if self.__class__ != Constraint:
3831 _director_objects.register(self)
3836 def do_update_attributes(self):
3837 r"""do_update_attributes(Constraint self)"""
3838 return _IMP_kernel.Constraint_do_update_attributes(self)
3840 def do_update_derivatives(self, da):
3841 r"""do_update_derivatives(Constraint self, DerivativeAccumulator da)"""
3842 return _IMP_kernel.Constraint_do_update_derivatives(self, da)
3844 def do_before_evaluate(self):
3845 r"""do_before_evaluate(Constraint self)"""
3846 return _IMP_kernel.Constraint_do_before_evaluate(self)
3848 def do_after_evaluate(self, da):
3849 r"""do_after_evaluate(Constraint self, DerivativeAccumulator da)"""
3850 return _IMP_kernel.Constraint_do_after_evaluate(self, da)
3851 __swig_destroy__ = _IMP_kernel.delete_Constraint
3854 r"""__str__(Constraint self) -> std::string"""
3855 return _IMP_kernel.Constraint___str__(self)
3858 r"""__repr__(Constraint self) -> std::string"""
3859 return _IMP_kernel.Constraint___repr__(self)
3863 return _object_cast_to_Constraint(o)
3866 def get_type_name(self):
3867 return self.__class__.__name__
3868 def do_show(self, out):
3870 def get_version_info(self):
3872 return VersionInfo(self.__module__,
3879 return _object_cast_to_Constraint(o)
3881 def __disown__(self):
3883 _IMP_kernel.disown_Constraint(self)
3884 return weakref.proxy(self)
3886 def do_destroy(self):
3887 r"""do_destroy(Constraint self)"""
3888 return _IMP_kernel.Constraint_do_destroy(self)
3890 def do_get_inputs(self):
3891 r"""do_get_inputs(Constraint self) -> IMP::ModelObjectsTemp"""
3892 return _IMP_kernel.Constraint_do_get_inputs(self)
3894 def do_get_outputs(self):
3895 r"""do_get_outputs(Constraint self) -> IMP::ModelObjectsTemp"""
3896 return _IMP_kernel.Constraint_do_get_outputs(self)
3898 def do_get_interactions(self):
3899 r"""do_get_interactions(Constraint self) -> IMP::ModelObjectsTemps"""
3900 return _IMP_kernel.Constraint_do_get_interactions(self)
3903 _IMP_kernel.Constraint_swigregister(Constraint)
3904 class Container(ModelObject):
3905 r"""Proxy of C++ IMP::Container class."""
3907 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
3909 def __init__(self, *args):
3911 __init__(Container self, Model m, std::string name="Container %1%") -> Container
3912 __init__(Container self) -> Container
3914 if self.__class__ == Container:
3918 _IMP_kernel.Container_swiginit(self, _IMP_kernel.new_Container(_self, *args))
3920 if self.__class__ != Container:
3921 _director_objects.register(self)
3926 def do_get_contents_hash(self):
3927 r"""do_get_contents_hash(Container self) -> std::size_t"""
3928 return _IMP_kernel.Container_do_get_contents_hash(self)
3930 def get_all_possible_indexes(self):
3931 r"""get_all_possible_indexes(Container self) -> IMP::ParticleIndexes"""
3932 return _IMP_kernel.Container_get_all_possible_indexes(self)
3934 def get_contents_hash(self):
3935 r"""get_contents_hash(Container self) -> std::size_t"""
3936 return _IMP_kernel.Container_get_contents_hash(self)
3938 def do_get_outputs(self):
3939 r"""do_get_outputs(Container self) -> IMP::ModelObjectsTemp"""
3940 return _IMP_kernel.Container_do_get_outputs(self)
3942 def get_is_decomposable(self):
3943 r"""get_is_decomposable(Container self) -> bool"""
3944 return _IMP_kernel.Container_get_is_decomposable(self)
3946 def validate_readable(self):
3947 r"""validate_readable(Container self)"""
3948 return _IMP_kernel.Container_validate_readable(self)
3950 def validate_writable(self):
3951 r"""validate_writable(Container self)"""
3952 return _IMP_kernel.Container_validate_writable(self)
3954 def set_is_readable(self, tf):
3955 r"""set_is_readable(Container self, bool tf)"""
3956 return _IMP_kernel.Container_set_is_readable(self, tf)
3958 def set_is_writable(self, tf):
3959 r"""set_is_writable(Container self, bool tf)"""
3960 return _IMP_kernel.Container_set_is_writable(self, tf)
3961 __swig_destroy__ = _IMP_kernel.delete_Container
3964 r"""__str__(Container self) -> std::string"""
3965 return _IMP_kernel.Container___str__(self)
3968 r"""__repr__(Container self) -> std::string"""
3969 return _IMP_kernel.Container___repr__(self)
3973 return _object_cast_to_Container(o)
3976 def get_type_name(self):
3977 return self.__class__.__name__
3978 def do_show(self, out):
3980 def get_version_info(self):
3982 return VersionInfo(self.__module__,
3989 return _object_cast_to_Container(o)
3991 def __disown__(self):
3993 _IMP_kernel.disown_Container(self)
3994 return weakref.proxy(self)
3996 def do_destroy(self):
3997 r"""do_destroy(Container self)"""
3998 return _IMP_kernel.Container_do_destroy(self)
4000 def handle_set_has_required_score_states(self, arg0):
4001 r"""handle_set_has_required_score_states(Container self, bool arg0)"""
4002 return _IMP_kernel.Container_handle_set_has_required_score_states(self, arg0)
4004 def do_get_inputs(self):
4005 r"""do_get_inputs(Container self) -> IMP::ModelObjectsTemp"""
4006 return _IMP_kernel.Container_do_get_inputs(self)
4008 def do_get_interactions(self):
4009 r"""do_get_interactions(Container self) -> IMP::ModelObjectsTemps"""
4010 return _IMP_kernel.Container_do_get_interactions(self)
4013 _IMP_kernel.Container_swigregister(Container)
4014 class RestraintInfo(Object):
4015 r"""Proxy of C++ IMP::RestraintInfo class."""
4017 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4019 def __init__(self, *args):
4020 r"""__init__(RestraintInfo self, std::string name="RestraintInfo %1%") -> RestraintInfo"""
4021 _IMP_kernel.RestraintInfo_swiginit(self, _IMP_kernel.new_RestraintInfo(*args))
4024 r"""clear(RestraintInfo self)"""
4025 return _IMP_kernel.RestraintInfo_clear(self)
4027 def add_int(self, key, value):
4028 r"""add_int(RestraintInfo self, std::string key, int value)"""
4029 return _IMP_kernel.RestraintInfo_add_int(self, key, value)
4031 def get_number_of_int(self):
4032 r"""get_number_of_int(RestraintInfo self) -> unsigned int"""
4033 return _IMP_kernel.RestraintInfo_get_number_of_int(self)
4035 def get_int_key(self, i):
4036 r"""get_int_key(RestraintInfo self, unsigned int i) -> std::string"""
4037 return _IMP_kernel.RestraintInfo_get_int_key(self, i)
4039 def get_int_value(self, i):
4040 r"""get_int_value(RestraintInfo self, unsigned int i) -> int"""
4041 return _IMP_kernel.RestraintInfo_get_int_value(self, i)
4043 def add_float(self, key, value):
4044 r"""add_float(RestraintInfo self, std::string key, double value)"""
4045 return _IMP_kernel.RestraintInfo_add_float(self, key, value)
4047 def get_number_of_float(self):
4048 r"""get_number_of_float(RestraintInfo self) -> unsigned int"""
4049 return _IMP_kernel.RestraintInfo_get_number_of_float(self)
4051 def get_float_key(self, i):
4052 r"""get_float_key(RestraintInfo self, unsigned int i) -> std::string"""
4053 return _IMP_kernel.RestraintInfo_get_float_key(self, i)
4055 def get_float_value(self, i):
4056 r"""get_float_value(RestraintInfo self, unsigned int i) -> double"""
4057 return _IMP_kernel.RestraintInfo_get_float_value(self, i)
4059 def add_string(self, key, value):
4060 r"""add_string(RestraintInfo self, std::string key, std::string value)"""
4061 return _IMP_kernel.RestraintInfo_add_string(self, key, value)
4063 def get_number_of_string(self):
4064 r"""get_number_of_string(RestraintInfo self) -> unsigned int"""
4065 return _IMP_kernel.RestraintInfo_get_number_of_string(self)
4067 def get_string_key(self, i):
4068 r"""get_string_key(RestraintInfo self, unsigned int i) -> std::string"""
4069 return _IMP_kernel.RestraintInfo_get_string_key(self, i)
4071 def get_string_value(self, i):
4072 r"""get_string_value(RestraintInfo self, unsigned int i) -> std::string"""
4073 return _IMP_kernel.RestraintInfo_get_string_value(self, i)
4075 def add_filename(self, key, value):
4076 r"""add_filename(RestraintInfo self, std::string key, std::string value)"""
4077 return _IMP_kernel.RestraintInfo_add_filename(self, key, value)
4079 def get_number_of_filename(self):
4080 r"""get_number_of_filename(RestraintInfo self) -> unsigned int"""
4081 return _IMP_kernel.RestraintInfo_get_number_of_filename(self)
4083 def get_filename_key(self, i):
4084 r"""get_filename_key(RestraintInfo self, unsigned int i) -> std::string"""
4085 return _IMP_kernel.RestraintInfo_get_filename_key(self, i)
4087 def get_filename_value(self, i):
4088 r"""get_filename_value(RestraintInfo self, unsigned int i) -> std::string"""
4089 return _IMP_kernel.RestraintInfo_get_filename_value(self, i)
4091 def add_floats(self, key, value):
4092 r"""add_floats(RestraintInfo self, std::string key, IMP::Floats value)"""
4093 return _IMP_kernel.RestraintInfo_add_floats(self, key, value)
4095 def get_number_of_floats(self):
4096 r"""get_number_of_floats(RestraintInfo self) -> unsigned int"""
4097 return _IMP_kernel.RestraintInfo_get_number_of_floats(self)
4099 def get_floats_key(self, i):
4100 r"""get_floats_key(RestraintInfo self, unsigned int i) -> std::string"""
4101 return _IMP_kernel.RestraintInfo_get_floats_key(self, i)
4103 def get_floats_value(self, i):
4104 r"""get_floats_value(RestraintInfo self, unsigned int i) -> IMP::Floats"""
4105 return _IMP_kernel.RestraintInfo_get_floats_value(self, i)
4107 def add_ints(self, key, value):
4108 r"""add_ints(RestraintInfo self, std::string key, IMP::Ints value)"""
4109 return _IMP_kernel.RestraintInfo_add_ints(self, key, value)
4111 def get_number_of_ints(self):
4112 r"""get_number_of_ints(RestraintInfo self) -> unsigned int"""
4113 return _IMP_kernel.RestraintInfo_get_number_of_ints(self)
4115 def get_ints_key(self, i):
4116 r"""get_ints_key(RestraintInfo self, unsigned int i) -> std::string"""
4117 return _IMP_kernel.RestraintInfo_get_ints_key(self, i)
4119 def get_ints_value(self, i):
4120 r"""get_ints_value(RestraintInfo self, unsigned int i) -> IMP::Ints"""
4121 return _IMP_kernel.RestraintInfo_get_ints_value(self, i)
4123 def add_strings(self, key, value):
4124 r"""add_strings(RestraintInfo self, std::string key, IMP::Strings value)"""
4125 return _IMP_kernel.RestraintInfo_add_strings(self, key, value)
4127 def get_number_of_strings(self):
4128 r"""get_number_of_strings(RestraintInfo self) -> unsigned int"""
4129 return _IMP_kernel.RestraintInfo_get_number_of_strings(self)
4131 def get_strings_key(self, i):
4132 r"""get_strings_key(RestraintInfo self, unsigned int i) -> std::string"""
4133 return _IMP_kernel.RestraintInfo_get_strings_key(self, i)
4135 def get_strings_value(self, i):
4136 r"""get_strings_value(RestraintInfo self, unsigned int i) -> IMP::Strings"""
4137 return _IMP_kernel.RestraintInfo_get_strings_value(self, i)
4139 def add_filenames(self, key, value):
4140 r"""add_filenames(RestraintInfo self, std::string key, IMP::Strings value)"""
4141 return _IMP_kernel.RestraintInfo_add_filenames(self, key, value)
4143 def get_number_of_filenames(self):
4144 r"""get_number_of_filenames(RestraintInfo self) -> unsigned int"""
4145 return _IMP_kernel.RestraintInfo_get_number_of_filenames(self)
4147 def get_filenames_key(self, i):
4148 r"""get_filenames_key(RestraintInfo self, unsigned int i) -> std::string"""
4149 return _IMP_kernel.RestraintInfo_get_filenames_key(self, i)
4151 def get_filenames_value(self, i):
4152 r"""get_filenames_value(RestraintInfo self, unsigned int i) -> IMP::Strings"""
4153 return _IMP_kernel.RestraintInfo_get_filenames_value(self, i)
4155 def add_particle_indexes(self, key, value):
4156 r"""add_particle_indexes(RestraintInfo self, std::string key, IMP::ParticleIndexes value)"""
4157 return _IMP_kernel.RestraintInfo_add_particle_indexes(self, key, value)
4159 def get_number_of_particle_indexes(self):
4160 r"""get_number_of_particle_indexes(RestraintInfo self) -> unsigned int"""
4161 return _IMP_kernel.RestraintInfo_get_number_of_particle_indexes(self)
4163 def get_particle_indexes_key(self, i):
4164 r"""get_particle_indexes_key(RestraintInfo self, unsigned int i) -> std::string"""
4165 return _IMP_kernel.RestraintInfo_get_particle_indexes_key(self, i)
4167 def get_particle_indexes_value(self, i):
4168 r"""get_particle_indexes_value(RestraintInfo self, unsigned int i) -> IMP::ParticleIndexes"""
4169 return _IMP_kernel.RestraintInfo_get_particle_indexes_value(self, i)
4171 def get_version_info(self):
4172 r"""get_version_info(RestraintInfo self) -> VersionInfo"""
4173 return _IMP_kernel.RestraintInfo_get_version_info(self)
4174 __swig_destroy__ = _IMP_kernel.delete_RestraintInfo
4177 r"""__str__(RestraintInfo self) -> std::string"""
4178 return _IMP_kernel.RestraintInfo___str__(self)
4181 r"""__repr__(RestraintInfo self) -> std::string"""
4182 return _IMP_kernel.RestraintInfo___repr__(self)
4186 return _object_cast_to_RestraintInfo(o)
4190 _IMP_kernel.RestraintInfo_swigregister(RestraintInfo)
4191 class Restraint(ModelObject):
4192 r"""Proxy of C++ IMP::Restraint class."""
4194 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4196 def __init__(self, *args):
4198 __init__(Restraint self, Model m, std::string name) -> Restraint
4199 __init__(Restraint self) -> Restraint
4201 if self.__class__ == Restraint:
4205 _IMP_kernel.Restraint_swiginit(self, _IMP_kernel.new_Restraint(_self, *args))
4207 if self.__class__ != Restraint:
4208 _director_objects.register(self)
4213 def get_score(self):
4214 r"""get_score(Restraint self) -> double"""
4215 return _IMP_kernel.Restraint_get_score(self)
4217 def evaluate(self, calc_derivs):
4218 r"""evaluate(Restraint self, bool calc_derivs) -> double"""
4219 return _IMP_kernel.Restraint_evaluate(self, calc_derivs)
4221 def evaluate_moved(self, calc_derivs, moved_pis, reset_pis):
4222 r"""evaluate_moved(Restraint self, bool calc_derivs, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
4223 return _IMP_kernel.Restraint_evaluate_moved(self, calc_derivs, moved_pis, reset_pis)
4225 def evaluate_moved_if_below(self, calc_derivatives, moved_pis, reset_pis, max):
4226 r"""evaluate_moved_if_below(Restraint self, bool calc_derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
4227 return _IMP_kernel.Restraint_evaluate_moved_if_below(self, calc_derivatives, moved_pis, reset_pis, max)
4229 def evaluate_moved_if_good(self, calc_derivatives, moved_pis, reset_pis):
4230 r"""evaluate_moved_if_good(Restraint self, bool calc_derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
4231 return _IMP_kernel.Restraint_evaluate_moved_if_good(self, calc_derivatives, moved_pis, reset_pis)
4233 def evaluate_if_good(self, calc_derivatives):
4234 r"""evaluate_if_good(Restraint self, bool calc_derivatives) -> double"""
4235 return _IMP_kernel.Restraint_evaluate_if_good(self, calc_derivatives)
4237 def evaluate_if_below(self, calc_derivatives, max):
4238 r"""evaluate_if_below(Restraint self, bool calc_derivatives, double max) -> double"""
4239 return _IMP_kernel.Restraint_evaluate_if_below(self, calc_derivatives, max)
4241 def unprotected_evaluate(self, da):
4242 r"""unprotected_evaluate(Restraint self, DerivativeAccumulator da) -> double"""
4243 return _IMP_kernel.Restraint_unprotected_evaluate(self, da)
4245 def unprotected_evaluate_moved(self, da, moved_pis, reset_pis):
4246 r"""unprotected_evaluate_moved(Restraint self, DerivativeAccumulator da, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
4247 return _IMP_kernel.Restraint_unprotected_evaluate_moved(self, da, moved_pis, reset_pis)
4249 def unprotected_evaluate_if_good(self, da, max):
4250 r"""unprotected_evaluate_if_good(Restraint self, DerivativeAccumulator da, double max) -> double"""
4251 return _IMP_kernel.Restraint_unprotected_evaluate_if_good(self, da, max)
4253 def unprotected_evaluate_if_below(self, da, max):
4254 r"""unprotected_evaluate_if_below(Restraint self, DerivativeAccumulator da, double max) -> double"""
4255 return _IMP_kernel.Restraint_unprotected_evaluate_if_below(self, da, max)
4257 def unprotected_evaluate_moved_if_below(self, da, moved_pis, reset_pis, max):
4258 r"""unprotected_evaluate_moved_if_below(Restraint self, DerivativeAccumulator da, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
4259 return _IMP_kernel.Restraint_unprotected_evaluate_moved_if_below(self, da, moved_pis, reset_pis, max)
4261 def unprotected_evaluate_moved_if_good(self, da, moved_pis, reset_pis, max):
4262 r"""unprotected_evaluate_moved_if_good(Restraint self, DerivativeAccumulator da, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
4263 return _IMP_kernel.Restraint_unprotected_evaluate_moved_if_good(self, da, moved_pis, reset_pis, max)
4265 def get_static_info(self):
4266 r"""get_static_info(Restraint self) -> RestraintInfo"""
4267 return _IMP_kernel.Restraint_get_static_info(self)
4269 def get_dynamic_info(self):
4270 r"""get_dynamic_info(Restraint self) -> RestraintInfo"""
4271 return _IMP_kernel.Restraint_get_dynamic_info(self)
4273 def add_score_and_derivatives(self, sa):
4274 r"""add_score_and_derivatives(Restraint self, ScoreAccumulator sa)"""
4275 return _IMP_kernel.Restraint_add_score_and_derivatives(self, sa)
4277 def add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis):
4278 r"""add_score_and_derivatives_moved(Restraint self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
4279 return _IMP_kernel.Restraint_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis)
4282 r"""create_decomposition(Restraint self) -> Restraint"""
4283 return _IMP_kernel.Restraint_create_decomposition(self)
4285 def create_current_decomposition(self):
4286 r"""create_current_decomposition(Restraint self) -> Restraint"""
4287 return _IMP_kernel.Restraint_create_current_decomposition(self)
4289 def set_weight(self, weight):
4290 r"""set_weight(Restraint self, IMP::Float weight)"""
4291 return _IMP_kernel.Restraint_set_weight(self, weight)
4293 def get_weight(self):
4294 r"""get_weight(Restraint self) -> IMP::Float"""
4295 return _IMP_kernel.Restraint_get_weight(self)
4297 def get_maximum_score(self):
4298 r"""get_maximum_score(Restraint self) -> double"""
4299 return _IMP_kernel.Restraint_get_maximum_score(self)
4301 def set_maximum_score(self, s):
4302 r"""set_maximum_score(Restraint self, double s)"""
4303 return _IMP_kernel.Restraint_set_maximum_score(self, s)
4306 r"""create_scoring_function(Restraint self, double weight=1.0, double max=NO_MAX) -> ScoringFunction"""
4307 return _IMP_kernel.Restraint_create_scoring_function(self, *args)
4309 def set_last_score(self, s):
4310 r"""set_last_score(Restraint self, double s)"""
4311 return _IMP_kernel.Restraint_set_last_score(self, s)
4313 def set_last_last_score(self, s):
4314 r"""set_last_last_score(Restraint self, double s)"""
4315 return _IMP_kernel.Restraint_set_last_last_score(self, s)
4317 def get_last_score(self):
4318 r"""get_last_score(Restraint self) -> double"""
4319 return _IMP_kernel.Restraint_get_last_score(self)
4321 def get_last_last_score(self):
4322 r"""get_last_last_score(Restraint self) -> double"""
4323 return _IMP_kernel.Restraint_get_last_last_score(self)
4325 def get_is_aggregate(self):
4326 r"""get_is_aggregate(Restraint self) -> bool"""
4327 return _IMP_kernel.Restraint_get_is_aggregate(self)
4329 def get_was_good(self):
4330 r"""get_was_good(Restraint self) -> bool"""
4331 return _IMP_kernel.Restraint_get_was_good(self)
4332 __swig_destroy__ = _IMP_kernel.delete_Restraint
4334 def do_create_decomposition(self):
4335 r"""do_create_decomposition(Restraint self) -> IMP::Restraints"""
4336 return _IMP_kernel.Restraint_do_create_decomposition(self)
4338 def do_create_current_decomposition(self):
4339 r"""do_create_current_decomposition(Restraint self) -> IMP::Restraints"""
4340 return _IMP_kernel.Restraint_do_create_current_decomposition(self)
4342 def do_add_score_and_derivatives(self, sa):
4343 r"""do_add_score_and_derivatives(Restraint self, ScoreAccumulator sa)"""
4344 return _IMP_kernel.Restraint_do_add_score_and_derivatives(self, sa)
4346 def do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis):
4347 r"""do_add_score_and_derivatives_moved(Restraint self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
4348 return _IMP_kernel.Restraint_do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis)
4350 def do_get_outputs(self):
4351 r"""do_get_outputs(Restraint self) -> IMP::ModelObjectsTemp"""
4352 return _IMP_kernel.Restraint_do_get_outputs(self)
4353 is_aggregate_ = property(_IMP_kernel.Restraint_is_aggregate__get, _IMP_kernel.Restraint_is_aggregate__set, doc=
r"""is_aggregate_ : bool""")
4356 r"""__str__(Restraint self) -> std::string"""
4357 return _IMP_kernel.Restraint___str__(self)
4360 r"""__repr__(Restraint self) -> std::string"""
4361 return _IMP_kernel.Restraint___repr__(self)
4365 return _object_cast_to_Restraint(o)
4368 def get_type_name(self):
4369 return self.__class__.__name__
4370 def do_show(self, out):
4372 def get_version_info(self):
4374 return VersionInfo(self.__module__,
4381 return _object_cast_to_Restraint(o)
4383 def __disown__(self):
4385 _IMP_kernel.disown_Restraint(self)
4386 return weakref.proxy(self)
4388 def do_destroy(self):
4389 r"""do_destroy(Restraint self)"""
4390 return _IMP_kernel.Restraint_do_destroy(self)
4392 def handle_set_has_required_score_states(self, arg0):
4393 r"""handle_set_has_required_score_states(Restraint self, bool arg0)"""
4394 return _IMP_kernel.Restraint_handle_set_has_required_score_states(self, arg0)
4396 def do_get_inputs(self):
4397 r"""do_get_inputs(Restraint self) -> IMP::ModelObjectsTemp"""
4398 return _IMP_kernel.Restraint_do_get_inputs(self)
4400 def do_get_interactions(self):
4401 r"""do_get_interactions(Restraint self) -> IMP::ModelObjectsTemps"""
4402 return _IMP_kernel.Restraint_do_get_interactions(self)
4405 _IMP_kernel.Restraint_swigregister(Restraint)
4406 class _RestraintsAdaptor(_InputAdaptor):
4407 r"""Proxy of C++ IMP::RestraintsAdaptor class."""
4409 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4410 __repr__ = _swig_repr
4412 def __init__(self, *args):
4414 __init__(_RestraintsAdaptor self) -> _RestraintsAdaptor
4415 __init__(_RestraintsAdaptor self, IMP::Restraints const & sf) -> _RestraintsAdaptor
4416 __init__(_RestraintsAdaptor self, IMP::RestraintsTemp const & sf) -> _RestraintsAdaptor
4417 __init__(_RestraintsAdaptor self, Restraint sf) -> _RestraintsAdaptor
4419 _IMP_kernel._RestraintsAdaptor_swiginit(self, _IMP_kernel.new__RestraintsAdaptor(*args))
4420 __swig_destroy__ = _IMP_kernel.delete__RestraintsAdaptor
4423 _IMP_kernel._RestraintsAdaptor_swigregister(_RestraintsAdaptor)
4424 class RestraintSet(Restraint):
4425 r"""Proxy of C++ IMP::RestraintSet class."""
4427 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4429 def __init__(self, *args):
4431 __init__(RestraintSet self, Model m, double weight, std::string const & name="RestraintSet %1%") -> RestraintSet
4432 __init__(RestraintSet self, Model m, std::string const & name="RestraintSet %1%") -> RestraintSet
4433 __init__(RestraintSet self, IMP::RestraintsTemp const & rs, double weight, std::string const & name="RestraintSet %1%") -> RestraintSet
4434 __init__(RestraintSet self) -> RestraintSet
4436 if self.__class__ == RestraintSet:
4440 _IMP_kernel.RestraintSet_swiginit(self, _IMP_kernel.new_RestraintSet(_self, *args))
4442 if self.__class__ != RestraintSet:
4443 _director_objects.register(self)
4448 def unprotected_evaluate(self, da):
4449 r"""unprotected_evaluate(RestraintSet self, DerivativeAccumulator da) -> double"""
4450 return _IMP_kernel.RestraintSet_unprotected_evaluate(self, da)
4452 def get_type_name(self):
4453 r"""get_type_name(RestraintSet self) -> std::string"""
4454 return _IMP_kernel.RestraintSet_get_type_name(self)
4456 def get_version_info(self):
4457 r"""get_version_info(RestraintSet self) -> VersionInfo"""
4458 return _IMP_kernel.RestraintSet_get_version_info(self)
4459 __swig_destroy__ = _IMP_kernel.delete_RestraintSet
4460 def __get_restraints(self):
return _list_util.VarList(getdimfunc=self.get_number_of_restraints, getfunc=self.get_restraint, erasefunc=self.erase_restraint, appendfunc=self.add_restraint, extendfunc=self.add_restraints, clearfunc=self.clear_restraints, indexfunc=self._python_index_restraint)
4461 def __set_restraints(self, obj): _list_util.set_varlist(self.restraints, obj)
4462 def __del_restraints(self): _list_util.del_varlist(self.restraints)
4463 restraints = property(__get_restraints, __set_restraints, __del_restraints, doc=
"List of ##ucnames")
4465 def remove_restraint(self, d):
4466 r"""remove_restraint(RestraintSet self, Restraint d)"""
4467 return _IMP_kernel.RestraintSet_remove_restraint(self, d)
4469 def _python_index_restraint(self, d, start, stop):
4470 r"""_python_index_restraint(RestraintSet self, Restraint d, unsigned int start, unsigned int stop) -> unsigned int"""
4471 return _IMP_kernel.RestraintSet__python_index_restraint(self, d, start, stop)
4473 def remove_restraints(self, d):
4474 r"""remove_restraints(RestraintSet self, IMP::Restraints const & d)"""
4475 return _IMP_kernel.RestraintSet_remove_restraints(self, d)
4477 def set_restraints(self, ps):
4478 r"""set_restraints(RestraintSet self, IMP::Restraints const & ps)"""
4479 return _IMP_kernel.RestraintSet_set_restraints(self, ps)
4481 def set_restraints_order(self, objs):
4482 r"""set_restraints_order(RestraintSet self, IMP::Restraints const & objs)"""
4483 return _IMP_kernel.RestraintSet_set_restraints_order(self, objs)
4486 r"""add_restraint(RestraintSet self, Restraint obj) -> unsigned int"""
4487 return _IMP_kernel.RestraintSet_add_restraint(self, obj)
4490 r"""add_restraints(RestraintSet self, IMP::Restraints const & objs)"""
4491 return _IMP_kernel.RestraintSet_add_restraints(self, objs)
4493 def clear_restraints(self):
4494 r"""clear_restraints(RestraintSet self)"""
4495 return _IMP_kernel.RestraintSet_clear_restraints(self)
4497 def get_number_of_restraints(self):
4498 r"""get_number_of_restraints(RestraintSet self) -> unsigned int"""
4499 return _IMP_kernel.RestraintSet_get_number_of_restraints(self)
4501 def get_has_restraints(self):
4502 r"""get_has_restraints(RestraintSet self) -> bool"""
4503 return _IMP_kernel.RestraintSet_get_has_restraints(self)
4505 def get_restraint(self, i):
4506 r"""get_restraint(RestraintSet self, unsigned int i) -> Restraint"""
4507 return _IMP_kernel.RestraintSet_get_restraint(self, i)
4509 def get_restraints(self):
4510 r"""get_restraints(RestraintSet self) -> IMP::Restraints"""
4511 return _IMP_kernel.RestraintSet_get_restraints(self)
4513 def erase_restraint(self, i):
4514 r"""erase_restraint(RestraintSet self, unsigned int i)"""
4515 return _IMP_kernel.RestraintSet_erase_restraint(self, i)
4517 def reserve_restraints(self, sz):
4518 r"""reserve_restraints(RestraintSet self, unsigned int sz)"""
4519 return _IMP_kernel.RestraintSet_reserve_restraints(self, sz)
4521 def get_non_sets_and_sets(self):
4522 r"""get_non_sets_and_sets(RestraintSet self) -> std::pair< IMP::RestraintsTemp,IMP::RestraintSetsTemp >"""
4523 return _IMP_kernel.RestraintSet_get_non_sets_and_sets(self)
4525 def do_get_inputs(self):
4526 r"""do_get_inputs(RestraintSet self) -> IMP::ModelObjectsTemp"""
4527 return _IMP_kernel.RestraintSet_do_get_inputs(self)
4530 r"""create_scoring_function(RestraintSet self, double weight=1.0, double max=std::numeric_limits< double >::max()) -> ScoringFunction"""
4531 return _IMP_kernel.RestraintSet_create_scoring_function(self, *args)
4533 def get_last_score(self):
4534 r"""get_last_score(RestraintSet self) -> double"""
4535 return _IMP_kernel.RestraintSet_get_last_score(self)
4538 r"""__str__(RestraintSet self) -> std::string"""
4539 return _IMP_kernel.RestraintSet___str__(self)
4542 r"""__repr__(RestraintSet self) -> std::string"""
4543 return _IMP_kernel.RestraintSet___repr__(self)
4547 return _object_cast_to_RestraintSet(o)
4550 def get_type_name(self):
4551 return self.__class__.__name__
4552 def do_show(self, out):
4554 def get_version_info(self):
4556 return VersionInfo(self.__module__,
4563 return _object_cast_to_RestraintSet(o)
4566 def _get_as_binary(self):
4567 r"""_get_as_binary(RestraintSet self) -> PyObject *"""
4568 return _IMP_kernel.RestraintSet__get_as_binary(self)
4570 def _set_from_binary(self, p):
4571 r"""_set_from_binary(RestraintSet self, PyObject * p)"""
4572 return _IMP_kernel.RestraintSet__set_from_binary(self, p)
4574 def __getstate__(self):
4575 p = self._get_as_binary()
4576 if len(self.__dict__) > 1:
4577 d = self.__dict__.copy()
4582 def __setstate__(self, p):
4583 if not hasattr(self,
'this'):
4585 if isinstance(p, tuple):
4587 self.__dict__.update(d)
4588 return self._set_from_binary(p)
4590 def __disown__(self):
4592 _IMP_kernel.disown_RestraintSet(self)
4593 return weakref.proxy(self)
4595 def do_destroy(self):
4596 r"""do_destroy(RestraintSet self)"""
4597 return _IMP_kernel.RestraintSet_do_destroy(self)
4599 def handle_set_has_required_score_states(self, arg0):
4600 r"""handle_set_has_required_score_states(RestraintSet self, bool arg0)"""
4601 return _IMP_kernel.RestraintSet_handle_set_has_required_score_states(self, arg0)
4603 def do_get_outputs(self):
4604 r"""do_get_outputs(RestraintSet self) -> IMP::ModelObjectsTemp"""
4605 return _IMP_kernel.RestraintSet_do_get_outputs(self)
4607 def do_get_interactions(self):
4608 r"""do_get_interactions(RestraintSet self) -> IMP::ModelObjectsTemps"""
4609 return _IMP_kernel.RestraintSet_do_get_interactions(self)
4611 def do_create_decomposition(self):
4612 r"""do_create_decomposition(RestraintSet self) -> IMP::Restraints"""
4613 return _IMP_kernel.RestraintSet_do_create_decomposition(self)
4615 def do_create_current_decomposition(self):
4616 r"""do_create_current_decomposition(RestraintSet self) -> IMP::Restraints"""
4617 return _IMP_kernel.RestraintSet_do_create_current_decomposition(self)
4619 def do_add_score_and_derivatives(self, sa):
4620 r"""do_add_score_and_derivatives(RestraintSet self, ScoreAccumulator sa)"""
4621 return _IMP_kernel.RestraintSet_do_add_score_and_derivatives(self, sa)
4623 def do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis):
4624 r"""do_add_score_and_derivatives_moved(RestraintSet self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
4625 return _IMP_kernel.RestraintSet_do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis)
4628 _IMP_kernel.RestraintSet_swigregister(RestraintSet)
4630 def get_restraints(rs):
4631 r"""get_restraints(IMP::RestraintsTemp const & rs) -> IMP::RestraintsTemp"""
4632 return _IMP_kernel.get_restraints(rs)
4634 def _check_particle(p, a):
4635 if (
not p.get_is_active()):
4636 raise ValueError(
"Inactive Particle")
4637 if (type(a)() == a):
4638 raise IndexError(
"Cannot use default Index")
4639 if (
not p.has_attribute(a)):
4640 raise IndexError(
"Particle does not have attribute")
4642 class Particle(ModelObject):
4643 r"""Proxy of C++ IMP::Particle class."""
4645 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4647 def get_version_info(self):
4648 r"""get_version_info(Particle self) -> VersionInfo"""
4649 return _IMP_kernel.Particle_get_version_info(self)
4650 __swig_destroy__ = _IMP_kernel.delete_Particle
4652 def __init__(self, *args):
4654 __init__(Particle self, Model m, std::string name) -> Particle
4655 __init__(Particle self, Model m) -> Particle
4656 __init__(Particle self) -> Particle
4658 _IMP_kernel.Particle_swiginit(self, _IMP_kernel.new_Particle(*args))
4660 def get_float_keys(self):
4661 r"""get_float_keys(Particle self) -> IMP::FloatKeys"""
4662 return _IMP_kernel.Particle_get_float_keys(self)
4664 def get_floats_keys(self):
4665 r"""get_floats_keys(Particle self) -> IMP::FloatsKeys"""
4666 return _IMP_kernel.Particle_get_floats_keys(self)
4668 def get_int_keys(self):
4669 r"""get_int_keys(Particle self) -> IMP::IntKeys"""
4670 return _IMP_kernel.Particle_get_int_keys(self)
4672 def get_ints_keys(self):
4673 r"""get_ints_keys(Particle self) -> IMP::IntsKeys"""
4674 return _IMP_kernel.Particle_get_ints_keys(self)
4676 def get_string_keys(self):
4677 r"""get_string_keys(Particle self) -> IMP::StringKeys"""
4678 return _IMP_kernel.Particle_get_string_keys(self)
4680 def get_object_keys(self):
4681 r"""get_object_keys(Particle self) -> IMP::ObjectKeys"""
4682 return _IMP_kernel.Particle_get_object_keys(self)
4684 def add_cache_attribute(self, *args):
4686 add_cache_attribute(Particle self, FloatKey name, IMP::Float value)
4687 add_cache_attribute(Particle self, FloatsKey name, IMP::Floats value)
4688 add_cache_attribute(Particle self, IntKey name, IMP::Int value)
4689 add_cache_attribute(Particle self, IntsKey name, IMP::Ints value)
4690 add_cache_attribute(Particle self, StringKey name, IMP::String value)
4691 add_cache_attribute(Particle self, ObjectKey name, Object value)
4692 add_cache_attribute(Particle self, IMP::WeakObjectKey name, Object value)
4694 return _IMP_kernel.Particle_add_cache_attribute(self, *args)
4696 def get_weak_object_keys(self):
4697 r"""get_weak_object_keys(Particle self) -> IMP::WeakObjectKeys"""
4698 return _IMP_kernel.Particle_get_weak_object_keys(self)
4700 def add_to_derivative(self, key, value, da):
4701 r"""add_to_derivative(Particle self, FloatKey key, IMP::Float value, DerivativeAccumulator da)"""
4702 return _IMP_kernel.Particle_add_to_derivative(self, key, value, da)
4704 def set_is_optimized(self, k, tf):
4705 r"""set_is_optimized(Particle self, FloatKey k, bool tf)"""
4706 return _IMP_kernel.Particle_set_is_optimized(self, k, tf)
4708 def get_is_optimized(self, k):
4709 r"""get_is_optimized(Particle self, FloatKey k) -> bool"""
4710 return _IMP_kernel.Particle_get_is_optimized(self, k)
4712 def get_derivative(self, k):
4713 r"""get_derivative(Particle self, FloatKey k) -> IMP::Float"""
4714 return _IMP_kernel.Particle_get_derivative(self, k)
4716 def add_attribute(self, *args):
4718 add_attribute(Particle self, FloatKey name, IMP::Float initial_value)
4719 add_attribute(Particle self, FloatsKey name, IMP::Floats initial_value)
4720 add_attribute(Particle self, IntKey name, IMP::Int initial_value)
4721 add_attribute(Particle self, IntsKey name, IMP::Ints initial_value)
4722 add_attribute(Particle self, StringKey name, IMP::String initial_value)
4723 add_attribute(Particle self, ObjectKey name, Object initial_value)
4724 add_attribute(Particle self, IMP::WeakObjectKey name, Object initial_value)
4725 add_attribute(Particle self, SparseStringKey name, IMP::String initial_value)
4726 add_attribute(Particle self, SparseIntKey name, IMP::Int initial_value)
4727 add_attribute(Particle self, SparseFloatKey name, IMP::Float initial_value)
4728 add_attribute(Particle self, SparseParticleIndexKey name, ParticleIndex initial_value)
4729 add_attribute(Particle self, FloatKey name, IMP::Float const initial_value, bool optimized)
4730 add_attribute(Particle self, ParticleIndexKey k, Particle v)
4732 return _IMP_kernel.Particle_add_attribute(self, *args)
4734 def has_attribute(self, *args):
4736 has_attribute(Particle self, FloatKey name) -> bool
4737 has_attribute(Particle self, FloatsKey name) -> bool
4738 has_attribute(Particle self, IntKey name) -> bool
4739 has_attribute(Particle self, IntsKey name) -> bool
4740 has_attribute(Particle self, StringKey name) -> bool
4741 has_attribute(Particle self, ObjectKey name) -> bool
4742 has_attribute(Particle self, IMP::WeakObjectKey name) -> bool
4743 has_attribute(Particle self, SparseStringKey name) -> bool
4744 has_attribute(Particle self, SparseIntKey name) -> bool
4745 has_attribute(Particle self, SparseFloatKey name) -> bool
4746 has_attribute(Particle self, SparseParticleIndexKey name) -> bool
4747 has_attribute(Particle self, ParticleIndexKey k) -> bool
4749 return _IMP_kernel.Particle_has_attribute(self, *args)
4751 def set_value(self, *args):
4753 set_value(Particle self, FloatKey name, IMP::Float value)
4754 set_value(Particle self, FloatsKey name, IMP::Floats value)
4755 set_value(Particle self, IntKey name, IMP::Int value)
4756 set_value(Particle self, IntsKey name, IMP::Ints value)
4757 set_value(Particle self, StringKey name, IMP::String value)
4758 set_value(Particle self, ObjectKey name, Object value)
4759 set_value(Particle self, IMP::WeakObjectKey name, Object value)
4760 set_value(Particle self, SparseStringKey name, IMP::String value)
4761 set_value(Particle self, SparseIntKey name, IMP::Int value)
4762 set_value(Particle self, SparseFloatKey name, IMP::Float value)
4763 set_value(Particle self, SparseParticleIndexKey name, ParticleIndex value)
4764 set_value(Particle self, ParticleIndexKey k, Particle v)
4766 return _IMP_kernel.Particle_set_value(self, *args)
4768 def get_value(self, *args):
4770 get_value(Particle self, FloatKey name) -> IMP::Float
4771 get_value(Particle self, FloatsKey name) -> IMP::Floats
4772 get_value(Particle self, IntKey name) -> IMP::Int
4773 get_value(Particle self, IntsKey name) -> IMP::Ints
4774 get_value(Particle self, StringKey name) -> IMP::String
4775 get_value(Particle self, ObjectKey name) -> Object
4776 get_value(Particle self, IMP::WeakObjectKey name) -> Object
4777 get_value(Particle self, SparseStringKey name) -> IMP::String
4778 get_value(Particle self, SparseIntKey name) -> IMP::Int
4779 get_value(Particle self, SparseFloatKey name) -> IMP::Float
4780 get_value(Particle self, SparseParticleIndexKey name) -> ParticleIndex
4781 get_value(Particle self, ParticleIndexKey k) -> Particle
4783 return _IMP_kernel.Particle_get_value(self, *args)
4785 def remove_attribute(self, *args):
4787 remove_attribute(Particle self, FloatKey name)
4788 remove_attribute(Particle self, FloatsKey name)
4789 remove_attribute(Particle self, IntKey name)
4790 remove_attribute(Particle self, IntsKey name)
4791 remove_attribute(Particle self, StringKey name)
4792 remove_attribute(Particle self, ObjectKey name)
4793 remove_attribute(Particle self, IMP::WeakObjectKey name)
4794 remove_attribute(Particle self, SparseStringKey name)
4795 remove_attribute(Particle self, SparseIntKey name)
4796 remove_attribute(Particle self, SparseFloatKey name)
4797 remove_attribute(Particle self, SparseParticleIndexKey name)
4798 remove_attribute(Particle self, ParticleIndexKey k)
4800 return _IMP_kernel.Particle_remove_attribute(self, *args)
4802 def get_particle_keys(self):
4803 r"""get_particle_keys(Particle self) -> IMP::ParticleIndexKeys"""
4804 return _IMP_kernel.Particle_get_particle_keys(self)
4806 def show(self, *args):
4807 r"""show(Particle self, _ostream out=std::cout)"""
4808 return _IMP_kernel.Particle_show(self, *args)
4810 def get_is_active(self):
4811 r"""get_is_active(Particle self) -> bool"""
4812 return _IMP_kernel.Particle_get_is_active(self)
4815 r"""get_index(Particle self) -> ParticleIndex"""
4816 return _IMP_kernel.Particle_get_index(self)
4818 def __eq__(self, *args):
4820 __eq__(Particle self, Particle o) -> bool
4821 __eq__(Particle self, Decorator d) -> bool
4823 return _IMP_kernel.Particle___eq__(self, *args)
4825 def __ne__(self, *args):
4827 __ne__(Particle self, Particle o) -> bool
4828 __ne__(Particle self, Decorator d) -> bool
4830 return _IMP_kernel.Particle___ne__(self, *args)
4832 def __le__(self, *args):
4834 __le__(Particle self, Particle o) -> bool
4835 __le__(Particle self, Decorator d) -> bool
4837 return _IMP_kernel.Particle___le__(self, *args)
4839 def __lt__(self, *args):
4841 __lt__(Particle self, Particle o) -> bool
4842 __lt__(Particle self, Decorator d) -> bool
4844 return _IMP_kernel.Particle___lt__(self, *args)
4846 def __ge__(self, *args):
4848 __ge__(Particle self, Particle o) -> bool
4849 __ge__(Particle self, Decorator d) -> bool
4851 return _IMP_kernel.Particle___ge__(self, *args)
4853 def __gt__(self, *args):
4855 __gt__(Particle self, Particle o) -> bool
4856 __gt__(Particle self, Decorator d) -> bool
4858 return _IMP_kernel.Particle___gt__(self, *args)
4860 __hash__ = ModelObject.__hash__
4864 r"""__str__(Particle self) -> std::string"""
4865 return _IMP_kernel.Particle___str__(self)
4868 r"""__repr__(Particle self) -> std::string"""
4869 return _IMP_kernel.Particle___repr__(self)
4873 return _object_cast_to_Particle(o)
4876 def _get_as_binary(self):
4877 r"""_get_as_binary(Particle self) -> PyObject *"""
4878 return _IMP_kernel.Particle__get_as_binary(self)
4880 def _set_from_binary(self, p):
4881 r"""_set_from_binary(Particle self, PyObject * p)"""
4882 return _IMP_kernel.Particle__set_from_binary(self, p)
4884 def __getstate__(self):
4885 p = self._get_as_binary()
4886 if len(self.__dict__) > 1:
4887 d = self.__dict__.copy()
4892 def __setstate__(self, p):
4893 if not hasattr(self,
'this'):
4895 if isinstance(p, tuple):
4897 self.__dict__.update(d)
4898 return self._set_from_binary(p)
4902 _IMP_kernel.Particle_swigregister(Particle)
4903 class _ParticleAdaptor(_InputAdaptor):
4904 r"""Proxy of C++ IMP::ParticleAdaptor class."""
4906 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4907 __repr__ = _swig_repr
4909 def __init__(self, *args):
4911 __init__(_ParticleAdaptor self) -> _ParticleAdaptor
4912 __init__(_ParticleAdaptor self, Particle p) -> _ParticleAdaptor
4913 __init__(_ParticleAdaptor self, Decorator d) -> _ParticleAdaptor
4915 _IMP_kernel._ParticleAdaptor_swiginit(self, _IMP_kernel.new__ParticleAdaptor(*args))
4917 def get_model(self):
4918 r"""get_model(_ParticleAdaptor self) -> Model"""
4919 return _IMP_kernel._ParticleAdaptor_get_model(self)
4921 def get_particle_index(self):
4922 r"""get_particle_index(_ParticleAdaptor self) -> ParticleIndex"""
4923 return _IMP_kernel._ParticleAdaptor_get_particle_index(self)
4924 __swig_destroy__ = _IMP_kernel.delete__ParticleAdaptor
4927 _IMP_kernel._ParticleAdaptor_swigregister(_ParticleAdaptor)
4928 class _DependencyGraphVertexIndex(object):
4929 r"""Proxy of C++ IMP::DependencyGraphVertexIndex class."""
4931 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4932 __repr__ = _swig_repr
4935 r"""__init__(_DependencyGraphVertexIndex self) -> _DependencyGraphVertexIndex"""
4936 _IMP_kernel._DependencyGraphVertexIndex_swiginit(self, _IMP_kernel.new__DependencyGraphVertexIndex())
4937 __swig_destroy__ = _IMP_kernel.delete__DependencyGraphVertexIndex
4940 _IMP_kernel._DependencyGraphVertexIndex_swigregister(_DependencyGraphVertexIndex)
4942 def show_as_graphviz(name, out):
4943 r"""show_as_graphviz(IMP::DependencyGraph const & name, TextOutput out)"""
4944 return _IMP_kernel.show_as_graphviz(name, out)
4946 def get_vertex_index(g):
4947 r"""get_vertex_index(IMP::DependencyGraph const & g) -> _DependencyGraphVertexIndex"""
4948 return _IMP_kernel.get_vertex_index(g)
4951 r"""get_dependency_graph(Model m) -> IMP::DependencyGraph"""
4952 return _IMP_kernel.get_dependency_graph(m)
4955 r"""get_pruned_dependency_graph(Model m) -> IMP::DependencyGraph"""
4956 return _IMP_kernel.get_pruned_dependency_graph(m)
4958 def get_dependent_particles(p, all, dg, index):
4959 r"""get_dependent_particles(ModelObject p, IMP::ModelObjectsTemp const & all, IMP::DependencyGraph const & dg, _DependencyGraphVertexIndex index) -> IMP::ParticlesTemp"""
4960 return _IMP_kernel.get_dependent_particles(p, all, dg, index)
4962 def get_required_score_states(*args):
4964 get_required_score_states(IMP::ModelObjectsTemp const & mos, IMP::ScoreStatesTemp exclude=IMP::ScoreStatesTemp()) -> IMP::ScoreStatesTemp
4965 get_required_score_states(ModelObject p, IMP::ModelObjectsTemp const & all, IMP::DependencyGraph const & dg, _DependencyGraphVertexIndex index) -> IMP::ScoreStatesTemp
4966 get_required_score_states(Model m, ParticleIndex pi) -> IMP::ScoreStatesTemp
4968 return _IMP_kernel.get_required_score_states(*args)
4969 class ScoringFunction(ModelObject):
4970 r"""Proxy of C++ IMP::ScoringFunction class."""
4972 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
4974 def do_add_score_and_derivatives(self, sa, ss):
4975 r"""do_add_score_and_derivatives(ScoringFunction self, ScoreAccumulator sa, IMP::ScoreStatesTemp const & ss)"""
4976 return _IMP_kernel.ScoringFunction_do_add_score_and_derivatives(self, sa, ss)
4978 def do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis, ss):
4979 r"""do_add_score_and_derivatives_moved(ScoringFunction self, ScoreAccumulator sa, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, IMP::ScoreStatesTemp const & ss)"""
4980 return _IMP_kernel.ScoringFunction_do_add_score_and_derivatives_moved(self, sa, moved_pis, reset_pis, ss)
4982 def get_score_accumulator_if_below(self, deriv, max):
4983 r"""get_score_accumulator_if_below(ScoringFunction self, bool deriv, double max) -> ScoreAccumulator"""
4984 return _IMP_kernel.ScoringFunction_get_score_accumulator_if_below(self, deriv, max)
4986 def get_score_accumulator_if_good(self, deriv):
4987 r"""get_score_accumulator_if_good(ScoringFunction self, bool deriv) -> ScoreAccumulator"""
4988 return _IMP_kernel.ScoringFunction_get_score_accumulator_if_good(self, deriv)
4990 def get_score_accumulator(self, deriv):
4991 r"""get_score_accumulator(ScoringFunction self, bool deriv) -> ScoreAccumulator"""
4992 return _IMP_kernel.ScoringFunction_get_score_accumulator(self, deriv)
4994 def __init__(self, *args):
4996 __init__(ScoringFunction self, Model m, std::string name) -> ScoringFunction
4997 __init__(ScoringFunction self) -> ScoringFunction
4999 if self.__class__ == ScoringFunction:
5003 _IMP_kernel.ScoringFunction_swiginit(self, _IMP_kernel.new_ScoringFunction(_self, *args))
5005 if self.__class__ != ScoringFunction:
5006 _director_objects.register(self)
5011 def do_get_outputs(self):
5012 r"""do_get_outputs(ScoringFunction self) -> IMP::ModelObjectsTemp"""
5013 return _IMP_kernel.ScoringFunction_do_get_outputs(self)
5015 def evaluate(self, derivatives):
5016 r"""evaluate(ScoringFunction self, bool derivatives) -> double"""
5017 return _IMP_kernel.ScoringFunction_evaluate(self, derivatives)
5019 def evaluate_if_good(self, derivatives):
5020 r"""evaluate_if_good(ScoringFunction self, bool derivatives) -> double"""
5021 return _IMP_kernel.ScoringFunction_evaluate_if_good(self, derivatives)
5023 def evaluate_if_below(self, derivatives, max):
5024 r"""evaluate_if_below(ScoringFunction self, bool derivatives, double max) -> double"""
5025 return _IMP_kernel.ScoringFunction_evaluate_if_below(self, derivatives, max)
5027 def evaluate_moved(self, derivatives, moved_pis, reset_pis):
5028 r"""evaluate_moved(ScoringFunction self, bool derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
5029 return _IMP_kernel.ScoringFunction_evaluate_moved(self, derivatives, moved_pis, reset_pis)
5031 def evaluate_moved_if_below(self, derivatives, moved_pis, reset_pis, max):
5032 r"""evaluate_moved_if_below(ScoringFunction self, bool derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis, double max) -> double"""
5033 return _IMP_kernel.ScoringFunction_evaluate_moved_if_below(self, derivatives, moved_pis, reset_pis, max)
5035 def evaluate_moved_if_good(self, derivatives, moved_pis, reset_pis):
5036 r"""evaluate_moved_if_good(ScoringFunction self, bool derivatives, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis) -> double"""
5037 return _IMP_kernel.ScoringFunction_evaluate_moved_if_good(self, derivatives, moved_pis, reset_pis)
5039 def get_had_good_score(self):
5040 r"""get_had_good_score(ScoringFunction self) -> bool"""
5041 return _IMP_kernel.ScoringFunction_get_had_good_score(self)
5043 def get_last_score(self):
5044 r"""get_last_score(ScoringFunction self) -> double"""
5045 return _IMP_kernel.ScoringFunction_get_last_score(self)
5048 r"""create_restraints(ScoringFunction self) -> IMP::Restraints"""
5049 return _IMP_kernel.ScoringFunction_create_restraints(self)
5052 r"""__str__(ScoringFunction self) -> std::string"""
5053 return _IMP_kernel.ScoringFunction___str__(self)
5056 r"""__repr__(ScoringFunction self) -> std::string"""
5057 return _IMP_kernel.ScoringFunction___repr__(self)
5061 return _object_cast_to_ScoringFunction(o)
5064 def get_type_name(self):
5065 return self.__class__.__name__
5066 def do_show(self, out):
5068 def get_version_info(self):
5070 return VersionInfo(self.__module__,
5077 return _object_cast_to_ScoringFunction(o)
5079 __swig_destroy__ = _IMP_kernel.delete_ScoringFunction
5080 def __disown__(self):
5082 _IMP_kernel.disown_ScoringFunction(self)
5083 return weakref.proxy(self)
5085 def do_destroy(self):
5086 r"""do_destroy(ScoringFunction self)"""
5087 return _IMP_kernel.ScoringFunction_do_destroy(self)
5089 def handle_set_has_required_score_states(self, arg0):
5090 r"""handle_set_has_required_score_states(ScoringFunction self, bool arg0)"""
5091 return _IMP_kernel.ScoringFunction_handle_set_has_required_score_states(self, arg0)
5093 def do_get_inputs(self):
5094 r"""do_get_inputs(ScoringFunction self) -> IMP::ModelObjectsTemp"""
5095 return _IMP_kernel.ScoringFunction_do_get_inputs(self)
5097 def do_get_interactions(self):
5098 r"""do_get_interactions(ScoringFunction self) -> IMP::ModelObjectsTemps"""
5099 return _IMP_kernel.ScoringFunction_do_get_interactions(self)
5102 _IMP_kernel.ScoringFunction_swigregister(ScoringFunction)
5106 create_decomposition(IMP::RestraintsTemp const & rs) -> IMP::Restraints
5107 create_decomposition(ScoringFunction sf) -> IMP::ScoringFunctions
5109 return _IMP_kernel.create_decomposition(*args)
5110 class _ScoringFunctionAdaptor(_InputAdaptor):
5111 r"""Proxy of C++ IMP::ScoringFunctionAdaptor class."""
5113 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5114 __repr__ = _swig_repr
5116 def __init__(self, *args):
5118 __init__(_ScoringFunctionAdaptor self) -> _ScoringFunctionAdaptor
5119 __init__(_ScoringFunctionAdaptor self, ScoringFunction sf) -> _ScoringFunctionAdaptor
5120 __init__(_ScoringFunctionAdaptor self, IMP::RestraintsTemp const & sf) -> _ScoringFunctionAdaptor
5121 __init__(_ScoringFunctionAdaptor self, IMP::Restraints const & sf) -> _ScoringFunctionAdaptor
5122 __init__(_ScoringFunctionAdaptor self, Restraint sf) -> _ScoringFunctionAdaptor
5124 _IMP_kernel._ScoringFunctionAdaptor_swiginit(self, _IMP_kernel.new__ScoringFunctionAdaptor(*args))
5125 __swig_destroy__ = _IMP_kernel.delete__ScoringFunctionAdaptor
5128 _IMP_kernel._ScoringFunctionAdaptor_swigregister(_ScoringFunctionAdaptor)
5131 r"""show_restraint_hierarchy(_ScoringFunctionAdaptor rs, _ostream out=std::cout)"""
5132 return _IMP_kernel.show_restraint_hierarchy(*args)
5133 class Undecorator(Object):
5134 r"""Proxy of C++ IMP::Undecorator class."""
5136 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5138 def __init__(self, m, name):
5139 r"""__init__(Undecorator self, Model m, std::string name) -> Undecorator"""
5140 if self.__class__ == Undecorator:
5144 _IMP_kernel.Undecorator_swiginit(self, _IMP_kernel.new_Undecorator(_self, m, name))
5146 if self.__class__ != Undecorator:
5147 _director_objects.register(self)
5152 def teardown(self, pi):
5153 r"""teardown(Undecorator self, ParticleIndex pi)"""
5154 return _IMP_kernel.Undecorator_teardown(self, pi)
5157 r"""__str__(Undecorator self) -> std::string"""
5158 return _IMP_kernel.Undecorator___str__(self)
5161 r"""__repr__(Undecorator self) -> std::string"""
5162 return _IMP_kernel.Undecorator___repr__(self)
5166 return _object_cast_to_Undecorator(o)
5169 def get_type_name(self):
5170 return self.__class__.__name__
5171 def do_show(self, out):
5173 def get_version_info(self):
5175 return VersionInfo(self.__module__,
5182 return _object_cast_to_Undecorator(o)
5184 __swig_destroy__ = _IMP_kernel.delete_Undecorator
5185 def __disown__(self):
5187 _IMP_kernel.disown_Undecorator(self)
5188 return weakref.proxy(self)
5190 def do_destroy(self):
5191 r"""do_destroy(Undecorator self)"""
5192 return _IMP_kernel.Undecorator_do_destroy(self)
5195 _IMP_kernel.Undecorator_swigregister(Undecorator)
5196 class Model(Object):
5197 r"""Proxy of C++ IMP::Model class."""
5199 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5201 def __init__(self, *args):
5202 r"""__init__(Model self, std::string name="Model %1%") -> Model"""
5203 _IMP_kernel.Model_swiginit(self, _IMP_kernel.new_Model(*args))
5205 if self
not in _models_set:
5206 _models_set.add(self)
5211 def clear_particle_caches(self, pi):
5212 r"""clear_particle_caches(Model self, ParticleIndex pi)"""
5213 return _IMP_kernel.Model_clear_particle_caches(self, pi)
5216 r"""add_particle(Model self, std::string name) -> ParticleIndex"""
5217 return _IMP_kernel.Model_add_particle(self, name)
5219 def get_particle_name(self, pi):
5220 r"""get_particle_name(Model self, ParticleIndex pi) -> std::string"""
5221 return _IMP_kernel.Model_get_particle_name(self, pi)
5223 def add_undecorator(self, pi, d):
5224 r"""add_undecorator(Model self, ParticleIndex pi, Undecorator d)"""
5225 return _IMP_kernel.Model_add_undecorator(self, pi, d)
5227 def get_dependent_restraints_uncached(self, pi):
5228 r"""get_dependent_restraints_uncached(Model self, ParticleIndex pi) -> IMP::RestraintsTemp"""
5229 return _IMP_kernel.Model_get_dependent_restraints_uncached(self, pi)
5231 def get_dependent_particles_uncached(self, pi):
5232 r"""get_dependent_particles_uncached(Model self, ParticleIndex pi) -> IMP::ParticlesTemp"""
5233 return _IMP_kernel.Model_get_dependent_particles_uncached(self, pi)
5235 def get_dependent_score_states_uncached(self, pi):
5236 r"""get_dependent_score_states_uncached(Model self, ParticleIndex pi) -> IMP::ScoreStatesTemp"""
5237 return _IMP_kernel.Model_get_dependent_score_states_uncached(self, pi)
5238 def __get_score_states(self):
return _list_util.VarList(getdimfunc=self.get_number_of_score_states, getfunc=self.get_score_state, erasefunc=self.erase_score_state, appendfunc=self.add_score_state, extendfunc=self.add_score_states, clearfunc=self.clear_score_states, indexfunc=self._python_index_score_state)
5239 def __set_score_states(self, obj): _list_util.set_varlist(self.score_states, obj)
5240 def __del_score_states(self): _list_util.del_varlist(self.score_states)
5241 score_states = property(__get_score_states, __set_score_states, __del_score_states, doc=
"List of ##ucnames")
5243 def remove_score_state(self, d):
5244 r"""remove_score_state(Model self, ScoreState d)"""
5245 return _IMP_kernel.Model_remove_score_state(self, d)
5247 def _python_index_score_state(self, d, start, stop):
5248 r"""_python_index_score_state(Model self, ScoreState d, unsigned int start, unsigned int stop) -> unsigned int"""
5249 return _IMP_kernel.Model__python_index_score_state(self, d, start, stop)
5251 def remove_score_states(self, d):
5252 r"""remove_score_states(Model self, IMP::ScoreStates const & d)"""
5253 return _IMP_kernel.Model_remove_score_states(self, d)
5255 def set_score_states(self, ps):
5256 r"""set_score_states(Model self, IMP::ScoreStates const & ps)"""
5257 return _IMP_kernel.Model_set_score_states(self, ps)
5259 def set_score_states_order(self, objs):
5260 r"""set_score_states_order(Model self, IMP::ScoreStates const & objs)"""
5261 return _IMP_kernel.Model_set_score_states_order(self, objs)
5263 def add_score_state(self, obj):
5264 r"""add_score_state(Model self, ScoreState obj) -> unsigned int"""
5265 return _IMP_kernel.Model_add_score_state(self, obj)
5267 def add_score_states(self, objs):
5268 r"""add_score_states(Model self, IMP::ScoreStates const & objs)"""
5269 return _IMP_kernel.Model_add_score_states(self, objs)
5271 def clear_score_states(self):
5272 r"""clear_score_states(Model self)"""
5273 return _IMP_kernel.Model_clear_score_states(self)
5275 def get_number_of_score_states(self):
5276 r"""get_number_of_score_states(Model self) -> unsigned int"""
5277 return _IMP_kernel.Model_get_number_of_score_states(self)
5279 def get_has_score_states(self):
5280 r"""get_has_score_states(Model self) -> bool"""
5281 return _IMP_kernel.Model_get_has_score_states(self)
5283 def get_score_state(self, i):
5284 r"""get_score_state(Model self, unsigned int i) -> ScoreState"""
5285 return _IMP_kernel.Model_get_score_state(self, i)
5287 def get_score_states(self):
5288 r"""get_score_states(Model self) -> IMP::ScoreStates"""
5289 return _IMP_kernel.Model_get_score_states(self)
5291 def erase_score_state(self, i):
5292 r"""erase_score_state(Model self, unsigned int i)"""
5293 return _IMP_kernel.Model_erase_score_state(self, i)
5295 def reserve_score_states(self, sz):
5296 r"""reserve_score_states(Model self, unsigned int sz)"""
5297 return _IMP_kernel.Model_reserve_score_states(self, sz)
5300 r"""update(Model self)"""
5301 return _IMP_kernel.Model_update(self)
5303 def add_cache_attribute(self, *args):
5305 add_cache_attribute(Model self, FloatKey attribute_key, ParticleIndex particle, IMP::Float value)
5306 add_cache_attribute(Model self, IntKey attribute_key, ParticleIndex particle, IMP::Int value)
5307 add_cache_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle, IMP::Floats value)
5308 add_cache_attribute(Model self, IntsKey attribute_key, ParticleIndex particle, IMP::Ints value)
5309 add_cache_attribute(Model self, StringKey attribute_key, ParticleIndex particle, IMP::String value)
5310 add_cache_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle, IMP::ParticleIndexes value)
5311 add_cache_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
5312 add_cache_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle, Object value)
5313 add_cache_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle, Object value)
5315 return _IMP_kernel.Model_add_cache_attribute(self, *args)
5317 def add_attribute(self, *args):
5319 add_attribute(Model self, FloatKey attribute_key, ParticleIndex particle, IMP::Float value)
5320 add_attribute(Model self, IntKey attribute_key, ParticleIndex particle, IMP::Int value)
5321 add_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle, IMP::Floats value)
5322 add_attribute(Model self, IntsKey attribute_key, ParticleIndex particle, IMP::Ints value)
5323 add_attribute(Model self, StringKey attribute_key, ParticleIndex particle, IMP::String value)
5324 add_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle, IMP::ParticleIndexes value)
5325 add_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
5326 add_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle, Object value)
5327 add_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle, Object value)
5328 add_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle, IMP::String value)
5329 add_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle, IMP::Int value)
5330 add_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle, IMP::Float value)
5331 add_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
5333 return _IMP_kernel.Model_add_attribute(self, *args)
5335 def remove_attribute(self, *args):
5337 remove_attribute(Model self, FloatKey attribute_key, ParticleIndex particle)
5338 remove_attribute(Model self, IntKey attribute_key, ParticleIndex particle)
5339 remove_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle)
5340 remove_attribute(Model self, IntsKey attribute_key, ParticleIndex particle)
5341 remove_attribute(Model self, StringKey attribute_key, ParticleIndex particle)
5342 remove_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle)
5343 remove_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle)
5344 remove_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle)
5345 remove_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle)
5346 remove_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle)
5347 remove_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle)
5348 remove_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle)
5349 remove_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle)
5351 return _IMP_kernel.Model_remove_attribute(self, *args)
5353 def get_has_attribute(self, *args):
5355 get_has_attribute(Model self, FloatKey attribute_key, ParticleIndex particle) -> bool
5356 get_has_attribute(Model self, IntKey attribute_key, ParticleIndex particle) -> bool
5357 get_has_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle) -> bool
5358 get_has_attribute(Model self, IntsKey attribute_key, ParticleIndex particle) -> bool
5359 get_has_attribute(Model self, StringKey attribute_key, ParticleIndex particle) -> bool
5360 get_has_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle) -> bool
5361 get_has_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle) -> bool
5362 get_has_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle) -> bool
5363 get_has_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle) -> bool
5364 get_has_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle) -> bool
5365 get_has_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle) -> bool
5366 get_has_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle) -> bool
5367 get_has_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle) -> bool
5369 return _IMP_kernel.Model_get_has_attribute(self, *args)
5371 def set_attribute(self, *args):
5373 set_attribute(Model self, FloatKey attribute_key, ParticleIndex particle, IMP::Float value)
5374 set_attribute(Model self, IntKey attribute_key, ParticleIndex particle, IMP::Int value)
5375 set_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle, IMP::Floats value)
5376 set_attribute(Model self, IntsKey attribute_key, ParticleIndex particle, IMP::Ints value)
5377 set_attribute(Model self, StringKey attribute_key, ParticleIndex particle, IMP::String value)
5378 set_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle, IMP::ParticleIndexes value)
5379 set_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
5380 set_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle, Object value)
5381 set_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle, Object value)
5382 set_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle, IMP::String value)
5383 set_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle, IMP::Int value)
5384 set_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle, IMP::Float value)
5385 set_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle, ParticleIndex value)
5387 return _IMP_kernel.Model_set_attribute(self, *args)
5389 def get_attribute(self, *args):
5391 get_attribute(Model self, FloatKey attribute_key, ParticleIndex particle) -> IMP::Float
5392 get_attribute(Model self, IntKey attribute_key, ParticleIndex particle) -> IMP::Int
5393 get_attribute(Model self, FloatsKey attribute_key, ParticleIndex particle) -> IMP::Floats
5394 get_attribute(Model self, IntsKey attribute_key, ParticleIndex particle) -> IMP::Ints
5395 get_attribute(Model self, StringKey attribute_key, ParticleIndex particle) -> IMP::String
5396 get_attribute(Model self, ParticleIndexesKey attribute_key, ParticleIndex particle) -> IMP::ParticleIndexes
5397 get_attribute(Model self, ParticleIndexKey attribute_key, ParticleIndex particle) -> ParticleIndex
5398 get_attribute(Model self, ObjectKey attribute_key, ParticleIndex particle) -> Object
5399 get_attribute(Model self, IMP::WeakObjectKey attribute_key, ParticleIndex particle) -> Object
5400 get_attribute(Model self, SparseStringKey attribute_key, ParticleIndex particle) -> IMP::String
5401 get_attribute(Model self, SparseIntKey attribute_key, ParticleIndex particle) -> IMP::Int
5402 get_attribute(Model self, SparseFloatKey attribute_key, ParticleIndex particle) -> IMP::Float
5403 get_attribute(Model self, SparseParticleIndexKey attribute_key, ParticleIndex particle) -> ParticleIndex
5405 return _IMP_kernel.Model_get_attribute(self, *args)
5407 def set_is_optimized(self, arg2, arg3, arg4):
5408 r"""set_is_optimized(Model self, FloatKey arg2, ParticleIndex arg3, bool arg4)"""
5409 return _IMP_kernel.Model_set_is_optimized(self, arg2, arg3, arg4)
5411 def add_to_derivative(self, k, particle, v, da):
5412 r"""add_to_derivative(Model self, FloatKey k, ParticleIndex particle, double v, DerivativeAccumulator da)"""
5413 return _IMP_kernel.Model_add_to_derivative(self, k, particle, v, da)
5415 def get_particle(self, p):
5416 r"""get_particle(Model self, ParticleIndex p) -> Particle"""
5417 return _IMP_kernel.Model_get_particle(self, p)
5419 def get_has_particle(self, p):
5420 r"""get_has_particle(Model self, ParticleIndex p) -> bool"""
5421 return _IMP_kernel.Model_get_has_particle(self, p)
5424 r"""get_particle_indexes(Model self) -> IMP::ParticleIndexes"""
5425 return _IMP_kernel.Model_get_particle_indexes(self)
5427 def get_model_objects(self):
5428 r"""get_model_objects(Model self) -> IMP::ModelObjectsTemp"""
5429 return _IMP_kernel.Model_get_model_objects(self)
5431 def remove_particle(self, pi):
5432 r"""remove_particle(Model self, ParticleIndex pi)"""
5433 return _IMP_kernel.Model_remove_particle(self, pi)
5435 def add_data(self, mk, o):
5436 r"""add_data(Model self, ModelKey mk, Object o)"""
5437 return _IMP_kernel.Model_add_data(self, mk, o)
5439 def get_data(self, mk):
5440 r"""get_data(Model self, ModelKey mk) -> Object"""
5441 return _IMP_kernel.Model_get_data(self, mk)
5443 def remove_data(self, mk):
5444 r"""remove_data(Model self, ModelKey mk)"""
5445 return _IMP_kernel.Model_remove_data(self, mk)
5447 def get_has_data(self, mk):
5448 r"""get_has_data(Model self, ModelKey mk) -> bool"""
5449 return _IMP_kernel.Model_get_has_data(self, mk)
5452 r"""get_age(Model self) -> unsigned int"""
5453 return _IMP_kernel.Model_get_age(self)
5455 def get_trigger_last_updated(self, tk):
5456 r"""get_trigger_last_updated(Model self, TriggerKey tk) -> unsigned int"""
5457 return _IMP_kernel.Model_get_trigger_last_updated(self, tk)
5459 def set_trigger_updated(self, tk):
5460 r"""set_trigger_updated(Model self, TriggerKey tk)"""
5461 return _IMP_kernel.Model_set_trigger_updated(self, tk)
5463 def get_dependencies_updated(self):
5464 r"""get_dependencies_updated(Model self) -> unsigned int"""
5465 return _IMP_kernel.Model_get_dependencies_updated(self)
5467 def save_dependencies(self):
5468 r"""save_dependencies(Model self)"""
5469 return _IMP_kernel.Model_save_dependencies(self)
5471 def restore_dependencies(self):
5472 r"""restore_dependencies(Model self)"""
5473 return _IMP_kernel.Model_restore_dependencies(self)
5475 def get_particles_size(self):
5476 r"""get_particles_size(Model self) -> unsigned int"""
5477 return _IMP_kernel.Model_get_particles_size(self)
5479 def get_unique_id(self):
5480 r"""get_unique_id(Model self) -> uint32_t"""
5481 return _IMP_kernel.Model_get_unique_id(self)
5484 def get_by_unique_id(id):
5485 r"""get_by_unique_id(uint32_t id) -> Model"""
5486 return _IMP_kernel.Model_get_by_unique_id(id)
5488 def get_version_info(self):
5489 r"""get_version_info(Model self) -> VersionInfo"""
5490 return _IMP_kernel.Model_get_version_info(self)
5491 __swig_destroy__ = _IMP_kernel.delete_Model
5493 r"""__del__(Model self)"""
5495 _director_objects.cleanup()
5501 def do_destroy(self):
5502 r"""do_destroy(Model self)"""
5503 return _IMP_kernel.Model_do_destroy(self)
5506 r"""__str__(Model self) -> std::string"""
5507 return _IMP_kernel.Model___str__(self)
5510 r"""__repr__(Model self) -> std::string"""
5511 return _IMP_kernel.Model___repr__(self)
5515 return _object_cast_to_Model(o)
5518 def _get_as_binary(self):
5519 r"""_get_as_binary(Model self) -> PyObject *"""
5520 return _IMP_kernel.Model__get_as_binary(self)
5522 def _set_from_binary(self, p):
5523 r"""_set_from_binary(Model self, PyObject * p)"""
5524 return _IMP_kernel.Model__set_from_binary(self, p)
5526 def __getstate__(self):
5527 p = self._get_as_binary()
5528 if len(self.__dict__) > 1:
5529 d = self.__dict__.copy()
5534 def __setstate__(self, p):
5535 if not hasattr(self,
'this'):
5537 if isinstance(p, tuple):
5539 self.__dict__.update(d)
5540 return self._set_from_binary(p)
5544 """Get the model's attribute array for IntKey k as a NumPy array.
5545 The array is indexed by ParticleIndex; particles that don't have
5546 this attribute will either be off the end of the array or will have
5548 This is a NumPy view that shares memory with the Model. Thus,
5549 any changes to values in this list will be reflected in the Model.
5550 Also, if the Model attribute array moves in memory (e.g. if particles
5551 or attributes are added) this array will be invalidated, so it is
5552 unsafe to keep it around long term.
5554 return _get_ints_numpy(self, k, self)
5557 """Get the model's attribute array for FloatKey k as a NumPy array.
5558 See Model::get_ints_numpy() for more details."""
5559 return _get_floats_numpy(self, k, self)
5562 """Get the model's attribute derivatives array for FloatKey k
5563 as a NumPy array. See Model::get_ints_numpy() for more details."""
5564 return _get_derivatives_numpy(self, k, self)
5567 """Get the model's XYZR attribute arrays as NumPy arrays.
5568 The attribute arrays for Cartesian coordinates and radii are
5569 stored separately from those for other FloatKeys. This function
5570 returns a tuple of two NumPy arrays, the first of coordinates and
5571 the second of radii. See Model::get_ints_numpy() for more details."""
5572 return _get_spheres_numpy(self, self)
5575 """Get the model's XYZR attribute derivatives arrays as NumPy arrays.
5576 See Model::get_ints_numpy() for more details."""
5577 return _get_sphere_derivatives_numpy(self, self)
5581 _IMP_kernel.Model_swigregister(Model)
5583 r"""Proxy of C++ IMP::Decorator class."""
5585 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5586 __repr__ = _swig_repr
5588 def __init__(self, p):
5589 r"""__init__(Decorator self, _ParticleAdaptor p) -> Decorator"""
5590 _IMP_kernel.Decorator_swiginit(self, _IMP_kernel.new_Decorator(p))
5592 def __ne__(self, o):
5593 r"""__ne__(Decorator self, Object o) -> bool"""
5594 return _IMP_kernel.Decorator___ne__(self, o)
5596 def __lt__(self, o):
5597 r"""__lt__(Decorator self, Object o) -> bool"""
5598 return _IMP_kernel.Decorator___lt__(self, o)
5600 def __gt__(self, o):
5601 r"""__gt__(Decorator self, Object o) -> bool"""
5602 return _IMP_kernel.Decorator___gt__(self, o)
5604 def __ge__(self, o):
5605 r"""__ge__(Decorator self, Object o) -> bool"""
5606 return _IMP_kernel.Decorator___ge__(self, o)
5608 def __le__(self, o):
5609 r"""__le__(Decorator self, Object o) -> bool"""
5610 return _IMP_kernel.Decorator___le__(self, o)
5613 r"""get_particle(Decorator self) -> Particle"""
5614 return _IMP_kernel.Decorator_get_particle(self)
5616 def get_particle_index(self):
5617 r"""get_particle_index(Decorator self) -> ParticleIndex"""
5618 return _IMP_kernel.Decorator_get_particle_index(self)
5620 def get_model(self):
5621 m = _IMP_kernel.Decorator_get_model(self)
5622 if m
in _models_set:
5623 m = _models_set_get(m)
5628 def get_is_valid(self):
5629 r"""get_is_valid(Decorator self) -> bool"""
5630 return _IMP_kernel.Decorator_get_is_valid(self)
5633 r"""__hash__(Decorator self) -> std::size_t"""
5634 return _IMP_kernel.Decorator___hash__(self)
5636 def __eq__(self, *args):
5638 __eq__(Decorator self, Object o) -> bool
5639 __eq__(Decorator self, Decorator o) -> bool
5640 __eq__(Decorator self, Particle o) -> bool
5642 return _IMP_kernel.Decorator___eq__(self, *args)
5645 r"""__bool__(Decorator self) -> bool"""
5646 return _IMP_kernel.Decorator___bool__(self)
5647 __swig_destroy__ = _IMP_kernel.delete_Decorator
5650 _IMP_kernel.Decorator_swigregister(Decorator)
5652 def check_particle(m, pi):
5653 r"""check_particle(Model m, ParticleIndex pi)"""
5654 return _IMP_kernel.check_particle(m, pi)
5656 r"""Proxy of C++ IMP::UnaryFunction class."""
5658 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5660 def __init__(self, *args):
5661 r"""__init__(UnaryFunction self, std::string name="UnaryFunction%1%") -> UnaryFunction"""
5662 if self.__class__ == UnaryFunction:
5666 _IMP_kernel.UnaryFunction_swiginit(self, _IMP_kernel.new_UnaryFunction(_self, *args))
5668 if self.__class__ != UnaryFunction:
5669 _director_objects.register(self)
5674 def evaluate(self, feature):
5675 r"""evaluate(UnaryFunction self, double feature) -> double"""
5676 return _IMP_kernel.UnaryFunction_evaluate(self, feature)
5678 def evaluate_with_derivative(self, feature):
5679 r"""evaluate_with_derivative(UnaryFunction self, double feature) -> IMP::DerivativePair"""
5680 return _IMP_kernel.UnaryFunction_evaluate_with_derivative(self, feature)
5681 __swig_destroy__ = _IMP_kernel.delete_UnaryFunction
5684 r"""__str__(UnaryFunction self) -> std::string"""
5685 return _IMP_kernel.UnaryFunction___str__(self)
5688 r"""__repr__(UnaryFunction self) -> std::string"""
5689 return _IMP_kernel.UnaryFunction___repr__(self)
5693 return _object_cast_to_UnaryFunction(o)
5696 def get_type_name(self):
5697 return self.__class__.__name__
5698 def do_show(self, out):
5702 return VersionInfo(self.__module__,
5709 return _object_cast_to_UnaryFunction(o)
5711 def __disown__(self):
5713 _IMP_kernel.disown_UnaryFunction(self)
5714 return weakref.proxy(self)
5717 r"""do_destroy(UnaryFunction self)"""
5718 return _IMP_kernel.UnaryFunction_do_destroy(self)
5721 _IMP_kernel.UnaryFunction_swigregister(UnaryFunction)
5722 class OptimizerState(ModelObject):
5723 r"""Proxy of C++ IMP::OptimizerState class."""
5725 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5727 def __init__(self, *args):
5729 __init__(OptimizerState self, Model m, std::string name) -> OptimizerState
5730 __init__(OptimizerState self) -> OptimizerState
5732 if self.__class__ == OptimizerState:
5736 _IMP_kernel.OptimizerState_swiginit(self, _IMP_kernel.new_OptimizerState(_self, *args))
5738 if self.__class__ != OptimizerState:
5739 _director_objects.register(self)
5745 r"""update(OptimizerState self)"""
5746 return _IMP_kernel.OptimizerState_update(self)
5748 def set_is_optimizing(self, arg0):
5749 r"""set_is_optimizing(OptimizerState self, bool arg0)"""
5750 return _IMP_kernel.OptimizerState_set_is_optimizing(self, arg0)
5752 def get_optimizer(self):
5753 r"""get_optimizer(OptimizerState self) -> Optimizer"""
5754 return _IMP_kernel.OptimizerState_get_optimizer(self)
5756 def set_period(self, p):
5757 r"""set_period(OptimizerState self, unsigned int p)"""
5758 return _IMP_kernel.OptimizerState_set_period(self, p)
5760 def get_period(self):
5761 r"""get_period(OptimizerState self) -> unsigned int"""
5762 return _IMP_kernel.OptimizerState_get_period(self)
5765 r"""reset(OptimizerState self)"""
5766 return _IMP_kernel.OptimizerState_reset(self)
5768 def update_always(self):
5769 r"""update_always(OptimizerState self)"""
5770 return _IMP_kernel.OptimizerState_update_always(self)
5772 def get_number_of_updates(self):
5773 r"""get_number_of_updates(OptimizerState self) -> unsigned int"""
5774 return _IMP_kernel.OptimizerState_get_number_of_updates(self)
5776 def set_number_of_updates(self, n):
5777 r"""set_number_of_updates(OptimizerState self, unsigned int n)"""
5778 return _IMP_kernel.OptimizerState_set_number_of_updates(self, n)
5779 __swig_destroy__ = _IMP_kernel.delete_OptimizerState
5781 def do_update(self, arg0):
5782 r"""do_update(OptimizerState self, unsigned int arg0)"""
5783 return _IMP_kernel.OptimizerState_do_update(self, arg0)
5785 def do_set_is_optimizing(self, arg0):
5786 r"""do_set_is_optimizing(OptimizerState self, bool arg0)"""
5787 return _IMP_kernel.OptimizerState_do_set_is_optimizing(self, arg0)
5789 def do_get_inputs(self):
5790 r"""do_get_inputs(OptimizerState self) -> IMP::ModelObjectsTemp"""
5791 return _IMP_kernel.OptimizerState_do_get_inputs(self)
5793 def do_get_outputs(self):
5794 r"""do_get_outputs(OptimizerState self) -> IMP::ModelObjectsTemp"""
5795 return _IMP_kernel.OptimizerState_do_get_outputs(self)
5798 r"""__str__(OptimizerState self) -> std::string"""
5799 return _IMP_kernel.OptimizerState___str__(self)
5802 r"""__repr__(OptimizerState self) -> std::string"""
5803 return _IMP_kernel.OptimizerState___repr__(self)
5807 return _object_cast_to_OptimizerState(o)
5810 def get_type_name(self):
5811 return self.__class__.__name__
5812 def do_show(self, out):
5816 return VersionInfo(self.__module__,
5823 return _object_cast_to_OptimizerState(o)
5825 def __disown__(self):
5827 _IMP_kernel.disown_OptimizerState(self)
5828 return weakref.proxy(self)
5831 r"""do_destroy(OptimizerState self)"""
5832 return _IMP_kernel.OptimizerState_do_destroy(self)
5834 def handle_set_has_required_score_states(self, arg0):
5835 r"""handle_set_has_required_score_states(OptimizerState self, bool arg0)"""
5836 return _IMP_kernel.OptimizerState_handle_set_has_required_score_states(self, arg0)
5838 def do_get_interactions(self):
5839 r"""do_get_interactions(OptimizerState self) -> IMP::ModelObjectsTemps"""
5840 return _IMP_kernel.OptimizerState_do_get_interactions(self)
5843 _IMP_kernel.OptimizerState_swigregister(OptimizerState)
5844 class Refiner(_ParticleInputs,
Object):
5845 r"""Proxy of C++ IMP::Refiner class."""
5847 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5849 def __init__(self, *args):
5850 r"""__init__(Refiner self, std::string name="Refiner %1%", bool is_by_ref=False) -> Refiner"""
5851 if self.__class__ == Refiner:
5855 _IMP_kernel.Refiner_swiginit(self, _IMP_kernel.new_Refiner(_self, *args))
5857 if self.__class__ != Refiner:
5858 _director_objects.register(self)
5863 def get_can_refine(self, arg0):
5864 r"""get_can_refine(Refiner self, Particle arg0) -> bool"""
5865 return _IMP_kernel.Refiner_get_can_refine(self, arg0)
5867 def get_refined_indexes(self, m, pi):
5868 r"""get_refined_indexes(Refiner self, Model m, ParticleIndex pi) -> IMP::ParticleIndexes"""
5869 return _IMP_kernel.Refiner_get_refined_indexes(self, m, pi)
5871 def get_refined_indexes_by_ref(self, m, pi):
5872 r"""get_refined_indexes_by_ref(Refiner self, Model m, ParticleIndex pi) -> IMP::ParticleIndexes const &"""
5873 return _IMP_kernel.Refiner_get_refined_indexes_by_ref(self, m, pi)
5875 def get_is_by_ref_supported(self):
5876 r"""get_is_by_ref_supported(Refiner self) -> bool"""
5877 return _IMP_kernel.Refiner_get_is_by_ref_supported(self)
5879 def get_refined(self, *args):
5881 get_refined(Refiner self, Particle a) -> IMP::ParticlesTemp const
5882 get_refined(Refiner self, Particle a, unsigned int i) -> Particle
5884 return _IMP_kernel.Refiner_get_refined(self, *args)
5886 def get_number_of_refined(self, a):
5887 r"""get_number_of_refined(Refiner self, Particle a) -> unsigned int"""
5888 return _IMP_kernel.Refiner_get_number_of_refined(self, a)
5891 r"""__str__(Refiner self) -> std::string"""
5892 return _IMP_kernel.Refiner___str__(self)
5895 r"""__repr__(Refiner self) -> std::string"""
5896 return _IMP_kernel.Refiner___repr__(self)
5900 return _object_cast_to_Refiner(o)
5903 def get_type_name(self):
5904 return self.__class__.__name__
5905 def do_show(self, out):
5909 return VersionInfo(self.__module__,
5916 return _object_cast_to_Refiner(o)
5918 __swig_destroy__ = _IMP_kernel.delete_Refiner
5919 def __disown__(self):
5921 _IMP_kernel.disown_Refiner(self)
5922 return weakref.proxy(self)
5924 def do_get_inputs(self, m, pis):
5925 r"""do_get_inputs(Refiner self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
5926 return _IMP_kernel.Refiner_do_get_inputs(self, m, pis)
5929 r"""do_destroy(Refiner self)"""
5930 return _IMP_kernel.Refiner_do_destroy(self)
5933 _IMP_kernel.Refiner_swigregister(Refiner)
5934 class Optimizer(ModelObject):
5935 r"""Proxy of C++ IMP::Optimizer class."""
5937 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5939 def set_is_optimizing_states(self, tf):
5940 r"""set_is_optimizing_states(Optimizer self, bool tf)"""
5941 return _IMP_kernel.Optimizer_set_is_optimizing_states(self, tf)
5943 def get_optimizer_state_inputs(self):
5944 r"""get_optimizer_state_inputs(Optimizer self) -> IMP::ModelObjectsTemp"""
5945 return _IMP_kernel.Optimizer_get_optimizer_state_inputs(self)
5947 def do_get_inputs(self):
5948 r"""do_get_inputs(Optimizer self) -> IMP::ModelObjectsTemp"""
5949 return _IMP_kernel.Optimizer_do_get_inputs(self)
5951 def do_get_outputs(self):
5952 r"""do_get_outputs(Optimizer self) -> IMP::ModelObjectsTemp"""
5953 return _IMP_kernel.Optimizer_do_get_outputs(self)
5955 def __init__(self, *args):
5957 __init__(Optimizer self, Model m, std::string name="Optimizer %1%") -> Optimizer
5958 __init__(Optimizer self) -> Optimizer
5960 if self.__class__ == Optimizer:
5964 _IMP_kernel.Optimizer_swiginit(self, _IMP_kernel.new_Optimizer(_self, *args))
5966 if self.__class__ != Optimizer:
5967 _director_objects.register(self)
5972 def optimize(self, max_steps):
5973 r"""optimize(Optimizer self, unsigned int max_steps) -> double"""
5974 return _IMP_kernel.Optimizer_optimize(self, max_steps)
5976 def set_stop_on_good_score(self, tf):
5977 r"""set_stop_on_good_score(Optimizer self, bool tf)"""
5978 return _IMP_kernel.Optimizer_set_stop_on_good_score(self, tf)
5980 def get_stop_on_good_score(self):
5981 r"""get_stop_on_good_score(Optimizer self) -> bool"""
5982 return _IMP_kernel.Optimizer_get_stop_on_good_score(self)
5984 def get_last_score(self):
5985 r"""get_last_score(Optimizer self) -> double"""
5986 return _IMP_kernel.Optimizer_get_last_score(self)
5988 def get_scoring_function(self):
5989 r"""get_scoring_function(Optimizer self) -> ScoringFunction"""
5990 return _IMP_kernel.Optimizer_get_scoring_function(self)
5991 def __get_optimizer_states(self):
return _list_util.VarList(getdimfunc=self.get_number_of_optimizer_states, getfunc=self.get_optimizer_state, erasefunc=self.erase_optimizer_state, appendfunc=self.add_optimizer_state, extendfunc=self.add_optimizer_states, clearfunc=self.clear_optimizer_states, indexfunc=self._python_index_optimizer_state)
5992 def __set_optimizer_states(self, obj): _list_util.set_varlist(self.optimizer_states, obj)
5993 def __del_optimizer_states(self): _list_util.del_varlist(self.optimizer_states)
5994 optimizer_states = property(__get_optimizer_states, __set_optimizer_states, __del_optimizer_states, doc=
"List of ##ucnames")
5996 def remove_optimizer_state(self, d):
5997 r"""remove_optimizer_state(Optimizer self, OptimizerState d)"""
5998 return _IMP_kernel.Optimizer_remove_optimizer_state(self, d)
6000 def _python_index_optimizer_state(self, d, start, stop):
6001 r"""_python_index_optimizer_state(Optimizer self, OptimizerState d, unsigned int start, unsigned int stop) -> unsigned int"""
6002 return _IMP_kernel.Optimizer__python_index_optimizer_state(self, d, start, stop)
6004 def remove_optimizer_states(self, d):
6005 r"""remove_optimizer_states(Optimizer self, IMP::OptimizerStates const & d)"""
6006 return _IMP_kernel.Optimizer_remove_optimizer_states(self, d)
6008 def set_optimizer_states(self, ps):
6009 r"""set_optimizer_states(Optimizer self, IMP::OptimizerStates const & ps)"""
6010 return _IMP_kernel.Optimizer_set_optimizer_states(self, ps)
6012 def set_optimizer_states_order(self, objs):
6013 r"""set_optimizer_states_order(Optimizer self, IMP::OptimizerStates const & objs)"""
6014 return _IMP_kernel.Optimizer_set_optimizer_states_order(self, objs)
6016 def add_optimizer_state(self, obj):
6017 r"""add_optimizer_state(Optimizer self, OptimizerState obj) -> unsigned int"""
6018 return _IMP_kernel.Optimizer_add_optimizer_state(self, obj)
6020 def add_optimizer_states(self, objs):
6021 r"""add_optimizer_states(Optimizer self, IMP::OptimizerStates const & objs)"""
6022 return _IMP_kernel.Optimizer_add_optimizer_states(self, objs)
6024 def clear_optimizer_states(self):
6025 r"""clear_optimizer_states(Optimizer self)"""
6026 return _IMP_kernel.Optimizer_clear_optimizer_states(self)
6028 def get_number_of_optimizer_states(self):
6029 r"""get_number_of_optimizer_states(Optimizer self) -> unsigned int"""
6030 return _IMP_kernel.Optimizer_get_number_of_optimizer_states(self)
6032 def get_has_optimizer_states(self):
6033 r"""get_has_optimizer_states(Optimizer self) -> bool"""
6034 return _IMP_kernel.Optimizer_get_has_optimizer_states(self)
6036 def get_optimizer_state(self, i):
6037 r"""get_optimizer_state(Optimizer self, unsigned int i) -> OptimizerState"""
6038 return _IMP_kernel.Optimizer_get_optimizer_state(self, i)
6040 def get_optimizer_states(self):
6041 r"""get_optimizer_states(Optimizer self) -> IMP::OptimizerStates"""
6042 return _IMP_kernel.Optimizer_get_optimizer_states(self)
6044 def erase_optimizer_state(self, i):
6045 r"""erase_optimizer_state(Optimizer self, unsigned int i)"""
6046 return _IMP_kernel.Optimizer_erase_optimizer_state(self, i)
6048 def reserve_optimizer_states(self, sz):
6049 r"""reserve_optimizer_states(Optimizer self, unsigned int sz)"""
6050 return _IMP_kernel.Optimizer_reserve_optimizer_states(self, sz)
6052 def set_scoring_function(self, sf):
6053 r"""set_scoring_function(Optimizer self, _ScoringFunctionAdaptor sf)"""
6054 return _IMP_kernel.Optimizer_set_scoring_function(self, sf)
6055 __swig_destroy__ = _IMP_kernel.delete_Optimizer
6057 r"""__del__(Optimizer self)"""
6059 _director_objects.cleanup()
6065 def do_optimize(self, ns):
6066 r"""do_optimize(Optimizer self, unsigned int ns) -> double"""
6067 return _IMP_kernel.Optimizer_do_optimize(self, ns)
6069 def update_states(self):
6070 r"""update_states(Optimizer self)"""
6071 return _IMP_kernel.Optimizer_update_states(self)
6074 r"""__str__(Optimizer self) -> std::string"""
6075 return _IMP_kernel.Optimizer___str__(self)
6078 r"""__repr__(Optimizer self) -> std::string"""
6079 return _IMP_kernel.Optimizer___repr__(self)
6083 return _object_cast_to_Optimizer(o)
6086 def get_type_name(self):
6087 return self.__class__.__name__
6088 def do_show(self, out):
6092 return VersionInfo(self.__module__,
6099 return _object_cast_to_Optimizer(o)
6101 def __disown__(self):
6103 _IMP_kernel.disown_Optimizer(self)
6104 return weakref.proxy(self)
6107 r"""do_destroy(Optimizer self)"""
6108 return _IMP_kernel.Optimizer_do_destroy(self)
6110 def handle_set_has_required_score_states(self, arg0):
6111 r"""handle_set_has_required_score_states(Optimizer self, bool arg0)"""
6112 return _IMP_kernel.Optimizer_handle_set_has_required_score_states(self, arg0)
6114 def do_get_interactions(self):
6115 r"""do_get_interactions(Optimizer self) -> IMP::ModelObjectsTemps"""
6116 return _IMP_kernel.Optimizer_do_get_interactions(self)
6119 _IMP_kernel.Optimizer_swigregister(Optimizer)
6120 class AttributeOptimizer(Optimizer):
6121 r"""Proxy of C++ IMP::AttributeOptimizer class."""
6123 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6125 def __init__(self, *args):
6127 __init__(AttributeOptimizer self, Model m, std::string name="Optimizer %1%") -> AttributeOptimizer
6128 __init__(AttributeOptimizer self) -> AttributeOptimizer
6130 if self.__class__ == AttributeOptimizer:
6134 _IMP_kernel.AttributeOptimizer_swiginit(self, _IMP_kernel.new_AttributeOptimizer(_self, *args))
6136 if self.__class__ != AttributeOptimizer:
6137 _director_objects.register(self)
6142 def get_optimized_attributes(self):
6143 r"""get_optimized_attributes(AttributeOptimizer self) -> IMP::FloatIndexes"""
6144 return _IMP_kernel.AttributeOptimizer_get_optimized_attributes(self)
6146 def set_value(self, fi, v):
6147 r"""set_value(AttributeOptimizer self, FloatIndex fi, double v)"""
6148 return _IMP_kernel.AttributeOptimizer_set_value(self, fi, v)
6150 def get_value(self, fi):
6151 r"""get_value(AttributeOptimizer self, FloatIndex fi) -> IMP::Float"""
6152 return _IMP_kernel.AttributeOptimizer_get_value(self, fi)
6154 def get_derivative(self, fi):
6155 r"""get_derivative(AttributeOptimizer self, FloatIndex fi) -> IMP::Float"""
6156 return _IMP_kernel.AttributeOptimizer_get_derivative(self, fi)
6158 def get_width(self, k):
6159 r"""get_width(AttributeOptimizer self, FloatKey k) -> double"""
6160 return _IMP_kernel.AttributeOptimizer_get_width(self, k)
6162 def set_scaled_value(self, fi, v):
6163 r"""set_scaled_value(AttributeOptimizer self, FloatIndex fi, IMP::Float v)"""
6164 return _IMP_kernel.AttributeOptimizer_set_scaled_value(self, fi, v)
6166 def get_scaled_value(self, fi):
6167 r"""get_scaled_value(AttributeOptimizer self, FloatIndex fi) -> double"""
6168 return _IMP_kernel.AttributeOptimizer_get_scaled_value(self, fi)
6170 def get_scaled_derivative(self, fi):
6171 r"""get_scaled_derivative(AttributeOptimizer self, FloatIndex fi) -> double"""
6172 return _IMP_kernel.AttributeOptimizer_get_scaled_derivative(self, fi)
6174 def clear_range_cache(self):
6175 r"""clear_range_cache(AttributeOptimizer self)"""
6176 return _IMP_kernel.AttributeOptimizer_clear_range_cache(self)
6179 r"""__str__(AttributeOptimizer self) -> std::string"""
6180 return _IMP_kernel.AttributeOptimizer___str__(self)
6183 r"""__repr__(AttributeOptimizer self) -> std::string"""
6184 return _IMP_kernel.AttributeOptimizer___repr__(self)
6188 return _object_cast_to_AttributeOptimizer(o)
6191 def get_type_name(self):
6192 return self.__class__.__name__
6193 def do_show(self, out):
6197 return VersionInfo(self.__module__,
6204 return _object_cast_to_AttributeOptimizer(o)
6206 __swig_destroy__ = _IMP_kernel.delete_AttributeOptimizer
6207 def __disown__(self):
6209 _IMP_kernel.disown_AttributeOptimizer(self)
6210 return weakref.proxy(self)
6213 r"""do_destroy(AttributeOptimizer self)"""
6214 return _IMP_kernel.AttributeOptimizer_do_destroy(self)
6216 def handle_set_has_required_score_states(self, arg0):
6217 r"""handle_set_has_required_score_states(AttributeOptimizer self, bool arg0)"""
6218 return _IMP_kernel.AttributeOptimizer_handle_set_has_required_score_states(self, arg0)
6220 def do_get_inputs(self):
6221 r"""do_get_inputs(AttributeOptimizer self) -> IMP::ModelObjectsTemp"""
6222 return _IMP_kernel.AttributeOptimizer_do_get_inputs(self)
6224 def do_get_outputs(self):
6225 r"""do_get_outputs(AttributeOptimizer self) -> IMP::ModelObjectsTemp"""
6226 return _IMP_kernel.AttributeOptimizer_do_get_outputs(self)
6228 def do_get_interactions(self):
6229 r"""do_get_interactions(AttributeOptimizer self) -> IMP::ModelObjectsTemps"""
6230 return _IMP_kernel.AttributeOptimizer_do_get_interactions(self)
6232 def do_optimize(self, ns):
6233 r"""do_optimize(AttributeOptimizer self, unsigned int ns) -> double"""
6234 return _IMP_kernel.AttributeOptimizer_do_optimize(self, ns)
6237 _IMP_kernel.AttributeOptimizer_swigregister(AttributeOptimizer)
6238 class ConfigurationSet(
Object):
6239 r"""Proxy of C++ IMP::ConfigurationSet class."""
6241 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6243 def __init__(self, *args):
6244 r"""__init__(ConfigurationSet self, Model m, std::string name="ConfigurationSet %1%") -> ConfigurationSet"""
6245 _IMP_kernel.ConfigurationSet_swiginit(self, _IMP_kernel.new_ConfigurationSet(*args))
6247 def save_configuration(self):
6248 r"""save_configuration(ConfigurationSet self)"""
6249 return _IMP_kernel.ConfigurationSet_save_configuration(self)
6251 def get_number_of_configurations(self):
6252 r"""get_number_of_configurations(ConfigurationSet self) -> unsigned int"""
6253 return _IMP_kernel.ConfigurationSet_get_number_of_configurations(self)
6255 def load_configuration(self, i):
6256 r"""load_configuration(ConfigurationSet self, int i)"""
6257 return _IMP_kernel.ConfigurationSet_load_configuration(self, i)
6259 def remove_configuration(self, i):
6260 r"""remove_configuration(ConfigurationSet self, unsigned int i)"""
6261 return _IMP_kernel.ConfigurationSet_remove_configuration(self, i)
6263 def get_model(self):
6264 r"""get_model(ConfigurationSet self) -> Model"""
6265 return _IMP_kernel.ConfigurationSet_get_model(self)
6268 r"""get_version_info(ConfigurationSet self) -> VersionInfo"""
6269 return _IMP_kernel.ConfigurationSet_get_version_info(self)
6270 __swig_destroy__ = _IMP_kernel.delete_ConfigurationSet
6273 r"""__str__(ConfigurationSet self) -> std::string"""
6274 return _IMP_kernel.ConfigurationSet___str__(self)
6277 r"""__repr__(ConfigurationSet self) -> std::string"""
6278 return _IMP_kernel.ConfigurationSet___repr__(self)
6282 return _object_cast_to_ConfigurationSet(o)
6286 _IMP_kernel.ConfigurationSet_swigregister(ConfigurationSet)
6287 class SaveToConfigurationSetOptimizerState(OptimizerState):
6288 r"""Proxy of C++ IMP::SaveToConfigurationSetOptimizerState class."""
6290 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6292 def __init__(self, cs):
6293 r"""__init__(SaveToConfigurationSetOptimizerState self, ConfigurationSet cs) -> SaveToConfigurationSetOptimizerState"""
6294 _IMP_kernel.SaveToConfigurationSetOptimizerState_swiginit(self, _IMP_kernel.new_SaveToConfigurationSetOptimizerState(cs))
6297 r"""get_version_info(SaveToConfigurationSetOptimizerState self) -> VersionInfo"""
6298 return _IMP_kernel.SaveToConfigurationSetOptimizerState_get_version_info(self)
6299 __swig_destroy__ = _IMP_kernel.delete_SaveToConfigurationSetOptimizerState
6302 r"""__str__(SaveToConfigurationSetOptimizerState self) -> std::string"""
6303 return _IMP_kernel.SaveToConfigurationSetOptimizerState___str__(self)
6306 r"""__repr__(SaveToConfigurationSetOptimizerState self) -> std::string"""
6307 return _IMP_kernel.SaveToConfigurationSetOptimizerState___repr__(self)
6311 return _object_cast_to_SaveToConfigurationSetOptimizerState(o)
6315 _IMP_kernel.SaveToConfigurationSetOptimizerState_swigregister(SaveToConfigurationSetOptimizerState)
6316 class Configuration(
Object):
6317 r"""Proxy of C++ IMP::Configuration class."""
6319 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6321 def __init__(self, *args):
6323 __init__(Configuration self, Model m, std::string name="Configuration %1%") -> Configuration
6324 __init__(Configuration self, Model m, Configuration base, std::string name="Configuration %1%") -> Configuration
6326 _IMP_kernel.Configuration_swiginit(self, _IMP_kernel.new_Configuration(*args))
6328 def load_configuration(self):
6329 r"""load_configuration(Configuration self)"""
6330 return _IMP_kernel.Configuration_load_configuration(self)
6332 def swap_configuration(self):
6333 r"""swap_configuration(Configuration self)"""
6334 return _IMP_kernel.Configuration_swap_configuration(self)
6337 r"""get_version_info(Configuration self) -> VersionInfo"""
6338 return _IMP_kernel.Configuration_get_version_info(self)
6339 __swig_destroy__ = _IMP_kernel.delete_Configuration
6342 r"""__str__(Configuration self) -> std::string"""
6343 return _IMP_kernel.Configuration___str__(self)
6346 r"""__repr__(Configuration self) -> std::string"""
6347 return _IMP_kernel.Configuration___repr__(self)
6351 return _object_cast_to_Configuration(o)
6355 _IMP_kernel.Configuration_swigregister(Configuration)
6357 r"""Proxy of C++ IMP::Sampler class."""
6359 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6361 def __init__(self, *args):
6362 r"""__init__(Sampler self, Model m, std::string name="Sampler %1%") -> Sampler"""
6363 if self.__class__ == Sampler:
6367 _IMP_kernel.Sampler_swiginit(self, _IMP_kernel.new_Sampler(_self, *args))
6369 if self.__class__ != Sampler:
6370 _director_objects.register(self)
6375 def create_sample(self):
6376 r"""create_sample(Sampler self) -> ConfigurationSet"""
6377 return _IMP_kernel.Sampler_create_sample(self)
6379 def get_scoring_function(self):
6380 r"""get_scoring_function(Sampler self) -> ScoringFunction"""
6381 return _IMP_kernel.Sampler_get_scoring_function(self)
6383 def set_scoring_function(self, sf):
6384 r"""set_scoring_function(Sampler self, _ScoringFunctionAdaptor sf)"""
6385 return _IMP_kernel.Sampler_set_scoring_function(self, sf)
6387 def get_model(self):
6388 r"""get_model(Sampler self) -> Model"""
6389 return _IMP_kernel.Sampler_get_model(self)
6391 def do_sample(self):
6392 r"""do_sample(Sampler self) -> ConfigurationSet"""
6393 return _IMP_kernel.Sampler_do_sample(self)
6394 __swig_destroy__ = _IMP_kernel.delete_Sampler
6397 r"""__str__(Sampler self) -> std::string"""
6398 return _IMP_kernel.Sampler___str__(self)
6401 r"""__repr__(Sampler self) -> std::string"""
6402 return _IMP_kernel.Sampler___repr__(self)
6406 return _object_cast_to_Sampler(o)
6409 def get_type_name(self):
6410 return self.__class__.__name__
6411 def do_show(self, out):
6415 return VersionInfo(self.__module__,
6422 return _object_cast_to_Sampler(o)
6424 def __disown__(self):
6426 _IMP_kernel.disown_Sampler(self)
6427 return weakref.proxy(self)
6430 r"""do_destroy(Sampler self)"""
6431 return _IMP_kernel.Sampler_do_destroy(self)
6434 _IMP_kernel.Sampler_swigregister(Sampler)
6435 class PairModifier(_ParticleInputs, _ParticleOutputs,
Object):
6436 r"""Proxy of C++ IMP::PairModifier class."""
6438 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6440 def __init__(self, *args):
6441 r"""__init__(PairModifier self, std::string name="PairModifier %1%") -> PairModifier"""
6442 if self.__class__ == PairModifier:
6446 _IMP_kernel.PairModifier_swiginit(self, _IMP_kernel.new_PairModifier(_self, *args))
6448 if self.__class__ != PairModifier:
6449 _director_objects.register(self)
6454 def apply_index(self, m, v):
6455 r"""apply_index(PairModifier self, Model m, IMP::ParticleIndexPair const & v)"""
6456 return _IMP_kernel.PairModifier_apply_index(self, m, v)
6458 def apply_indexes(self, m, o, lower_bound, upper_bound):
6459 r"""apply_indexes(PairModifier self, Model m, IMP::ParticleIndexPairs const & o, unsigned int lower_bound, unsigned int upper_bound)"""
6460 return _IMP_kernel.PairModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
6462 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
6463 r"""apply_indexes_moved(PairModifier self, Model m, IMP::ParticleIndexPairs const & o, unsigned int lower_bound, unsigned int upper_bound, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6464 return _IMP_kernel.PairModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
6467 r"""__str__(PairModifier self) -> std::string"""
6468 return _IMP_kernel.PairModifier___str__(self)
6471 r"""__repr__(PairModifier self) -> std::string"""
6472 return _IMP_kernel.PairModifier___repr__(self)
6476 return _object_cast_to_PairModifier(o)
6479 def get_type_name(self):
6480 return self.__class__.__name__
6481 def do_show(self, out):
6485 return VersionInfo(self.__module__,
6492 return _object_cast_to_PairModifier(o)
6494 __swig_destroy__ = _IMP_kernel.delete_PairModifier
6495 def __disown__(self):
6497 _IMP_kernel.disown_PairModifier(self)
6498 return weakref.proxy(self)
6500 def do_get_inputs(self, m, pis):
6501 r"""do_get_inputs(PairModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6502 return _IMP_kernel.PairModifier_do_get_inputs(self, m, pis)
6504 def do_get_outputs(self, m, pis):
6505 r"""do_get_outputs(PairModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6506 return _IMP_kernel.PairModifier_do_get_outputs(self, m, pis)
6509 r"""do_destroy(PairModifier self)"""
6510 return _IMP_kernel.PairModifier_do_destroy(self)
6513 _IMP_kernel.PairModifier_swigregister(PairModifier)
6514 class PairScore(_ParticleInputs,
Object):
6515 r"""Proxy of C++ IMP::PairScore class."""
6517 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6519 def __init__(self, *args):
6520 r"""__init__(PairScore self, std::string name="PairScore %1%") -> PairScore"""
6521 if self.__class__ == PairScore:
6525 _IMP_kernel.PairScore_swiginit(self, _IMP_kernel.new_PairScore(_self, *args))
6527 if self.__class__ != PairScore:
6528 _director_objects.register(self)
6533 def evaluate_index(self, m, vt, da):
6534 r"""evaluate_index(PairScore self, Model m, IMP::ParticleIndexPair const & vt, DerivativeAccumulator da) -> double"""
6535 return _IMP_kernel.PairScore_evaluate_index(self, m, vt, da)
6537 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound):
6538 r"""evaluate_indexes(PairScore self, Model m, IMP::ParticleIndexPairs const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound) -> double"""
6539 return _IMP_kernel.PairScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound)
6541 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score):
6542 r"""evaluate_indexes_scores(PairScore self, Model m, IMP::ParticleIndexPairs const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, std::vector< double,std::allocator< double > > & score) -> double"""
6543 return _IMP_kernel.PairScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score)
6545 def evaluate_indexes_delta(self, m, o, da, indexes, score):
6546 r"""evaluate_indexes_delta(PairScore self, Model m, IMP::ParticleIndexPairs const & o, DerivativeAccumulator da, std::vector< unsigned int,std::allocator< unsigned int > > const & indexes, std::vector< double,std::allocator< double > > & score) -> double"""
6547 return _IMP_kernel.PairScore_evaluate_indexes_delta(self, m, o, da, indexes, score)
6549 def evaluate_if_good_index(self, m, vt, da, max):
6550 r"""evaluate_if_good_index(PairScore self, Model m, IMP::ParticleIndexPair const & vt, DerivativeAccumulator da, double max) -> double"""
6551 return _IMP_kernel.PairScore_evaluate_if_good_index(self, m, vt, da, max)
6553 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound):
6554 r"""evaluate_if_good_indexes(PairScore self, Model m, IMP::ParticleIndexPairs const & o, DerivativeAccumulator da, double max, unsigned int lower_bound, unsigned int upper_bound) -> double"""
6555 return _IMP_kernel.PairScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound)
6557 def create_current_decomposition(self, m, vt):
6558 r"""create_current_decomposition(PairScore self, Model m, IMP::ParticleIndexPair const & vt) -> IMP::Restraints"""
6559 return _IMP_kernel.PairScore_create_current_decomposition(self, m, vt)
6561 def do_create_current_decomposition(self, m, vt):
6562 r"""do_create_current_decomposition(PairScore self, Model m, IMP::ParticleIndexPair const & vt) -> IMP::Restraints"""
6563 return _IMP_kernel.PairScore_do_create_current_decomposition(self, m, vt)
6564 __swig_destroy__ = _IMP_kernel.delete_PairScore
6567 r"""__str__(PairScore self) -> std::string"""
6568 return _IMP_kernel.PairScore___str__(self)
6571 r"""__repr__(PairScore self) -> std::string"""
6572 return _IMP_kernel.PairScore___repr__(self)
6576 return _object_cast_to_PairScore(o)
6579 def get_type_name(self):
6580 return self.__class__.__name__
6581 def do_show(self, out):
6585 return VersionInfo(self.__module__,
6592 return _object_cast_to_PairScore(o)
6594 def __disown__(self):
6596 _IMP_kernel.disown_PairScore(self)
6597 return weakref.proxy(self)
6599 def do_get_inputs(self, m, pis):
6600 r"""do_get_inputs(PairScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6601 return _IMP_kernel.PairScore_do_get_inputs(self, m, pis)
6604 r"""do_destroy(PairScore self)"""
6605 return _IMP_kernel.PairScore_do_destroy(self)
6608 _IMP_kernel.PairScore_swigregister(PairScore)
6609 class PairPredicate(_ParticleInputs,
Object):
6610 r"""Proxy of C++ IMP::PairPredicate class."""
6612 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6614 def __init__(self, *args):
6615 r"""__init__(PairPredicate self, std::string name="PairPredicate %1%") -> PairPredicate"""
6616 if self.__class__ == PairPredicate:
6620 _IMP_kernel.PairPredicate_swiginit(self, _IMP_kernel.new_PairPredicate(_self, *args))
6622 if self.__class__ != PairPredicate:
6623 _director_objects.register(self)
6628 def setup_for_get_value_index_in_batch(self, arg0):
6629 r"""setup_for_get_value_index_in_batch(PairPredicate self, Model arg0)"""
6630 return _IMP_kernel.PairPredicate_setup_for_get_value_index_in_batch(self, arg0)
6632 def get_value_index_in_batch(self, m, vt):
6633 r"""get_value_index_in_batch(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int"""
6634 return _IMP_kernel.PairPredicate_get_value_index_in_batch(self, m, vt)
6636 def __call__(self, m, vt):
6637 r"""__call__(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int"""
6638 return _IMP_kernel.PairPredicate___call__(self, m, vt)
6640 def get_value_index(self, *args):
6642 get_value_index(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int
6643 get_value_index(PairPredicate self, Model m, IMP::ParticleIndexPairs const & o) -> IMP::Ints
6645 return _IMP_kernel.PairPredicate_get_value_index(self, *args)
6646 __swig_destroy__ = _IMP_kernel.delete_PairPredicate
6649 r"""__str__(PairPredicate self) -> std::string"""
6650 return _IMP_kernel.PairPredicate___str__(self)
6653 r"""__repr__(PairPredicate self) -> std::string"""
6654 return _IMP_kernel.PairPredicate___repr__(self)
6658 return _object_cast_to_PairPredicate(o)
6661 def get_type_name(self):
6662 return self.__class__.__name__
6663 def do_show(self, out):
6667 return VersionInfo(self.__module__,
6674 return _object_cast_to_PairPredicate(o)
6676 def __disown__(self):
6678 _IMP_kernel.disown_PairPredicate(self)
6679 return weakref.proxy(self)
6681 def do_get_inputs(self, m, pis):
6682 r"""do_get_inputs(PairPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6683 return _IMP_kernel.PairPredicate_do_get_inputs(self, m, pis)
6686 r"""do_destroy(PairPredicate self)"""
6687 return _IMP_kernel.PairPredicate_do_destroy(self)
6690 _IMP_kernel.PairPredicate_swigregister(PairPredicate)
6691 class PairContainer(Container):
6692 r"""Proxy of C++ IMP::PairContainer class."""
6694 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6696 def apply_generic(self, m):
6697 r"""apply_generic(PairContainer self, PairModifier m)"""
6698 return _IMP_kernel.PairContainer_apply_generic(self, m)
6700 def apply_generic_moved(self, m, moved_pis, reset_pis):
6701 r"""apply_generic_moved(PairContainer self, PairModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6702 return _IMP_kernel.PairContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
6704 def apply(self, sm):
6705 r"""apply(PairContainer self, PairModifier sm)"""
6706 return _IMP_kernel.PairContainer_apply(self, sm)
6708 def apply_moved(self, sm, moved_pis, reset_pis):
6709 r"""apply_moved(PairContainer self, PairModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6710 return _IMP_kernel.PairContainer_apply_moved(self, sm, moved_pis, reset_pis)
6712 def get_range_indexes(self):
6713 r"""get_range_indexes(PairContainer self) -> IMP::ParticleIndexPairs"""
6714 return _IMP_kernel.PairContainer_get_range_indexes(self)
6716 def get_contents(self):
6717 r"""get_contents(PairContainer self) -> IMP::ParticleIndexPairs const &"""
6718 return _IMP_kernel.PairContainer_get_contents(self)
6721 r"""get_indexes(PairContainer self) -> IMP::ParticleIndexPairs"""
6722 return _IMP_kernel.PairContainer_get_indexes(self)
6724 def get(self, *args):
6726 get(PairContainer self) -> IMP::ParticlePairsTemp
6727 get(PairContainer self, unsigned int i) -> IMP::ParticlePair
6729 return _IMP_kernel.PairContainer_get(self, *args)
6731 def get_number(self):
6732 r"""get_number(PairContainer self) -> unsigned int"""
6733 return _IMP_kernel.PairContainer_get_number(self)
6735 def __init__(self, *args):
6737 __init__(PairContainer self, Model m, std::string name="PairContainer %1%") -> PairContainer
6738 __init__(PairContainer self) -> PairContainer
6740 if self.__class__ == PairContainer:
6744 _IMP_kernel.PairContainer_swiginit(self, _IMP_kernel.new_PairContainer(_self, *args))
6746 if self.__class__ != PairContainer:
6747 _director_objects.register(self)
6752 def do_apply(self, sm):
6753 r"""do_apply(PairContainer self, PairModifier sm)"""
6754 return _IMP_kernel.PairContainer_do_apply(self, sm)
6756 def do_apply_moved(self, sm, moved_pis, reset_pis):
6757 r"""do_apply_moved(PairContainer self, PairModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6758 return _IMP_kernel.PairContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
6760 def do_get_provides_access(self):
6761 r"""do_get_provides_access(PairContainer self) -> bool"""
6762 return _IMP_kernel.PairContainer_do_get_provides_access(self)
6763 __swig_destroy__ = _IMP_kernel.delete_PairContainer
6766 r"""__str__(PairContainer self) -> std::string"""
6767 return _IMP_kernel.PairContainer___str__(self)
6770 r"""__repr__(PairContainer self) -> std::string"""
6771 return _IMP_kernel.PairContainer___repr__(self)
6775 return _object_cast_to_PairContainer(o)
6778 def get_type_name(self):
6779 return self.__class__.__name__
6780 def do_show(self, out):
6784 return VersionInfo(self.__module__,
6791 return _object_cast_to_PairContainer(o)
6793 def __disown__(self):
6795 _IMP_kernel.disown_PairContainer(self)
6796 return weakref.proxy(self)
6799 r"""do_destroy(PairContainer self)"""
6800 return _IMP_kernel.PairContainer_do_destroy(self)
6802 def handle_set_has_required_score_states(self, arg0):
6803 r"""handle_set_has_required_score_states(PairContainer self, bool arg0)"""
6804 return _IMP_kernel.PairContainer_handle_set_has_required_score_states(self, arg0)
6806 def do_get_inputs(self):
6807 r"""do_get_inputs(PairContainer self) -> IMP::ModelObjectsTemp"""
6808 return _IMP_kernel.PairContainer_do_get_inputs(self)
6810 def do_get_interactions(self):
6811 r"""do_get_interactions(PairContainer self) -> IMP::ModelObjectsTemps"""
6812 return _IMP_kernel.PairContainer_do_get_interactions(self)
6814 def do_get_contents_hash(self):
6815 r"""do_get_contents_hash(PairContainer self) -> std::size_t"""
6816 return _IMP_kernel.PairContainer_do_get_contents_hash(self)
6819 _IMP_kernel.PairContainer_swigregister(PairContainer)
6820 class _PairContainerAdaptor(_InputAdaptor):
6821 r"""Proxy of C++ IMP::PairContainerAdaptor class."""
6823 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6824 __repr__ = _swig_repr
6826 def __init__(self, *args):
6828 __init__(_PairContainerAdaptor self) -> _PairContainerAdaptor
6829 __init__(_PairContainerAdaptor self, PairContainer c) -> _PairContainerAdaptor
6830 __init__(_PairContainerAdaptor self, IMP::ParticlePairsTemp const & t) -> _PairContainerAdaptor
6832 _IMP_kernel._PairContainerAdaptor_swiginit(self, _IMP_kernel.new__PairContainerAdaptor(*args))
6834 def set_name_if_default(self, name):
6835 r"""set_name_if_default(_PairContainerAdaptor self, std::string name)"""
6836 return _IMP_kernel._PairContainerAdaptor_set_name_if_default(self, name)
6837 __swig_destroy__ = _IMP_kernel.delete__PairContainerAdaptor
6840 _IMP_kernel._PairContainerAdaptor_swigregister(_PairContainerAdaptor)
6841 class QuadModifier(_ParticleInputs, _ParticleOutputs,
Object):
6842 r"""Proxy of C++ IMP::QuadModifier class."""
6844 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6846 def __init__(self, *args):
6847 r"""__init__(QuadModifier self, std::string name="QuadModifier %1%") -> QuadModifier"""
6848 if self.__class__ == QuadModifier:
6852 _IMP_kernel.QuadModifier_swiginit(self, _IMP_kernel.new_QuadModifier(_self, *args))
6854 if self.__class__ != QuadModifier:
6855 _director_objects.register(self)
6860 def apply_index(self, m, v):
6861 r"""apply_index(QuadModifier self, Model m, IMP::ParticleIndexQuad const & v)"""
6862 return _IMP_kernel.QuadModifier_apply_index(self, m, v)
6864 def apply_indexes(self, m, o, lower_bound, upper_bound):
6865 r"""apply_indexes(QuadModifier self, Model m, IMP::ParticleIndexQuads const & o, unsigned int lower_bound, unsigned int upper_bound)"""
6866 return _IMP_kernel.QuadModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
6868 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
6869 r"""apply_indexes_moved(QuadModifier self, Model m, IMP::ParticleIndexQuads const & o, unsigned int lower_bound, unsigned int upper_bound, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6870 return _IMP_kernel.QuadModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
6873 r"""__str__(QuadModifier self) -> std::string"""
6874 return _IMP_kernel.QuadModifier___str__(self)
6877 r"""__repr__(QuadModifier self) -> std::string"""
6878 return _IMP_kernel.QuadModifier___repr__(self)
6882 return _object_cast_to_QuadModifier(o)
6885 def get_type_name(self):
6886 return self.__class__.__name__
6887 def do_show(self, out):
6891 return VersionInfo(self.__module__,
6898 return _object_cast_to_QuadModifier(o)
6900 __swig_destroy__ = _IMP_kernel.delete_QuadModifier
6901 def __disown__(self):
6903 _IMP_kernel.disown_QuadModifier(self)
6904 return weakref.proxy(self)
6906 def do_get_inputs(self, m, pis):
6907 r"""do_get_inputs(QuadModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6908 return _IMP_kernel.QuadModifier_do_get_inputs(self, m, pis)
6910 def do_get_outputs(self, m, pis):
6911 r"""do_get_outputs(QuadModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6912 return _IMP_kernel.QuadModifier_do_get_outputs(self, m, pis)
6915 r"""do_destroy(QuadModifier self)"""
6916 return _IMP_kernel.QuadModifier_do_destroy(self)
6919 _IMP_kernel.QuadModifier_swigregister(QuadModifier)
6920 class QuadScore(_ParticleInputs,
Object):
6921 r"""Proxy of C++ IMP::QuadScore class."""
6923 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6925 def __init__(self, *args):
6926 r"""__init__(QuadScore self, std::string name="QuadScore %1%") -> QuadScore"""
6927 if self.__class__ == QuadScore:
6931 _IMP_kernel.QuadScore_swiginit(self, _IMP_kernel.new_QuadScore(_self, *args))
6933 if self.__class__ != QuadScore:
6934 _director_objects.register(self)
6939 def evaluate_index(self, m, vt, da):
6940 r"""evaluate_index(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt, DerivativeAccumulator da) -> double"""
6941 return _IMP_kernel.QuadScore_evaluate_index(self, m, vt, da)
6943 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound):
6944 r"""evaluate_indexes(QuadScore self, Model m, IMP::ParticleIndexQuads const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound) -> double"""
6945 return _IMP_kernel.QuadScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound)
6947 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score):
6948 r"""evaluate_indexes_scores(QuadScore self, Model m, IMP::ParticleIndexQuads const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, std::vector< double,std::allocator< double > > & score) -> double"""
6949 return _IMP_kernel.QuadScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score)
6951 def evaluate_indexes_delta(self, m, o, da, indexes, score):
6952 r"""evaluate_indexes_delta(QuadScore self, Model m, IMP::ParticleIndexQuads const & o, DerivativeAccumulator da, std::vector< unsigned int,std::allocator< unsigned int > > const & indexes, std::vector< double,std::allocator< double > > & score) -> double"""
6953 return _IMP_kernel.QuadScore_evaluate_indexes_delta(self, m, o, da, indexes, score)
6955 def evaluate_if_good_index(self, m, vt, da, max):
6956 r"""evaluate_if_good_index(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt, DerivativeAccumulator da, double max) -> double"""
6957 return _IMP_kernel.QuadScore_evaluate_if_good_index(self, m, vt, da, max)
6959 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound):
6960 r"""evaluate_if_good_indexes(QuadScore self, Model m, IMP::ParticleIndexQuads const & o, DerivativeAccumulator da, double max, unsigned int lower_bound, unsigned int upper_bound) -> double"""
6961 return _IMP_kernel.QuadScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound)
6963 def create_current_decomposition(self, m, vt):
6964 r"""create_current_decomposition(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt) -> IMP::Restraints"""
6965 return _IMP_kernel.QuadScore_create_current_decomposition(self, m, vt)
6967 def do_create_current_decomposition(self, m, vt):
6968 r"""do_create_current_decomposition(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt) -> IMP::Restraints"""
6969 return _IMP_kernel.QuadScore_do_create_current_decomposition(self, m, vt)
6970 __swig_destroy__ = _IMP_kernel.delete_QuadScore
6973 r"""__str__(QuadScore self) -> std::string"""
6974 return _IMP_kernel.QuadScore___str__(self)
6977 r"""__repr__(QuadScore self) -> std::string"""
6978 return _IMP_kernel.QuadScore___repr__(self)
6982 return _object_cast_to_QuadScore(o)
6985 def get_type_name(self):
6986 return self.__class__.__name__
6987 def do_show(self, out):
6991 return VersionInfo(self.__module__,
6998 return _object_cast_to_QuadScore(o)
7000 def __disown__(self):
7002 _IMP_kernel.disown_QuadScore(self)
7003 return weakref.proxy(self)
7005 def do_get_inputs(self, m, pis):
7006 r"""do_get_inputs(QuadScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7007 return _IMP_kernel.QuadScore_do_get_inputs(self, m, pis)
7010 r"""do_destroy(QuadScore self)"""
7011 return _IMP_kernel.QuadScore_do_destroy(self)
7014 _IMP_kernel.QuadScore_swigregister(QuadScore)
7015 class QuadPredicate(_ParticleInputs,
Object):
7016 r"""Proxy of C++ IMP::QuadPredicate class."""
7018 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7020 def __init__(self, *args):
7021 r"""__init__(QuadPredicate self, std::string name="QuadPredicate %1%") -> QuadPredicate"""
7022 if self.__class__ == QuadPredicate:
7026 _IMP_kernel.QuadPredicate_swiginit(self, _IMP_kernel.new_QuadPredicate(_self, *args))
7028 if self.__class__ != QuadPredicate:
7029 _director_objects.register(self)
7034 def setup_for_get_value_index_in_batch(self, arg0):
7035 r"""setup_for_get_value_index_in_batch(QuadPredicate self, Model arg0)"""
7036 return _IMP_kernel.QuadPredicate_setup_for_get_value_index_in_batch(self, arg0)
7038 def get_value_index_in_batch(self, m, vt):
7039 r"""get_value_index_in_batch(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int"""
7040 return _IMP_kernel.QuadPredicate_get_value_index_in_batch(self, m, vt)
7042 def __call__(self, m, vt):
7043 r"""__call__(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int"""
7044 return _IMP_kernel.QuadPredicate___call__(self, m, vt)
7046 def get_value_index(self, *args):
7048 get_value_index(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int
7049 get_value_index(QuadPredicate self, Model m, IMP::ParticleIndexQuads const & o) -> IMP::Ints
7051 return _IMP_kernel.QuadPredicate_get_value_index(self, *args)
7052 __swig_destroy__ = _IMP_kernel.delete_QuadPredicate
7055 r"""__str__(QuadPredicate self) -> std::string"""
7056 return _IMP_kernel.QuadPredicate___str__(self)
7059 r"""__repr__(QuadPredicate self) -> std::string"""
7060 return _IMP_kernel.QuadPredicate___repr__(self)
7064 return _object_cast_to_QuadPredicate(o)
7067 def get_type_name(self):
7068 return self.__class__.__name__
7069 def do_show(self, out):
7073 return VersionInfo(self.__module__,
7080 return _object_cast_to_QuadPredicate(o)
7082 def __disown__(self):
7084 _IMP_kernel.disown_QuadPredicate(self)
7085 return weakref.proxy(self)
7087 def do_get_inputs(self, m, pis):
7088 r"""do_get_inputs(QuadPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7089 return _IMP_kernel.QuadPredicate_do_get_inputs(self, m, pis)
7092 r"""do_destroy(QuadPredicate self)"""
7093 return _IMP_kernel.QuadPredicate_do_destroy(self)
7096 _IMP_kernel.QuadPredicate_swigregister(QuadPredicate)
7097 class QuadContainer(Container):
7098 r"""Proxy of C++ IMP::QuadContainer class."""
7100 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7102 def apply_generic(self, m):
7103 r"""apply_generic(QuadContainer self, QuadModifier m)"""
7104 return _IMP_kernel.QuadContainer_apply_generic(self, m)
7106 def apply_generic_moved(self, m, moved_pis, reset_pis):
7107 r"""apply_generic_moved(QuadContainer self, QuadModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7108 return _IMP_kernel.QuadContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
7110 def apply(self, sm):
7111 r"""apply(QuadContainer self, QuadModifier sm)"""
7112 return _IMP_kernel.QuadContainer_apply(self, sm)
7114 def apply_moved(self, sm, moved_pis, reset_pis):
7115 r"""apply_moved(QuadContainer self, QuadModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7116 return _IMP_kernel.QuadContainer_apply_moved(self, sm, moved_pis, reset_pis)
7118 def get_range_indexes(self):
7119 r"""get_range_indexes(QuadContainer self) -> IMP::ParticleIndexQuads"""
7120 return _IMP_kernel.QuadContainer_get_range_indexes(self)
7122 def get_contents(self):
7123 r"""get_contents(QuadContainer self) -> IMP::ParticleIndexQuads const &"""
7124 return _IMP_kernel.QuadContainer_get_contents(self)
7127 r"""get_indexes(QuadContainer self) -> IMP::ParticleIndexQuads"""
7128 return _IMP_kernel.QuadContainer_get_indexes(self)
7130 def get(self, *args):
7132 get(QuadContainer self) -> IMP::ParticleQuadsTemp
7133 get(QuadContainer self, unsigned int i) -> IMP::ParticleQuad
7135 return _IMP_kernel.QuadContainer_get(self, *args)
7137 def get_number(self):
7138 r"""get_number(QuadContainer self) -> unsigned int"""
7139 return _IMP_kernel.QuadContainer_get_number(self)
7141 def __init__(self, *args):
7143 __init__(QuadContainer self, Model m, std::string name="QuadContainer %1%") -> QuadContainer
7144 __init__(QuadContainer self) -> QuadContainer
7146 if self.__class__ == QuadContainer:
7150 _IMP_kernel.QuadContainer_swiginit(self, _IMP_kernel.new_QuadContainer(_self, *args))
7152 if self.__class__ != QuadContainer:
7153 _director_objects.register(self)
7158 def do_apply(self, sm):
7159 r"""do_apply(QuadContainer self, QuadModifier sm)"""
7160 return _IMP_kernel.QuadContainer_do_apply(self, sm)
7162 def do_apply_moved(self, sm, moved_pis, reset_pis):
7163 r"""do_apply_moved(QuadContainer self, QuadModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7164 return _IMP_kernel.QuadContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
7166 def do_get_provides_access(self):
7167 r"""do_get_provides_access(QuadContainer self) -> bool"""
7168 return _IMP_kernel.QuadContainer_do_get_provides_access(self)
7169 __swig_destroy__ = _IMP_kernel.delete_QuadContainer
7172 r"""__str__(QuadContainer self) -> std::string"""
7173 return _IMP_kernel.QuadContainer___str__(self)
7176 r"""__repr__(QuadContainer self) -> std::string"""
7177 return _IMP_kernel.QuadContainer___repr__(self)
7181 return _object_cast_to_QuadContainer(o)
7184 def get_type_name(self):
7185 return self.__class__.__name__
7186 def do_show(self, out):
7190 return VersionInfo(self.__module__,
7197 return _object_cast_to_QuadContainer(o)
7199 def __disown__(self):
7201 _IMP_kernel.disown_QuadContainer(self)
7202 return weakref.proxy(self)
7205 r"""do_destroy(QuadContainer self)"""
7206 return _IMP_kernel.QuadContainer_do_destroy(self)
7208 def handle_set_has_required_score_states(self, arg0):
7209 r"""handle_set_has_required_score_states(QuadContainer self, bool arg0)"""
7210 return _IMP_kernel.QuadContainer_handle_set_has_required_score_states(self, arg0)
7212 def do_get_inputs(self):
7213 r"""do_get_inputs(QuadContainer self) -> IMP::ModelObjectsTemp"""
7214 return _IMP_kernel.QuadContainer_do_get_inputs(self)
7216 def do_get_interactions(self):
7217 r"""do_get_interactions(QuadContainer self) -> IMP::ModelObjectsTemps"""
7218 return _IMP_kernel.QuadContainer_do_get_interactions(self)
7220 def do_get_contents_hash(self):
7221 r"""do_get_contents_hash(QuadContainer self) -> std::size_t"""
7222 return _IMP_kernel.QuadContainer_do_get_contents_hash(self)
7225 _IMP_kernel.QuadContainer_swigregister(QuadContainer)
7226 class _QuadContainerAdaptor(_InputAdaptor):
7227 r"""Proxy of C++ IMP::QuadContainerAdaptor class."""
7229 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7230 __repr__ = _swig_repr
7232 def __init__(self, *args):
7234 __init__(_QuadContainerAdaptor self) -> _QuadContainerAdaptor
7235 __init__(_QuadContainerAdaptor self, QuadContainer c) -> _QuadContainerAdaptor
7236 __init__(_QuadContainerAdaptor self, IMP::ParticleQuadsTemp const & t) -> _QuadContainerAdaptor
7238 _IMP_kernel._QuadContainerAdaptor_swiginit(self, _IMP_kernel.new__QuadContainerAdaptor(*args))
7240 def set_name_if_default(self, name):
7241 r"""set_name_if_default(_QuadContainerAdaptor self, std::string name)"""
7242 return _IMP_kernel._QuadContainerAdaptor_set_name_if_default(self, name)
7243 __swig_destroy__ = _IMP_kernel.delete__QuadContainerAdaptor
7246 _IMP_kernel._QuadContainerAdaptor_swigregister(_QuadContainerAdaptor)
7247 class SingletonModifier(_ParticleInputs, _ParticleOutputs,
Object):
7248 r"""Proxy of C++ IMP::SingletonModifier class."""
7250 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7252 def __init__(self, *args):
7253 r"""__init__(SingletonModifier self, std::string name="SingletonModifier %1%") -> SingletonModifier"""
7254 if self.__class__ == SingletonModifier:
7258 _IMP_kernel.SingletonModifier_swiginit(self, _IMP_kernel.new_SingletonModifier(_self, *args))
7260 if self.__class__ != SingletonModifier:
7261 _director_objects.register(self)
7266 def apply_index(self, m, v):
7267 r"""apply_index(SingletonModifier self, Model m, ParticleIndex v)"""
7268 return _IMP_kernel.SingletonModifier_apply_index(self, m, v)
7270 def apply_indexes(self, m, o, lower_bound, upper_bound):
7271 r"""apply_indexes(SingletonModifier self, Model m, IMP::ParticleIndexes const & o, unsigned int lower_bound, unsigned int upper_bound)"""
7272 return _IMP_kernel.SingletonModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
7274 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
7275 r"""apply_indexes_moved(SingletonModifier self, Model m, IMP::ParticleIndexes const & o, unsigned int lower_bound, unsigned int upper_bound, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7276 return _IMP_kernel.SingletonModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
7279 r"""__str__(SingletonModifier self) -> std::string"""
7280 return _IMP_kernel.SingletonModifier___str__(self)
7283 r"""__repr__(SingletonModifier self) -> std::string"""
7284 return _IMP_kernel.SingletonModifier___repr__(self)
7288 return _object_cast_to_SingletonModifier(o)
7291 def get_type_name(self):
7292 return self.__class__.__name__
7293 def do_show(self, out):
7297 return VersionInfo(self.__module__,
7304 return _object_cast_to_SingletonModifier(o)
7306 __swig_destroy__ = _IMP_kernel.delete_SingletonModifier
7307 def __disown__(self):
7309 _IMP_kernel.disown_SingletonModifier(self)
7310 return weakref.proxy(self)
7312 def do_get_inputs(self, m, pis):
7313 r"""do_get_inputs(SingletonModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7314 return _IMP_kernel.SingletonModifier_do_get_inputs(self, m, pis)
7316 def do_get_outputs(self, m, pis):
7317 r"""do_get_outputs(SingletonModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7318 return _IMP_kernel.SingletonModifier_do_get_outputs(self, m, pis)
7321 r"""do_destroy(SingletonModifier self)"""
7322 return _IMP_kernel.SingletonModifier_do_destroy(self)
7325 _IMP_kernel.SingletonModifier_swigregister(SingletonModifier)
7326 class SingletonScore(_ParticleInputs,
Object):
7327 r"""Proxy of C++ IMP::SingletonScore class."""
7329 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7331 def __init__(self, *args):
7332 r"""__init__(SingletonScore self, std::string name="SingletonScore %1%") -> SingletonScore"""
7333 if self.__class__ == SingletonScore:
7337 _IMP_kernel.SingletonScore_swiginit(self, _IMP_kernel.new_SingletonScore(_self, *args))
7339 if self.__class__ != SingletonScore:
7340 _director_objects.register(self)
7345 def evaluate_index(self, m, vt, da):
7346 r"""evaluate_index(SingletonScore self, Model m, ParticleIndex vt, DerivativeAccumulator da) -> double"""
7347 return _IMP_kernel.SingletonScore_evaluate_index(self, m, vt, da)
7349 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound):
7350 r"""evaluate_indexes(SingletonScore self, Model m, IMP::ParticleIndexes const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound) -> double"""
7351 return _IMP_kernel.SingletonScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound)
7353 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score):
7354 r"""evaluate_indexes_scores(SingletonScore self, Model m, IMP::ParticleIndexes const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, std::vector< double,std::allocator< double > > & score) -> double"""
7355 return _IMP_kernel.SingletonScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score)
7357 def evaluate_indexes_delta(self, m, o, da, indexes, score):
7358 r"""evaluate_indexes_delta(SingletonScore self, Model m, IMP::ParticleIndexes const & o, DerivativeAccumulator da, std::vector< unsigned int,std::allocator< unsigned int > > const & indexes, std::vector< double,std::allocator< double > > & score) -> double"""
7359 return _IMP_kernel.SingletonScore_evaluate_indexes_delta(self, m, o, da, indexes, score)
7361 def evaluate_if_good_index(self, m, vt, da, max):
7362 r"""evaluate_if_good_index(SingletonScore self, Model m, ParticleIndex vt, DerivativeAccumulator da, double max) -> double"""
7363 return _IMP_kernel.SingletonScore_evaluate_if_good_index(self, m, vt, da, max)
7365 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound):
7366 r"""evaluate_if_good_indexes(SingletonScore self, Model m, IMP::ParticleIndexes const & o, DerivativeAccumulator da, double max, unsigned int lower_bound, unsigned int upper_bound) -> double"""
7367 return _IMP_kernel.SingletonScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound)
7369 def create_current_decomposition(self, m, vt):
7370 r"""create_current_decomposition(SingletonScore self, Model m, ParticleIndex vt) -> IMP::Restraints"""
7371 return _IMP_kernel.SingletonScore_create_current_decomposition(self, m, vt)
7373 def do_create_current_decomposition(self, m, vt):
7374 r"""do_create_current_decomposition(SingletonScore self, Model m, ParticleIndex vt) -> IMP::Restraints"""
7375 return _IMP_kernel.SingletonScore_do_create_current_decomposition(self, m, vt)
7376 __swig_destroy__ = _IMP_kernel.delete_SingletonScore
7379 r"""__str__(SingletonScore self) -> std::string"""
7380 return _IMP_kernel.SingletonScore___str__(self)
7383 r"""__repr__(SingletonScore self) -> std::string"""
7384 return _IMP_kernel.SingletonScore___repr__(self)
7388 return _object_cast_to_SingletonScore(o)
7391 def get_type_name(self):
7392 return self.__class__.__name__
7393 def do_show(self, out):
7397 return VersionInfo(self.__module__,
7404 return _object_cast_to_SingletonScore(o)
7406 def __disown__(self):
7408 _IMP_kernel.disown_SingletonScore(self)
7409 return weakref.proxy(self)
7411 def do_get_inputs(self, m, pis):
7412 r"""do_get_inputs(SingletonScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7413 return _IMP_kernel.SingletonScore_do_get_inputs(self, m, pis)
7416 r"""do_destroy(SingletonScore self)"""
7417 return _IMP_kernel.SingletonScore_do_destroy(self)
7420 _IMP_kernel.SingletonScore_swigregister(SingletonScore)
7421 class SingletonPredicate(_ParticleInputs,
Object):
7422 r"""Proxy of C++ IMP::SingletonPredicate class."""
7424 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7426 def __init__(self, *args):
7427 r"""__init__(SingletonPredicate self, std::string name="SingletonPredicate %1%") -> SingletonPredicate"""
7428 if self.__class__ == SingletonPredicate:
7432 _IMP_kernel.SingletonPredicate_swiginit(self, _IMP_kernel.new_SingletonPredicate(_self, *args))
7434 if self.__class__ != SingletonPredicate:
7435 _director_objects.register(self)
7440 def setup_for_get_value_index_in_batch(self, arg0):
7441 r"""setup_for_get_value_index_in_batch(SingletonPredicate self, Model arg0)"""
7442 return _IMP_kernel.SingletonPredicate_setup_for_get_value_index_in_batch(self, arg0)
7444 def get_value_index_in_batch(self, m, vt):
7445 r"""get_value_index_in_batch(SingletonPredicate self, Model m, ParticleIndex vt) -> int"""
7446 return _IMP_kernel.SingletonPredicate_get_value_index_in_batch(self, m, vt)
7448 def __call__(self, m, vt):
7449 r"""__call__(SingletonPredicate self, Model m, ParticleIndex vt) -> int"""
7450 return _IMP_kernel.SingletonPredicate___call__(self, m, vt)
7452 def get_value_index(self, *args):
7454 get_value_index(SingletonPredicate self, Model m, ParticleIndex vt) -> int
7455 get_value_index(SingletonPredicate self, Model m, IMP::ParticleIndexes const & o) -> IMP::Ints
7457 return _IMP_kernel.SingletonPredicate_get_value_index(self, *args)
7458 __swig_destroy__ = _IMP_kernel.delete_SingletonPredicate
7461 r"""__str__(SingletonPredicate self) -> std::string"""
7462 return _IMP_kernel.SingletonPredicate___str__(self)
7465 r"""__repr__(SingletonPredicate self) -> std::string"""
7466 return _IMP_kernel.SingletonPredicate___repr__(self)
7470 return _object_cast_to_SingletonPredicate(o)
7473 def get_type_name(self):
7474 return self.__class__.__name__
7475 def do_show(self, out):
7479 return VersionInfo(self.__module__,
7486 return _object_cast_to_SingletonPredicate(o)
7488 def __disown__(self):
7490 _IMP_kernel.disown_SingletonPredicate(self)
7491 return weakref.proxy(self)
7493 def do_get_inputs(self, m, pis):
7494 r"""do_get_inputs(SingletonPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7495 return _IMP_kernel.SingletonPredicate_do_get_inputs(self, m, pis)
7498 r"""do_destroy(SingletonPredicate self)"""
7499 return _IMP_kernel.SingletonPredicate_do_destroy(self)
7502 _IMP_kernel.SingletonPredicate_swigregister(SingletonPredicate)
7503 class SingletonContainer(Container):
7504 r"""Proxy of C++ IMP::SingletonContainer class."""
7506 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7508 def apply_generic(self, m):
7509 r"""apply_generic(SingletonContainer self, SingletonModifier m)"""
7510 return _IMP_kernel.SingletonContainer_apply_generic(self, m)
7512 def apply_generic_moved(self, m, moved_pis, reset_pis):
7513 r"""apply_generic_moved(SingletonContainer self, SingletonModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7514 return _IMP_kernel.SingletonContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
7516 def apply(self, sm):
7517 r"""apply(SingletonContainer self, SingletonModifier sm)"""
7518 return _IMP_kernel.SingletonContainer_apply(self, sm)
7520 def apply_moved(self, sm, moved_pis, reset_pis):
7521 r"""apply_moved(SingletonContainer self, SingletonModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7522 return _IMP_kernel.SingletonContainer_apply_moved(self, sm, moved_pis, reset_pis)
7524 def get_range_indexes(self):
7525 r"""get_range_indexes(SingletonContainer self) -> IMP::ParticleIndexes"""
7526 return _IMP_kernel.SingletonContainer_get_range_indexes(self)
7528 def get_contents(self):
7529 r"""get_contents(SingletonContainer self) -> IMP::ParticleIndexes const &"""
7530 return _IMP_kernel.SingletonContainer_get_contents(self)
7533 r"""get_indexes(SingletonContainer self) -> IMP::ParticleIndexes"""
7534 return _IMP_kernel.SingletonContainer_get_indexes(self)
7536 def get(self, *args):
7538 get(SingletonContainer self) -> IMP::ParticlesTemp
7539 get(SingletonContainer self, unsigned int i) -> Particle
7541 return _IMP_kernel.SingletonContainer_get(self, *args)
7543 def get_number(self):
7544 r"""get_number(SingletonContainer self) -> unsigned int"""
7545 return _IMP_kernel.SingletonContainer_get_number(self)
7547 def __init__(self, *args):
7549 __init__(SingletonContainer self, Model m, std::string name="SingletonContainer %1%") -> SingletonContainer
7550 __init__(SingletonContainer self) -> SingletonContainer
7552 if self.__class__ == SingletonContainer:
7556 _IMP_kernel.SingletonContainer_swiginit(self, _IMP_kernel.new_SingletonContainer(_self, *args))
7558 if self.__class__ != SingletonContainer:
7559 _director_objects.register(self)
7564 def do_apply(self, sm):
7565 r"""do_apply(SingletonContainer self, SingletonModifier sm)"""
7566 return _IMP_kernel.SingletonContainer_do_apply(self, sm)
7568 def do_apply_moved(self, sm, moved_pis, reset_pis):
7569 r"""do_apply_moved(SingletonContainer self, SingletonModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7570 return _IMP_kernel.SingletonContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
7572 def do_get_provides_access(self):
7573 r"""do_get_provides_access(SingletonContainer self) -> bool"""
7574 return _IMP_kernel.SingletonContainer_do_get_provides_access(self)
7575 __swig_destroy__ = _IMP_kernel.delete_SingletonContainer
7578 r"""__str__(SingletonContainer self) -> std::string"""
7579 return _IMP_kernel.SingletonContainer___str__(self)
7582 r"""__repr__(SingletonContainer self) -> std::string"""
7583 return _IMP_kernel.SingletonContainer___repr__(self)
7587 return _object_cast_to_SingletonContainer(o)
7590 def get_type_name(self):
7591 return self.__class__.__name__
7592 def do_show(self, out):
7596 return VersionInfo(self.__module__,
7603 return _object_cast_to_SingletonContainer(o)
7605 def __disown__(self):
7607 _IMP_kernel.disown_SingletonContainer(self)
7608 return weakref.proxy(self)
7611 r"""do_destroy(SingletonContainer self)"""
7612 return _IMP_kernel.SingletonContainer_do_destroy(self)
7614 def handle_set_has_required_score_states(self, arg0):
7615 r"""handle_set_has_required_score_states(SingletonContainer self, bool arg0)"""
7616 return _IMP_kernel.SingletonContainer_handle_set_has_required_score_states(self, arg0)
7618 def do_get_inputs(self):
7619 r"""do_get_inputs(SingletonContainer self) -> IMP::ModelObjectsTemp"""
7620 return _IMP_kernel.SingletonContainer_do_get_inputs(self)
7622 def do_get_interactions(self):
7623 r"""do_get_interactions(SingletonContainer self) -> IMP::ModelObjectsTemps"""
7624 return _IMP_kernel.SingletonContainer_do_get_interactions(self)
7626 def do_get_contents_hash(self):
7627 r"""do_get_contents_hash(SingletonContainer self) -> std::size_t"""
7628 return _IMP_kernel.SingletonContainer_do_get_contents_hash(self)
7631 _IMP_kernel.SingletonContainer_swigregister(SingletonContainer)
7632 class _SingletonContainerAdaptor(_InputAdaptor):
7633 r"""Proxy of C++ IMP::SingletonContainerAdaptor class."""
7635 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7636 __repr__ = _swig_repr
7638 def __init__(self, *args):
7640 __init__(_SingletonContainerAdaptor self) -> _SingletonContainerAdaptor
7641 __init__(_SingletonContainerAdaptor self, SingletonContainer c) -> _SingletonContainerAdaptor
7642 __init__(_SingletonContainerAdaptor self, IMP::ParticlesTemp const & t) -> _SingletonContainerAdaptor
7644 _IMP_kernel._SingletonContainerAdaptor_swiginit(self, _IMP_kernel.new__SingletonContainerAdaptor(*args))
7646 def set_name_if_default(self, name):
7647 r"""set_name_if_default(_SingletonContainerAdaptor self, std::string name)"""
7648 return _IMP_kernel._SingletonContainerAdaptor_set_name_if_default(self, name)
7649 __swig_destroy__ = _IMP_kernel.delete__SingletonContainerAdaptor
7652 _IMP_kernel._SingletonContainerAdaptor_swigregister(_SingletonContainerAdaptor)
7653 class TripletModifier(_ParticleInputs, _ParticleOutputs,
Object):
7654 r"""Proxy of C++ IMP::TripletModifier class."""
7656 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7658 def __init__(self, *args):
7659 r"""__init__(TripletModifier self, std::string name="TripletModifier %1%") -> TripletModifier"""
7660 if self.__class__ == TripletModifier:
7664 _IMP_kernel.TripletModifier_swiginit(self, _IMP_kernel.new_TripletModifier(_self, *args))
7666 if self.__class__ != TripletModifier:
7667 _director_objects.register(self)
7672 def apply_index(self, m, v):
7673 r"""apply_index(TripletModifier self, Model m, IMP::ParticleIndexTriplet const & v)"""
7674 return _IMP_kernel.TripletModifier_apply_index(self, m, v)
7676 def apply_indexes(self, m, o, lower_bound, upper_bound):
7677 r"""apply_indexes(TripletModifier self, Model m, IMP::ParticleIndexTriplets const & o, unsigned int lower_bound, unsigned int upper_bound)"""
7678 return _IMP_kernel.TripletModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
7680 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
7681 r"""apply_indexes_moved(TripletModifier self, Model m, IMP::ParticleIndexTriplets const & o, unsigned int lower_bound, unsigned int upper_bound, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7682 return _IMP_kernel.TripletModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
7685 r"""__str__(TripletModifier self) -> std::string"""
7686 return _IMP_kernel.TripletModifier___str__(self)
7689 r"""__repr__(TripletModifier self) -> std::string"""
7690 return _IMP_kernel.TripletModifier___repr__(self)
7694 return _object_cast_to_TripletModifier(o)
7697 def get_type_name(self):
7698 return self.__class__.__name__
7699 def do_show(self, out):
7703 return VersionInfo(self.__module__,
7710 return _object_cast_to_TripletModifier(o)
7712 __swig_destroy__ = _IMP_kernel.delete_TripletModifier
7713 def __disown__(self):
7715 _IMP_kernel.disown_TripletModifier(self)
7716 return weakref.proxy(self)
7718 def do_get_inputs(self, m, pis):
7719 r"""do_get_inputs(TripletModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7720 return _IMP_kernel.TripletModifier_do_get_inputs(self, m, pis)
7722 def do_get_outputs(self, m, pis):
7723 r"""do_get_outputs(TripletModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7724 return _IMP_kernel.TripletModifier_do_get_outputs(self, m, pis)
7727 r"""do_destroy(TripletModifier self)"""
7728 return _IMP_kernel.TripletModifier_do_destroy(self)
7731 _IMP_kernel.TripletModifier_swigregister(TripletModifier)
7732 class TripletScore(_ParticleInputs,
Object):
7733 r"""Proxy of C++ IMP::TripletScore class."""
7735 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7737 def __init__(self, *args):
7738 r"""__init__(TripletScore self, std::string name="TripletScore %1%") -> TripletScore"""
7739 if self.__class__ == TripletScore:
7743 _IMP_kernel.TripletScore_swiginit(self, _IMP_kernel.new_TripletScore(_self, *args))
7745 if self.__class__ != TripletScore:
7746 _director_objects.register(self)
7751 def evaluate_index(self, m, vt, da):
7752 r"""evaluate_index(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt, DerivativeAccumulator da) -> double"""
7753 return _IMP_kernel.TripletScore_evaluate_index(self, m, vt, da)
7755 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound):
7756 r"""evaluate_indexes(TripletScore self, Model m, IMP::ParticleIndexTriplets const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound) -> double"""
7757 return _IMP_kernel.TripletScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound)
7759 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score):
7760 r"""evaluate_indexes_scores(TripletScore self, Model m, IMP::ParticleIndexTriplets const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, std::vector< double,std::allocator< double > > & score) -> double"""
7761 return _IMP_kernel.TripletScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score)
7763 def evaluate_indexes_delta(self, m, o, da, indexes, score):
7764 r"""evaluate_indexes_delta(TripletScore self, Model m, IMP::ParticleIndexTriplets const & o, DerivativeAccumulator da, std::vector< unsigned int,std::allocator< unsigned int > > const & indexes, std::vector< double,std::allocator< double > > & score) -> double"""
7765 return _IMP_kernel.TripletScore_evaluate_indexes_delta(self, m, o, da, indexes, score)
7767 def evaluate_if_good_index(self, m, vt, da, max):
7768 r"""evaluate_if_good_index(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt, DerivativeAccumulator da, double max) -> double"""
7769 return _IMP_kernel.TripletScore_evaluate_if_good_index(self, m, vt, da, max)
7771 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound):
7772 r"""evaluate_if_good_indexes(TripletScore self, Model m, IMP::ParticleIndexTriplets const & o, DerivativeAccumulator da, double max, unsigned int lower_bound, unsigned int upper_bound) -> double"""
7773 return _IMP_kernel.TripletScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound)
7775 def create_current_decomposition(self, m, vt):
7776 r"""create_current_decomposition(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt) -> IMP::Restraints"""
7777 return _IMP_kernel.TripletScore_create_current_decomposition(self, m, vt)
7779 def do_create_current_decomposition(self, m, vt):
7780 r"""do_create_current_decomposition(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt) -> IMP::Restraints"""
7781 return _IMP_kernel.TripletScore_do_create_current_decomposition(self, m, vt)
7782 __swig_destroy__ = _IMP_kernel.delete_TripletScore
7785 r"""__str__(TripletScore self) -> std::string"""
7786 return _IMP_kernel.TripletScore___str__(self)
7789 r"""__repr__(TripletScore self) -> std::string"""
7790 return _IMP_kernel.TripletScore___repr__(self)
7794 return _object_cast_to_TripletScore(o)
7797 def get_type_name(self):
7798 return self.__class__.__name__
7799 def do_show(self, out):
7803 return VersionInfo(self.__module__,
7810 return _object_cast_to_TripletScore(o)
7812 def __disown__(self):
7814 _IMP_kernel.disown_TripletScore(self)
7815 return weakref.proxy(self)
7817 def do_get_inputs(self, m, pis):
7818 r"""do_get_inputs(TripletScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7819 return _IMP_kernel.TripletScore_do_get_inputs(self, m, pis)
7822 r"""do_destroy(TripletScore self)"""
7823 return _IMP_kernel.TripletScore_do_destroy(self)
7826 _IMP_kernel.TripletScore_swigregister(TripletScore)
7827 class TripletPredicate(_ParticleInputs,
Object):
7828 r"""Proxy of C++ IMP::TripletPredicate class."""
7830 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7832 def __init__(self, *args):
7833 r"""__init__(TripletPredicate self, std::string name="TripletPredicate %1%") -> TripletPredicate"""
7834 if self.__class__ == TripletPredicate:
7838 _IMP_kernel.TripletPredicate_swiginit(self, _IMP_kernel.new_TripletPredicate(_self, *args))
7840 if self.__class__ != TripletPredicate:
7841 _director_objects.register(self)
7846 def setup_for_get_value_index_in_batch(self, arg0):
7847 r"""setup_for_get_value_index_in_batch(TripletPredicate self, Model arg0)"""
7848 return _IMP_kernel.TripletPredicate_setup_for_get_value_index_in_batch(self, arg0)
7850 def get_value_index_in_batch(self, m, vt):
7851 r"""get_value_index_in_batch(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int"""
7852 return _IMP_kernel.TripletPredicate_get_value_index_in_batch(self, m, vt)
7854 def __call__(self, m, vt):
7855 r"""__call__(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int"""
7856 return _IMP_kernel.TripletPredicate___call__(self, m, vt)
7858 def get_value_index(self, *args):
7860 get_value_index(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int
7861 get_value_index(TripletPredicate self, Model m, IMP::ParticleIndexTriplets const & o) -> IMP::Ints
7863 return _IMP_kernel.TripletPredicate_get_value_index(self, *args)
7864 __swig_destroy__ = _IMP_kernel.delete_TripletPredicate
7867 r"""__str__(TripletPredicate self) -> std::string"""
7868 return _IMP_kernel.TripletPredicate___str__(self)
7871 r"""__repr__(TripletPredicate self) -> std::string"""
7872 return _IMP_kernel.TripletPredicate___repr__(self)
7876 return _object_cast_to_TripletPredicate(o)
7879 def get_type_name(self):
7880 return self.__class__.__name__
7881 def do_show(self, out):
7885 return VersionInfo(self.__module__,
7892 return _object_cast_to_TripletPredicate(o)
7894 def __disown__(self):
7896 _IMP_kernel.disown_TripletPredicate(self)
7897 return weakref.proxy(self)
7899 def do_get_inputs(self, m, pis):
7900 r"""do_get_inputs(TripletPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7901 return _IMP_kernel.TripletPredicate_do_get_inputs(self, m, pis)
7904 r"""do_destroy(TripletPredicate self)"""
7905 return _IMP_kernel.TripletPredicate_do_destroy(self)
7908 _IMP_kernel.TripletPredicate_swigregister(TripletPredicate)
7909 class TripletContainer(Container):
7910 r"""Proxy of C++ IMP::TripletContainer class."""
7912 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7914 def apply_generic(self, m):
7915 r"""apply_generic(TripletContainer self, TripletModifier m)"""
7916 return _IMP_kernel.TripletContainer_apply_generic(self, m)
7918 def apply_generic_moved(self, m, moved_pis, reset_pis):
7919 r"""apply_generic_moved(TripletContainer self, TripletModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7920 return _IMP_kernel.TripletContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
7922 def apply(self, sm):
7923 r"""apply(TripletContainer self, TripletModifier sm)"""
7924 return _IMP_kernel.TripletContainer_apply(self, sm)
7926 def apply_moved(self, sm, moved_pis, reset_pis):
7927 r"""apply_moved(TripletContainer self, TripletModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7928 return _IMP_kernel.TripletContainer_apply_moved(self, sm, moved_pis, reset_pis)
7930 def get_range_indexes(self):
7931 r"""get_range_indexes(TripletContainer self) -> IMP::ParticleIndexTriplets"""
7932 return _IMP_kernel.TripletContainer_get_range_indexes(self)
7934 def get_contents(self):
7935 r"""get_contents(TripletContainer self) -> IMP::ParticleIndexTriplets const &"""
7936 return _IMP_kernel.TripletContainer_get_contents(self)
7939 r"""get_indexes(TripletContainer self) -> IMP::ParticleIndexTriplets"""
7940 return _IMP_kernel.TripletContainer_get_indexes(self)
7942 def get(self, *args):
7944 get(TripletContainer self) -> IMP::ParticleTripletsTemp
7945 get(TripletContainer self, unsigned int i) -> IMP::ParticleTriplet
7947 return _IMP_kernel.TripletContainer_get(self, *args)
7949 def get_number(self):
7950 r"""get_number(TripletContainer self) -> unsigned int"""
7951 return _IMP_kernel.TripletContainer_get_number(self)
7953 def __init__(self, *args):
7955 __init__(TripletContainer self, Model m, std::string name="TripletContainer %1%") -> TripletContainer
7956 __init__(TripletContainer self) -> TripletContainer
7958 if self.__class__ == TripletContainer:
7962 _IMP_kernel.TripletContainer_swiginit(self, _IMP_kernel.new_TripletContainer(_self, *args))
7964 if self.__class__ != TripletContainer:
7965 _director_objects.register(self)
7970 def do_apply(self, sm):
7971 r"""do_apply(TripletContainer self, TripletModifier sm)"""
7972 return _IMP_kernel.TripletContainer_do_apply(self, sm)
7974 def do_apply_moved(self, sm, moved_pis, reset_pis):
7975 r"""do_apply_moved(TripletContainer self, TripletModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7976 return _IMP_kernel.TripletContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
7978 def do_get_provides_access(self):
7979 r"""do_get_provides_access(TripletContainer self) -> bool"""
7980 return _IMP_kernel.TripletContainer_do_get_provides_access(self)
7981 __swig_destroy__ = _IMP_kernel.delete_TripletContainer
7984 r"""__str__(TripletContainer self) -> std::string"""
7985 return _IMP_kernel.TripletContainer___str__(self)
7988 r"""__repr__(TripletContainer self) -> std::string"""
7989 return _IMP_kernel.TripletContainer___repr__(self)
7993 return _object_cast_to_TripletContainer(o)
7996 def get_type_name(self):
7997 return self.__class__.__name__
7998 def do_show(self, out):
8002 return VersionInfo(self.__module__,
8009 return _object_cast_to_TripletContainer(o)
8011 def __disown__(self):
8013 _IMP_kernel.disown_TripletContainer(self)
8014 return weakref.proxy(self)
8017 r"""do_destroy(TripletContainer self)"""
8018 return _IMP_kernel.TripletContainer_do_destroy(self)
8020 def handle_set_has_required_score_states(self, arg0):
8021 r"""handle_set_has_required_score_states(TripletContainer self, bool arg0)"""
8022 return _IMP_kernel.TripletContainer_handle_set_has_required_score_states(self, arg0)
8024 def do_get_inputs(self):
8025 r"""do_get_inputs(TripletContainer self) -> IMP::ModelObjectsTemp"""
8026 return _IMP_kernel.TripletContainer_do_get_inputs(self)
8028 def do_get_interactions(self):
8029 r"""do_get_interactions(TripletContainer self) -> IMP::ModelObjectsTemps"""
8030 return _IMP_kernel.TripletContainer_do_get_interactions(self)
8032 def do_get_contents_hash(self):
8033 r"""do_get_contents_hash(TripletContainer self) -> std::size_t"""
8034 return _IMP_kernel.TripletContainer_do_get_contents_hash(self)
8037 _IMP_kernel.TripletContainer_swigregister(TripletContainer)
8038 class _TripletContainerAdaptor(_InputAdaptor):
8039 r"""Proxy of C++ IMP::TripletContainerAdaptor class."""
8041 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8042 __repr__ = _swig_repr
8044 def __init__(self, *args):
8046 __init__(_TripletContainerAdaptor self) -> _TripletContainerAdaptor
8047 __init__(_TripletContainerAdaptor self, TripletContainer c) -> _TripletContainerAdaptor
8048 __init__(_TripletContainerAdaptor self, IMP::ParticleTripletsTemp const & t) -> _TripletContainerAdaptor
8050 _IMP_kernel._TripletContainerAdaptor_swiginit(self, _IMP_kernel.new__TripletContainerAdaptor(*args))
8052 def set_name_if_default(self, name):
8053 r"""set_name_if_default(_TripletContainerAdaptor self, std::string name)"""
8054 return _IMP_kernel._TripletContainerAdaptor_set_name_if_default(self, name)
8055 __swig_destroy__ = _IMP_kernel.delete__TripletContainerAdaptor
8058 _IMP_kernel._TripletContainerAdaptor_swigregister(_TripletContainerAdaptor)
8061 r"""write_particles_to_buffer(IMP::ParticlesTemp const & particles, IMP::FloatKeys const & keys) -> IMP::Vector< char,std::allocator< char > >"""
8062 return _IMP_kernel.write_particles_to_buffer(particles, keys)
8065 r"""read_particles_from_buffer(IMP::Vector< char,std::allocator< char > > const & buffer, IMP::ParticlesTemp const & particles, IMP::FloatKeys const & keys)"""
8066 return _IMP_kernel.read_particles_from_buffer(buffer, particles, keys)
8069 r"""get_particles(Model m, IMP::ParticleIndexes const & ps) -> IMP::ParticlesTemp"""
8070 return _IMP_kernel.get_particles(m, ps)
8074 get_indexes(IMP::ParticlesTemp const & ps) -> IMP::ParticleIndexes
8075 get_indexes(IMP::ParticlePairsTemp const & ps) -> IMP::ParticleIndexPairs
8077 return _IMP_kernel.get_indexes(*args)
8078 class _ParticleIndexAdaptor(object):
8079 r"""Proxy of C++ IMP::ParticleIndexAdaptor class."""
8081 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8082 __repr__ = _swig_repr
8084 def __init__(self, *args):
8086 __init__(_ParticleIndexAdaptor self, Particle p) -> _ParticleIndexAdaptor
8087 __init__(_ParticleIndexAdaptor self, ParticleIndex pi) -> _ParticleIndexAdaptor
8088 __init__(_ParticleIndexAdaptor self, Decorator d) -> _ParticleIndexAdaptor
8090 _IMP_kernel._ParticleIndexAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexAdaptor(*args))
8091 __swig_destroy__ = _IMP_kernel.delete__ParticleIndexAdaptor
8094 _IMP_kernel._ParticleIndexAdaptor_swigregister(_ParticleIndexAdaptor)
8095 class _ParticleIndexesAdaptor(_InputAdaptor):
8096 r"""Proxy of C++ IMP::ParticleIndexesAdaptor class."""
8098 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8099 __repr__ = _swig_repr
8101 def __init__(self, *args):
8103 __init__(_ParticleIndexesAdaptor self, IMP::ParticlesTemp const & ps) -> _ParticleIndexesAdaptor
8104 __init__(_ParticleIndexesAdaptor self, IMP::ParticleIndexes const & pi) -> _ParticleIndexesAdaptor
8105 __init__(_ParticleIndexesAdaptor self) -> _ParticleIndexesAdaptor
8107 _IMP_kernel._ParticleIndexesAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexesAdaptor(*args))
8108 __swig_destroy__ = _IMP_kernel.delete__ParticleIndexesAdaptor
8111 _IMP_kernel._ParticleIndexesAdaptor_swigregister(_ParticleIndexesAdaptor)
8112 class _ParticleIndexPairsAdaptor(object):
8113 r"""Proxy of C++ IMP::ParticleIndexPairsAdaptor class."""
8115 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8116 __repr__ = _swig_repr
8118 def __init__(self, *args):
8120 __init__(_ParticleIndexPairsAdaptor self, IMP::ParticlePairsTemp const & ps) -> _ParticleIndexPairsAdaptor
8121 __init__(_ParticleIndexPairsAdaptor self, IMP::ParticleIndexPairs const & pi) -> _ParticleIndexPairsAdaptor
8122 __init__(_ParticleIndexPairsAdaptor self) -> _ParticleIndexPairsAdaptor
8124 _IMP_kernel._ParticleIndexPairsAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexPairsAdaptor(*args))
8125 __swig_destroy__ = _IMP_kernel.delete__ParticleIndexPairsAdaptor
8128 _IMP_kernel._ParticleIndexPairsAdaptor_swigregister(_ParticleIndexPairsAdaptor)
8129 class _ConstRestraint(Restraint):
8130 r"""Proxy of C++ IMP::internal::_ConstRestraint class."""
8132 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8134 def __init__(self, *args):
8136 __init__(_ConstRestraint self, Model m, IMP::ParticleIndexes const & pis, double v) -> _ConstRestraint
8137 __init__(_ConstRestraint self) -> _ConstRestraint
8139 _IMP_kernel._ConstRestraint_swiginit(self, _IMP_kernel.new__ConstRestraint(*args))
8141 def get_value(self):
8142 r"""get_value(_ConstRestraint self) -> double"""
8143 return _IMP_kernel._ConstRestraint_get_value(self)
8145 def do_create_decomposition(self):
8146 r"""do_create_decomposition(_ConstRestraint self) -> IMP::Restraints"""
8147 return _IMP_kernel._ConstRestraint_do_create_decomposition(self)
8149 def do_get_inputs(self):
8150 r"""do_get_inputs(_ConstRestraint self) -> IMP::ModelObjectsTemp"""
8151 return _IMP_kernel._ConstRestraint_do_get_inputs(self)
8154 r"""get_version_info(_ConstRestraint self) -> VersionInfo"""
8155 return _IMP_kernel._ConstRestraint_get_version_info(self)
8156 __swig_destroy__ = _IMP_kernel.delete__ConstRestraint
8159 r"""__str__(_ConstRestraint self) -> std::string"""
8160 return _IMP_kernel._ConstRestraint___str__(self)
8163 r"""__repr__(_ConstRestraint self) -> std::string"""
8164 return _IMP_kernel._ConstRestraint___repr__(self)
8168 return _object_cast_to__ConstRestraint(o)
8171 def _get_as_binary(self):
8172 r"""_get_as_binary(_ConstRestraint self) -> PyObject *"""
8173 return _IMP_kernel._ConstRestraint__get_as_binary(self)
8175 def _set_from_binary(self, p):
8176 r"""_set_from_binary(_ConstRestraint self, PyObject * p)"""
8177 return _IMP_kernel._ConstRestraint__set_from_binary(self, p)
8179 def __getstate__(self):
8180 p = self._get_as_binary()
8181 if len(self.__dict__) > 1:
8182 d = self.__dict__.copy()
8187 def __setstate__(self, p):
8188 if not hasattr(self,
'this'):
8190 if isinstance(p, tuple):
8192 self.__dict__.update(d)
8193 return self._set_from_binary(p)
8197 _IMP_kernel._ConstRestraint_swigregister(_ConstRestraint)
8198 class _ConstSingletonScore(SingletonScore):
8199 r"""Proxy of C++ IMP::internal::_ConstSingletonScore class."""
8201 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8203 def __init__(self, *args):
8205 __init__(_ConstSingletonScore self, double v) -> _ConstSingletonScore
8206 __init__(_ConstSingletonScore self) -> _ConstSingletonScore
8208 _IMP_kernel._ConstSingletonScore_swiginit(self, _IMP_kernel.new__ConstSingletonScore(*args))
8210 def do_get_inputs(self, arg2, arg3):
8211 r"""do_get_inputs(_ConstSingletonScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
8212 return _IMP_kernel._ConstSingletonScore_do_get_inputs(self, arg2, arg3)
8215 r"""get_version_info(_ConstSingletonScore self) -> VersionInfo"""
8216 return _IMP_kernel._ConstSingletonScore_get_version_info(self)
8217 __swig_destroy__ = _IMP_kernel.delete__ConstSingletonScore
8220 r"""__str__(_ConstSingletonScore self) -> std::string"""
8221 return _IMP_kernel._ConstSingletonScore___str__(self)
8224 r"""__repr__(_ConstSingletonScore self) -> std::string"""
8225 return _IMP_kernel._ConstSingletonScore___repr__(self)
8229 return _object_cast_to__ConstSingletonScore(o)
8232 def _get_as_binary(self):
8233 r"""_get_as_binary(_ConstSingletonScore self) -> PyObject *"""
8234 return _IMP_kernel._ConstSingletonScore__get_as_binary(self)
8236 def _set_from_binary(self, p):
8237 r"""_set_from_binary(_ConstSingletonScore self, PyObject * p)"""
8238 return _IMP_kernel._ConstSingletonScore__set_from_binary(self, p)
8240 def __getstate__(self):
8241 p = self._get_as_binary()
8242 if len(self.__dict__) > 1:
8243 d = self.__dict__.copy()
8248 def __setstate__(self, p):
8249 if not hasattr(self,
'this'):
8251 if isinstance(p, tuple):
8253 self.__dict__.update(d)
8254 return self._set_from_binary(p)
8258 _IMP_kernel._ConstSingletonScore_swigregister(_ConstSingletonScore)
8259 class _ConstPairScore(PairScore):
8260 r"""Proxy of C++ IMP::internal::_ConstPairScore class."""
8262 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8264 def __init__(self, *args):
8266 __init__(_ConstPairScore self, double v) -> _ConstPairScore
8267 __init__(_ConstPairScore self) -> _ConstPairScore
8269 _IMP_kernel._ConstPairScore_swiginit(self, _IMP_kernel.new__ConstPairScore(*args))
8271 def do_get_inputs(self, arg2, arg3):
8272 r"""do_get_inputs(_ConstPairScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
8273 return _IMP_kernel._ConstPairScore_do_get_inputs(self, arg2, arg3)
8276 r"""get_version_info(_ConstPairScore self) -> VersionInfo"""
8277 return _IMP_kernel._ConstPairScore_get_version_info(self)
8278 __swig_destroy__ = _IMP_kernel.delete__ConstPairScore
8281 r"""__str__(_ConstPairScore self) -> std::string"""
8282 return _IMP_kernel._ConstPairScore___str__(self)
8285 r"""__repr__(_ConstPairScore self) -> std::string"""
8286 return _IMP_kernel._ConstPairScore___repr__(self)
8290 return _object_cast_to__ConstPairScore(o)
8293 def _get_as_binary(self):
8294 r"""_get_as_binary(_ConstPairScore self) -> PyObject *"""
8295 return _IMP_kernel._ConstPairScore__get_as_binary(self)
8297 def _set_from_binary(self, p):
8298 r"""_set_from_binary(_ConstPairScore self, PyObject * p)"""
8299 return _IMP_kernel._ConstPairScore__set_from_binary(self, p)
8301 def __getstate__(self):
8302 p = self._get_as_binary()
8303 if len(self.__dict__) > 1:
8304 d = self.__dict__.copy()
8309 def __setstate__(self, p):
8310 if not hasattr(self,
'this'):
8312 if isinstance(p, tuple):
8314 self.__dict__.update(d)
8315 return self._set_from_binary(p)
8319 _IMP_kernel._ConstPairScore_swigregister(_ConstPairScore)
8320 class _TrivialDecorator(Decorator):
8321 r"""Proxy of C++ IMP::internal::_TrivialDecorator class."""
8323 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8325 def __init__(self, *args):
8327 __init__(_TrivialDecorator self) -> _TrivialDecorator
8328 __init__(_TrivialDecorator self, Model m, ParticleIndex id) -> _TrivialDecorator
8329 __init__(_TrivialDecorator self, _ParticleAdaptor d) -> _TrivialDecorator
8331 _IMP_kernel._TrivialDecorator_swiginit(self, _IMP_kernel.new__TrivialDecorator(*args))
8333 def show(self, *args):
8334 r"""show(_TrivialDecorator self, _ostream out=std::cout)"""
8335 return _IMP_kernel._TrivialDecorator_show(self, *args)
8338 def setup_particle(*args):
8340 setup_particle(Model m, ParticleIndex pi) -> _TrivialDecorator
8341 setup_particle(_ParticleAdaptor pa) -> _TrivialDecorator
8343 return _IMP_kernel._TrivialDecorator_setup_particle(*args)
8346 def get_is_setup(*args):
8348 get_is_setup(_ParticleAdaptor p) -> bool
8349 get_is_setup(Model m, ParticleIndex pi) -> bool
8351 return _IMP_kernel._TrivialDecorator_get_is_setup(*args)
8355 add_attribute(_TrivialDecorator self, FloatKey k, IMP::Float v, bool opt)
8356 add_attribute(_TrivialDecorator self, FloatKey a0, IMP::Float a1)
8357 add_attribute(_TrivialDecorator self, IntKey a0, IMP::Int a1)
8358 add_attribute(_TrivialDecorator self, FloatsKey a0, IMP::Floats a1)
8359 add_attribute(_TrivialDecorator self, IntsKey a0, IMP::Ints a1)
8360 add_attribute(_TrivialDecorator self, StringKey a0, IMP::String a1)
8361 add_attribute(_TrivialDecorator self, ParticleIndexKey a0, Particle a1)
8362 add_attribute(_TrivialDecorator self, ObjectKey a0, Object a1)
8363 add_attribute(_TrivialDecorator self, SparseFloatKey a0, IMP::Float a1)
8364 add_attribute(_TrivialDecorator self, SparseIntKey a0, IMP::Int a1)
8365 add_attribute(_TrivialDecorator self, SparseStringKey a0, IMP::String a1)
8366 add_attribute(_TrivialDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8368 return _IMP_kernel._TrivialDecorator_add_attribute(self, *args)
8370 def get_value(self, *args):
8372 get_value(_TrivialDecorator self, FloatKey a0) -> IMP::Float
8373 get_value(_TrivialDecorator self, IntKey a0) -> IMP::Int
8374 get_value(_TrivialDecorator self, FloatsKey a0) -> IMP::Floats
8375 get_value(_TrivialDecorator self, IntsKey a0) -> IMP::Ints
8376 get_value(_TrivialDecorator self, StringKey a0) -> IMP::String
8377 get_value(_TrivialDecorator self, ParticleIndexKey a0) -> Particle
8378 get_value(_TrivialDecorator self, ObjectKey a0) -> Object
8379 get_value(_TrivialDecorator self, SparseFloatKey a0) -> IMP::Float
8380 get_value(_TrivialDecorator self, SparseIntKey a0) -> IMP::Int
8381 get_value(_TrivialDecorator self, SparseStringKey a0) -> IMP::String
8382 get_value(_TrivialDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
8384 return _IMP_kernel._TrivialDecorator_get_value(self, *args)
8386 def set_value(self, *args):
8388 set_value(_TrivialDecorator self, FloatKey a0, IMP::Float a1)
8389 set_value(_TrivialDecorator self, IntKey a0, IMP::Int a1)
8390 set_value(_TrivialDecorator self, FloatsKey a0, IMP::Floats a1)
8391 set_value(_TrivialDecorator self, IntsKey a0, IMP::Ints a1)
8392 set_value(_TrivialDecorator self, StringKey a0, IMP::String a1)
8393 set_value(_TrivialDecorator self, ParticleIndexKey a0, Particle a1)
8394 set_value(_TrivialDecorator self, ObjectKey a0, Object a1)
8395 set_value(_TrivialDecorator self, SparseFloatKey a0, IMP::Float a1)
8396 set_value(_TrivialDecorator self, SparseIntKey a0, IMP::Int a1)
8397 set_value(_TrivialDecorator self, SparseStringKey a0, IMP::String a1)
8398 set_value(_TrivialDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8400 return _IMP_kernel._TrivialDecorator_set_value(self, *args)
8404 remove_attribute(_TrivialDecorator self, FloatKey a0)
8405 remove_attribute(_TrivialDecorator self, IntKey a0)
8406 remove_attribute(_TrivialDecorator self, FloatsKey a0)
8407 remove_attribute(_TrivialDecorator self, IntsKey a0)
8408 remove_attribute(_TrivialDecorator self, StringKey a0)
8409 remove_attribute(_TrivialDecorator self, ParticleIndexKey a0)
8410 remove_attribute(_TrivialDecorator self, ObjectKey a0)
8411 remove_attribute(_TrivialDecorator self, SparseFloatKey a0)
8412 remove_attribute(_TrivialDecorator self, SparseIntKey a0)
8413 remove_attribute(_TrivialDecorator self, SparseStringKey a0)
8414 remove_attribute(_TrivialDecorator self, SparseParticleIndexKey a0)
8416 return _IMP_kernel._TrivialDecorator_remove_attribute(self, *args)
8418 def has_attribute(self, *args):
8420 has_attribute(_TrivialDecorator self, FloatKey a0) -> bool
8421 has_attribute(_TrivialDecorator self, IntKey a0) -> bool
8422 has_attribute(_TrivialDecorator self, FloatsKey a0) -> bool
8423 has_attribute(_TrivialDecorator self, IntsKey a0) -> bool
8424 has_attribute(_TrivialDecorator self, StringKey a0) -> bool
8425 has_attribute(_TrivialDecorator self, ParticleIndexKey a0) -> bool
8426 has_attribute(_TrivialDecorator self, ObjectKey a0) -> bool
8427 has_attribute(_TrivialDecorator self, SparseFloatKey a0) -> bool
8428 has_attribute(_TrivialDecorator self, SparseIntKey a0) -> bool
8429 has_attribute(_TrivialDecorator self, SparseStringKey a0) -> bool
8430 has_attribute(_TrivialDecorator self, SparseParticleIndexKey a0) -> bool
8432 return _IMP_kernel._TrivialDecorator_has_attribute(self, *args)
8434 def get_derivative(self, a0):
8435 r"""get_derivative(_TrivialDecorator self, FloatKey a0) -> double"""
8436 return _IMP_kernel._TrivialDecorator_get_derivative(self, a0)
8439 r"""get_name(_TrivialDecorator self) -> std::string"""
8440 return _IMP_kernel._TrivialDecorator_get_name(self)
8443 r"""clear_caches(_TrivialDecorator self)"""
8444 return _IMP_kernel._TrivialDecorator_clear_caches(self)
8446 def set_name(self, a0):
8447 r"""set_name(_TrivialDecorator self, std::string a0)"""
8448 return _IMP_kernel._TrivialDecorator_set_name(self, a0)
8451 r"""set_check_level(_TrivialDecorator self, IMP::CheckLevel a0)"""
8452 return _IMP_kernel._TrivialDecorator_set_check_level(self, a0)
8454 def add_to_derivative(self, a0, a1, a2):
8455 r"""add_to_derivative(_TrivialDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
8456 return _IMP_kernel._TrivialDecorator_add_to_derivative(self, a0, a1, a2)
8459 r"""set_is_optimized(_TrivialDecorator self, FloatKey a0, bool a1)"""
8460 return _IMP_kernel._TrivialDecorator_set_is_optimized(self, a0, a1)
8462 def get_is_optimized(self, a0):
8463 r"""get_is_optimized(_TrivialDecorator self, FloatKey a0) -> bool"""
8464 return _IMP_kernel._TrivialDecorator_get_is_optimized(self, a0)
8466 def get_check_level(self):
8467 r"""get_check_level(_TrivialDecorator self) -> IMP::CheckLevel"""
8468 return _IMP_kernel._TrivialDecorator_get_check_level(self)
8470 def __eq__(self, *args):
8472 __eq__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8473 __eq__(_TrivialDecorator self, Particle d) -> bool
8475 return _IMP_kernel._TrivialDecorator___eq__(self, *args)
8477 def __ne__(self, *args):
8479 __ne__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8480 __ne__(_TrivialDecorator self, Particle d) -> bool
8482 return _IMP_kernel._TrivialDecorator___ne__(self, *args)
8484 def __le__(self, *args):
8486 __le__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8487 __le__(_TrivialDecorator self, Particle d) -> bool
8489 return _IMP_kernel._TrivialDecorator___le__(self, *args)
8491 def __lt__(self, *args):
8493 __lt__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8494 __lt__(_TrivialDecorator self, Particle d) -> bool
8496 return _IMP_kernel._TrivialDecorator___lt__(self, *args)
8498 def __ge__(self, *args):
8500 __ge__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8501 __ge__(_TrivialDecorator self, Particle d) -> bool
8503 return _IMP_kernel._TrivialDecorator___ge__(self, *args)
8505 def __gt__(self, *args):
8507 __gt__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8508 __gt__(_TrivialDecorator self, Particle d) -> bool
8510 return _IMP_kernel._TrivialDecorator___gt__(self, *args)
8513 r"""__hash__(_TrivialDecorator self) -> std::size_t"""
8514 return _IMP_kernel._TrivialDecorator___hash__(self)
8517 r"""__str__(_TrivialDecorator self) -> std::string"""
8518 return _IMP_kernel._TrivialDecorator___str__(self)
8521 r"""__repr__(_TrivialDecorator self) -> std::string"""
8522 return _IMP_kernel._TrivialDecorator___repr__(self)
8524 def _get_as_binary(self):
8525 r"""_get_as_binary(_TrivialDecorator self) -> PyObject *"""
8526 return _IMP_kernel._TrivialDecorator__get_as_binary(self)
8528 def _set_from_binary(self, p):
8529 r"""_set_from_binary(_TrivialDecorator self, PyObject * p)"""
8530 return _IMP_kernel._TrivialDecorator__set_from_binary(self, p)
8532 def __getstate__(self):
8533 p = self._get_as_binary()
8534 if len(self.__dict__) > 1:
8535 d = self.__dict__.copy()
8540 def __setstate__(self, p):
8541 if not hasattr(self,
'this'):
8543 if isinstance(p, tuple):
8545 self.__dict__.update(d)
8546 return self._set_from_binary(p)
8548 __swig_destroy__ = _IMP_kernel.delete__TrivialDecorator
8551 _IMP_kernel._TrivialDecorator_swigregister(_TrivialDecorator)
8552 class _TrivialDerivedDecorator(_TrivialDecorator):
8553 r"""Proxy of C++ IMP::internal::_TrivialDerivedDecorator class."""
8555 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8557 def __init__(self, *args):
8559 __init__(_TrivialDerivedDecorator self) -> _TrivialDerivedDecorator
8560 __init__(_TrivialDerivedDecorator self, Model m, ParticleIndex id) -> _TrivialDerivedDecorator
8561 __init__(_TrivialDerivedDecorator self, _ParticleAdaptor d) -> _TrivialDerivedDecorator
8563 _IMP_kernel._TrivialDerivedDecorator_swiginit(self, _IMP_kernel.new__TrivialDerivedDecorator(*args))
8565 def show(self, *args):
8566 r"""show(_TrivialDerivedDecorator self, _ostream out=std::cout)"""
8567 return _IMP_kernel._TrivialDerivedDecorator_show(self, *args)
8570 def setup_particle(*args):
8572 setup_particle(Model m, ParticleIndex pi) -> _TrivialDerivedDecorator
8573 setup_particle(_ParticleAdaptor pa) -> _TrivialDerivedDecorator
8575 return _IMP_kernel._TrivialDerivedDecorator_setup_particle(*args)
8578 def get_is_setup(*args):
8580 get_is_setup(_ParticleAdaptor p) -> bool
8581 get_is_setup(Model m, ParticleIndex pi) -> bool
8583 return _IMP_kernel._TrivialDerivedDecorator_get_is_setup(*args)
8587 add_attribute(_TrivialDerivedDecorator self, FloatKey k, IMP::Float v, bool opt)
8588 add_attribute(_TrivialDerivedDecorator self, FloatKey a0, IMP::Float a1)
8589 add_attribute(_TrivialDerivedDecorator self, IntKey a0, IMP::Int a1)
8590 add_attribute(_TrivialDerivedDecorator self, FloatsKey a0, IMP::Floats a1)
8591 add_attribute(_TrivialDerivedDecorator self, IntsKey a0, IMP::Ints a1)
8592 add_attribute(_TrivialDerivedDecorator self, StringKey a0, IMP::String a1)
8593 add_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0, Particle a1)
8594 add_attribute(_TrivialDerivedDecorator self, ObjectKey a0, Object a1)
8595 add_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0, IMP::Float a1)
8596 add_attribute(_TrivialDerivedDecorator self, SparseIntKey a0, IMP::Int a1)
8597 add_attribute(_TrivialDerivedDecorator self, SparseStringKey a0, IMP::String a1)
8598 add_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8600 return _IMP_kernel._TrivialDerivedDecorator_add_attribute(self, *args)
8602 def get_value(self, *args):
8604 get_value(_TrivialDerivedDecorator self, FloatKey a0) -> IMP::Float
8605 get_value(_TrivialDerivedDecorator self, IntKey a0) -> IMP::Int
8606 get_value(_TrivialDerivedDecorator self, FloatsKey a0) -> IMP::Floats
8607 get_value(_TrivialDerivedDecorator self, IntsKey a0) -> IMP::Ints
8608 get_value(_TrivialDerivedDecorator self, StringKey a0) -> IMP::String
8609 get_value(_TrivialDerivedDecorator self, ParticleIndexKey a0) -> Particle
8610 get_value(_TrivialDerivedDecorator self, ObjectKey a0) -> Object
8611 get_value(_TrivialDerivedDecorator self, SparseFloatKey a0) -> IMP::Float
8612 get_value(_TrivialDerivedDecorator self, SparseIntKey a0) -> IMP::Int
8613 get_value(_TrivialDerivedDecorator self, SparseStringKey a0) -> IMP::String
8614 get_value(_TrivialDerivedDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
8616 return _IMP_kernel._TrivialDerivedDecorator_get_value(self, *args)
8618 def set_value(self, *args):
8620 set_value(_TrivialDerivedDecorator self, FloatKey a0, IMP::Float a1)
8621 set_value(_TrivialDerivedDecorator self, IntKey a0, IMP::Int a1)
8622 set_value(_TrivialDerivedDecorator self, FloatsKey a0, IMP::Floats a1)
8623 set_value(_TrivialDerivedDecorator self, IntsKey a0, IMP::Ints a1)
8624 set_value(_TrivialDerivedDecorator self, StringKey a0, IMP::String a1)
8625 set_value(_TrivialDerivedDecorator self, ParticleIndexKey a0, Particle a1)
8626 set_value(_TrivialDerivedDecorator self, ObjectKey a0, Object a1)
8627 set_value(_TrivialDerivedDecorator self, SparseFloatKey a0, IMP::Float a1)
8628 set_value(_TrivialDerivedDecorator self, SparseIntKey a0, IMP::Int a1)
8629 set_value(_TrivialDerivedDecorator self, SparseStringKey a0, IMP::String a1)
8630 set_value(_TrivialDerivedDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8632 return _IMP_kernel._TrivialDerivedDecorator_set_value(self, *args)
8636 remove_attribute(_TrivialDerivedDecorator self, FloatKey a0)
8637 remove_attribute(_TrivialDerivedDecorator self, IntKey a0)
8638 remove_attribute(_TrivialDerivedDecorator self, FloatsKey a0)
8639 remove_attribute(_TrivialDerivedDecorator self, IntsKey a0)
8640 remove_attribute(_TrivialDerivedDecorator self, StringKey a0)
8641 remove_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0)
8642 remove_attribute(_TrivialDerivedDecorator self, ObjectKey a0)
8643 remove_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0)
8644 remove_attribute(_TrivialDerivedDecorator self, SparseIntKey a0)
8645 remove_attribute(_TrivialDerivedDecorator self, SparseStringKey a0)
8646 remove_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0)
8648 return _IMP_kernel._TrivialDerivedDecorator_remove_attribute(self, *args)
8650 def has_attribute(self, *args):
8652 has_attribute(_TrivialDerivedDecorator self, FloatKey a0) -> bool
8653 has_attribute(_TrivialDerivedDecorator self, IntKey a0) -> bool
8654 has_attribute(_TrivialDerivedDecorator self, FloatsKey a0) -> bool
8655 has_attribute(_TrivialDerivedDecorator self, IntsKey a0) -> bool
8656 has_attribute(_TrivialDerivedDecorator self, StringKey a0) -> bool
8657 has_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0) -> bool
8658 has_attribute(_TrivialDerivedDecorator self, ObjectKey a0) -> bool
8659 has_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0) -> bool
8660 has_attribute(_TrivialDerivedDecorator self, SparseIntKey a0) -> bool
8661 has_attribute(_TrivialDerivedDecorator self, SparseStringKey a0) -> bool
8662 has_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0) -> bool
8664 return _IMP_kernel._TrivialDerivedDecorator_has_attribute(self, *args)
8666 def get_derivative(self, a0):
8667 r"""get_derivative(_TrivialDerivedDecorator self, FloatKey a0) -> double"""
8668 return _IMP_kernel._TrivialDerivedDecorator_get_derivative(self, a0)
8671 r"""get_name(_TrivialDerivedDecorator self) -> std::string"""
8672 return _IMP_kernel._TrivialDerivedDecorator_get_name(self)
8675 r"""clear_caches(_TrivialDerivedDecorator self)"""
8676 return _IMP_kernel._TrivialDerivedDecorator_clear_caches(self)
8678 def set_name(self, a0):
8679 r"""set_name(_TrivialDerivedDecorator self, std::string a0)"""
8680 return _IMP_kernel._TrivialDerivedDecorator_set_name(self, a0)
8683 r"""set_check_level(_TrivialDerivedDecorator self, IMP::CheckLevel a0)"""
8684 return _IMP_kernel._TrivialDerivedDecorator_set_check_level(self, a0)
8686 def add_to_derivative(self, a0, a1, a2):
8687 r"""add_to_derivative(_TrivialDerivedDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
8688 return _IMP_kernel._TrivialDerivedDecorator_add_to_derivative(self, a0, a1, a2)
8691 r"""set_is_optimized(_TrivialDerivedDecorator self, FloatKey a0, bool a1)"""
8692 return _IMP_kernel._TrivialDerivedDecorator_set_is_optimized(self, a0, a1)
8694 def get_is_optimized(self, a0):
8695 r"""get_is_optimized(_TrivialDerivedDecorator self, FloatKey a0) -> bool"""
8696 return _IMP_kernel._TrivialDerivedDecorator_get_is_optimized(self, a0)
8698 def get_check_level(self):
8699 r"""get_check_level(_TrivialDerivedDecorator self) -> IMP::CheckLevel"""
8700 return _IMP_kernel._TrivialDerivedDecorator_get_check_level(self)
8702 def __eq__(self, *args):
8704 __eq__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8705 __eq__(_TrivialDerivedDecorator self, Particle d) -> bool
8707 return _IMP_kernel._TrivialDerivedDecorator___eq__(self, *args)
8709 def __ne__(self, *args):
8711 __ne__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8712 __ne__(_TrivialDerivedDecorator self, Particle d) -> bool
8714 return _IMP_kernel._TrivialDerivedDecorator___ne__(self, *args)
8716 def __le__(self, *args):
8718 __le__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8719 __le__(_TrivialDerivedDecorator self, Particle d) -> bool
8721 return _IMP_kernel._TrivialDerivedDecorator___le__(self, *args)
8723 def __lt__(self, *args):
8725 __lt__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8726 __lt__(_TrivialDerivedDecorator self, Particle d) -> bool
8728 return _IMP_kernel._TrivialDerivedDecorator___lt__(self, *args)
8730 def __ge__(self, *args):
8732 __ge__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8733 __ge__(_TrivialDerivedDecorator self, Particle d) -> bool
8735 return _IMP_kernel._TrivialDerivedDecorator___ge__(self, *args)
8737 def __gt__(self, *args):
8739 __gt__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8740 __gt__(_TrivialDerivedDecorator self, Particle d) -> bool
8742 return _IMP_kernel._TrivialDerivedDecorator___gt__(self, *args)
8745 r"""__hash__(_TrivialDerivedDecorator self) -> std::size_t"""
8746 return _IMP_kernel._TrivialDerivedDecorator___hash__(self)
8749 r"""__str__(_TrivialDerivedDecorator self) -> std::string"""
8750 return _IMP_kernel._TrivialDerivedDecorator___str__(self)
8753 r"""__repr__(_TrivialDerivedDecorator self) -> std::string"""
8754 return _IMP_kernel._TrivialDerivedDecorator___repr__(self)
8756 def _get_as_binary(self):
8757 r"""_get_as_binary(_TrivialDerivedDecorator self) -> PyObject *"""
8758 return _IMP_kernel._TrivialDerivedDecorator__get_as_binary(self)
8760 def _set_from_binary(self, p):
8761 r"""_set_from_binary(_TrivialDerivedDecorator self, PyObject * p)"""
8762 return _IMP_kernel._TrivialDerivedDecorator__set_from_binary(self, p)
8764 def __getstate__(self):
8765 p = self._get_as_binary()
8766 if len(self.__dict__) > 1:
8767 d = self.__dict__.copy()
8772 def __setstate__(self, p):
8773 if not hasattr(self,
'this'):
8775 if isinstance(p, tuple):
8777 self.__dict__.update(d)
8778 return self._set_from_binary(p)
8780 __swig_destroy__ = _IMP_kernel.delete__TrivialDerivedDecorator
8783 _IMP_kernel._TrivialDerivedDecorator_swigregister(_TrivialDerivedDecorator)
8784 class _TrivialTraitsDecorator(Decorator):
8785 r"""Proxy of C++ IMP::internal::_TrivialTraitsDecorator class."""
8787 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8789 def get_decorator_traits(self):
8790 r"""get_decorator_traits(_TrivialTraitsDecorator self) -> StringKey"""
8791 return _IMP_kernel._TrivialTraitsDecorator_get_decorator_traits(self)
8794 def get_default_decorator_traits():
8795 r"""get_default_decorator_traits() -> StringKey"""
8796 return _IMP_kernel._TrivialTraitsDecorator_get_default_decorator_traits()
8798 def __init__(self, *args):
8800 __init__(_TrivialTraitsDecorator self) -> _TrivialTraitsDecorator
8801 __init__(_TrivialTraitsDecorator self, Model m, ParticleIndex id, StringKey tr=get_default_key()) -> _TrivialTraitsDecorator
8802 __init__(_TrivialTraitsDecorator self, _ParticleAdaptor d, StringKey tr=get_default_key()) -> _TrivialTraitsDecorator
8804 _IMP_kernel._TrivialTraitsDecorator_swiginit(self, _IMP_kernel.new__TrivialTraitsDecorator(*args))
8806 def show(self, *args):
8807 r"""show(_TrivialTraitsDecorator self, _ostream out=std::cout)"""
8808 return _IMP_kernel._TrivialTraitsDecorator_show(self, *args)
8811 def setup_particle(*args):
8813 setup_particle(Model m, ParticleIndex pi, StringKey tr=IMP::internal::_TrivialTraitsDecorator::get_default_decorator_traits()) -> _TrivialTraitsDecorator
8814 setup_particle(_ParticleAdaptor d, StringKey tr=IMP::internal::_TrivialTraitsDecorator::get_default_decorator_traits()) -> _TrivialTraitsDecorator
8816 return _IMP_kernel._TrivialTraitsDecorator_setup_particle(*args)
8819 def get_is_setup(*args):
8821 get_is_setup(_ParticleAdaptor p, StringKey tr=get_default_key()) -> bool
8822 get_is_setup(Model m, ParticleIndex pi, StringKey k=get_default_key()) -> bool
8824 return _IMP_kernel._TrivialTraitsDecorator_get_is_setup(*args)
8827 def get_default_key():
8828 r"""get_default_key() -> StringKey"""
8829 return _IMP_kernel._TrivialTraitsDecorator_get_default_key()
8833 add_attribute(_TrivialTraitsDecorator self, FloatKey k, IMP::Float v, bool opt)
8834 add_attribute(_TrivialTraitsDecorator self, FloatKey a0, IMP::Float a1)
8835 add_attribute(_TrivialTraitsDecorator self, IntKey a0, IMP::Int a1)
8836 add_attribute(_TrivialTraitsDecorator self, FloatsKey a0, IMP::Floats a1)
8837 add_attribute(_TrivialTraitsDecorator self, IntsKey a0, IMP::Ints a1)
8838 add_attribute(_TrivialTraitsDecorator self, StringKey a0, IMP::String a1)
8839 add_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0, Particle a1)
8840 add_attribute(_TrivialTraitsDecorator self, ObjectKey a0, Object a1)
8841 add_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0, IMP::Float a1)
8842 add_attribute(_TrivialTraitsDecorator self, SparseIntKey a0, IMP::Int a1)
8843 add_attribute(_TrivialTraitsDecorator self, SparseStringKey a0, IMP::String a1)
8844 add_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8846 return _IMP_kernel._TrivialTraitsDecorator_add_attribute(self, *args)
8848 def get_value(self, *args):
8850 get_value(_TrivialTraitsDecorator self, FloatKey a0) -> IMP::Float
8851 get_value(_TrivialTraitsDecorator self, IntKey a0) -> IMP::Int
8852 get_value(_TrivialTraitsDecorator self, FloatsKey a0) -> IMP::Floats
8853 get_value(_TrivialTraitsDecorator self, IntsKey a0) -> IMP::Ints
8854 get_value(_TrivialTraitsDecorator self, StringKey a0) -> IMP::String
8855 get_value(_TrivialTraitsDecorator self, ParticleIndexKey a0) -> Particle
8856 get_value(_TrivialTraitsDecorator self, ObjectKey a0) -> Object
8857 get_value(_TrivialTraitsDecorator self, SparseFloatKey a0) -> IMP::Float
8858 get_value(_TrivialTraitsDecorator self, SparseIntKey a0) -> IMP::Int
8859 get_value(_TrivialTraitsDecorator self, SparseStringKey a0) -> IMP::String
8860 get_value(_TrivialTraitsDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
8862 return _IMP_kernel._TrivialTraitsDecorator_get_value(self, *args)
8864 def set_value(self, *args):
8866 set_value(_TrivialTraitsDecorator self, FloatKey a0, IMP::Float a1)
8867 set_value(_TrivialTraitsDecorator self, IntKey a0, IMP::Int a1)
8868 set_value(_TrivialTraitsDecorator self, FloatsKey a0, IMP::Floats a1)
8869 set_value(_TrivialTraitsDecorator self, IntsKey a0, IMP::Ints a1)
8870 set_value(_TrivialTraitsDecorator self, StringKey a0, IMP::String a1)
8871 set_value(_TrivialTraitsDecorator self, ParticleIndexKey a0, Particle a1)
8872 set_value(_TrivialTraitsDecorator self, ObjectKey a0, Object a1)
8873 set_value(_TrivialTraitsDecorator self, SparseFloatKey a0, IMP::Float a1)
8874 set_value(_TrivialTraitsDecorator self, SparseIntKey a0, IMP::Int a1)
8875 set_value(_TrivialTraitsDecorator self, SparseStringKey a0, IMP::String a1)
8876 set_value(_TrivialTraitsDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8878 return _IMP_kernel._TrivialTraitsDecorator_set_value(self, *args)
8882 remove_attribute(_TrivialTraitsDecorator self, FloatKey a0)
8883 remove_attribute(_TrivialTraitsDecorator self, IntKey a0)
8884 remove_attribute(_TrivialTraitsDecorator self, FloatsKey a0)
8885 remove_attribute(_TrivialTraitsDecorator self, IntsKey a0)
8886 remove_attribute(_TrivialTraitsDecorator self, StringKey a0)
8887 remove_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0)
8888 remove_attribute(_TrivialTraitsDecorator self, ObjectKey a0)
8889 remove_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0)
8890 remove_attribute(_TrivialTraitsDecorator self, SparseIntKey a0)
8891 remove_attribute(_TrivialTraitsDecorator self, SparseStringKey a0)
8892 remove_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0)
8894 return _IMP_kernel._TrivialTraitsDecorator_remove_attribute(self, *args)
8896 def has_attribute(self, *args):
8898 has_attribute(_TrivialTraitsDecorator self, FloatKey a0) -> bool
8899 has_attribute(_TrivialTraitsDecorator self, IntKey a0) -> bool
8900 has_attribute(_TrivialTraitsDecorator self, FloatsKey a0) -> bool
8901 has_attribute(_TrivialTraitsDecorator self, IntsKey a0) -> bool
8902 has_attribute(_TrivialTraitsDecorator self, StringKey a0) -> bool
8903 has_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0) -> bool
8904 has_attribute(_TrivialTraitsDecorator self, ObjectKey a0) -> bool
8905 has_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0) -> bool
8906 has_attribute(_TrivialTraitsDecorator self, SparseIntKey a0) -> bool
8907 has_attribute(_TrivialTraitsDecorator self, SparseStringKey a0) -> bool
8908 has_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0) -> bool
8910 return _IMP_kernel._TrivialTraitsDecorator_has_attribute(self, *args)
8912 def get_derivative(self, a0):
8913 r"""get_derivative(_TrivialTraitsDecorator self, FloatKey a0) -> double"""
8914 return _IMP_kernel._TrivialTraitsDecorator_get_derivative(self, a0)
8917 r"""get_name(_TrivialTraitsDecorator self) -> std::string"""
8918 return _IMP_kernel._TrivialTraitsDecorator_get_name(self)
8921 r"""clear_caches(_TrivialTraitsDecorator self)"""
8922 return _IMP_kernel._TrivialTraitsDecorator_clear_caches(self)
8924 def set_name(self, a0):
8925 r"""set_name(_TrivialTraitsDecorator self, std::string a0)"""
8926 return _IMP_kernel._TrivialTraitsDecorator_set_name(self, a0)
8929 r"""set_check_level(_TrivialTraitsDecorator self, IMP::CheckLevel a0)"""
8930 return _IMP_kernel._TrivialTraitsDecorator_set_check_level(self, a0)
8932 def add_to_derivative(self, a0, a1, a2):
8933 r"""add_to_derivative(_TrivialTraitsDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
8934 return _IMP_kernel._TrivialTraitsDecorator_add_to_derivative(self, a0, a1, a2)
8937 r"""set_is_optimized(_TrivialTraitsDecorator self, FloatKey a0, bool a1)"""
8938 return _IMP_kernel._TrivialTraitsDecorator_set_is_optimized(self, a0, a1)
8940 def get_is_optimized(self, a0):
8941 r"""get_is_optimized(_TrivialTraitsDecorator self, FloatKey a0) -> bool"""
8942 return _IMP_kernel._TrivialTraitsDecorator_get_is_optimized(self, a0)
8944 def get_check_level(self):
8945 r"""get_check_level(_TrivialTraitsDecorator self) -> IMP::CheckLevel"""
8946 return _IMP_kernel._TrivialTraitsDecorator_get_check_level(self)
8948 def __eq__(self, *args):
8950 __eq__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
8951 __eq__(_TrivialTraitsDecorator self, Particle d) -> bool
8953 return _IMP_kernel._TrivialTraitsDecorator___eq__(self, *args)
8955 def __ne__(self, *args):
8957 __ne__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
8958 __ne__(_TrivialTraitsDecorator self, Particle d) -> bool
8960 return _IMP_kernel._TrivialTraitsDecorator___ne__(self, *args)
8962 def __le__(self, *args):
8964 __le__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
8965 __le__(_TrivialTraitsDecorator self, Particle d) -> bool
8967 return _IMP_kernel._TrivialTraitsDecorator___le__(self, *args)
8969 def __lt__(self, *args):
8971 __lt__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
8972 __lt__(_TrivialTraitsDecorator self, Particle d) -> bool
8974 return _IMP_kernel._TrivialTraitsDecorator___lt__(self, *args)
8976 def __ge__(self, *args):
8978 __ge__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
8979 __ge__(_TrivialTraitsDecorator self, Particle d) -> bool
8981 return _IMP_kernel._TrivialTraitsDecorator___ge__(self, *args)
8983 def __gt__(self, *args):
8985 __gt__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
8986 __gt__(_TrivialTraitsDecorator self, Particle d) -> bool
8988 return _IMP_kernel._TrivialTraitsDecorator___gt__(self, *args)
8991 r"""__hash__(_TrivialTraitsDecorator self) -> std::size_t"""
8992 return _IMP_kernel._TrivialTraitsDecorator___hash__(self)
8995 r"""__str__(_TrivialTraitsDecorator self) -> std::string"""
8996 return _IMP_kernel._TrivialTraitsDecorator___str__(self)
8999 r"""__repr__(_TrivialTraitsDecorator self) -> std::string"""
9000 return _IMP_kernel._TrivialTraitsDecorator___repr__(self)
9001 __swig_destroy__ = _IMP_kernel.delete__TrivialTraitsDecorator
9004 _IMP_kernel._TrivialTraitsDecorator_swigregister(_TrivialTraitsDecorator)
9006 def __lshift__(*args):
9008 __lshift__(_ostream out, _TrivialDecorator n) -> _ostream
9009 __lshift__(_ostream out, _TrivialDerivedDecorator n) -> _ostream
9010 __lshift__(_ostream out, _TrivialTraitsDecorator n) -> _ostream
9012 return _IMP_kernel.__lshift__(*args)
9013 class _ConstOptimizer(Optimizer):
9014 r"""Proxy of C++ IMP::internal::_ConstOptimizer class."""
9016 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9018 def __init__(self, *args):
9020 __init__(_ConstOptimizer self, Model m) -> _ConstOptimizer
9021 __init__(_ConstOptimizer self) -> _ConstOptimizer
9023 _IMP_kernel._ConstOptimizer_swiginit(self, _IMP_kernel.new__ConstOptimizer(*args))
9025 def do_optimize(self, max_steps):
9026 r"""do_optimize(_ConstOptimizer self, unsigned int max_steps) -> IMP::Float"""
9027 return _IMP_kernel._ConstOptimizer_do_optimize(self, max_steps)
9030 r"""get_version_info(_ConstOptimizer self) -> VersionInfo"""
9031 return _IMP_kernel._ConstOptimizer_get_version_info(self)
9032 __swig_destroy__ = _IMP_kernel.delete__ConstOptimizer
9035 r"""__str__(_ConstOptimizer self) -> std::string"""
9036 return _IMP_kernel._ConstOptimizer___str__(self)
9039 r"""__repr__(_ConstOptimizer self) -> std::string"""
9040 return _IMP_kernel._ConstOptimizer___repr__(self)
9044 return _object_cast_to__ConstOptimizer(o)
9047 def _get_as_binary(self):
9048 r"""_get_as_binary(_ConstOptimizer self) -> PyObject *"""
9049 return _IMP_kernel._ConstOptimizer__get_as_binary(self)
9051 def _set_from_binary(self, p):
9052 r"""_set_from_binary(_ConstOptimizer self, PyObject * p)"""
9053 return _IMP_kernel._ConstOptimizer__set_from_binary(self, p)
9055 def __getstate__(self):
9056 p = self._get_as_binary()
9057 if len(self.__dict__) > 1:
9058 d = self.__dict__.copy()
9063 def __setstate__(self, p):
9064 if not hasattr(self,
'this'):
9066 if isinstance(p, tuple):
9068 self.__dict__.update(d)
9069 return self._set_from_binary(p)
9073 _IMP_kernel._ConstOptimizer_swigregister(_ConstOptimizer)
9076 r"""get_particle(Particle p) -> Particle"""
9077 return _IMP_kernel.get_particle(p)
9079 def _decorator_test(p):
9080 r"""_decorator_test(Particle p)"""
9081 return _IMP_kernel._decorator_test(p)
9083 def _overloaded_decorator(*args):
9085 _overloaded_decorator(_TrivialDecorator a) -> int
9086 _overloaded_decorator(_TrivialDerivedDecorator a) -> int
9088 return _IMP_kernel._overloaded_decorator(*args)
9090 def _take_particles(*args):
9092 _take_particles(IMP::Particles const & ps) -> unsigned int
9093 _take_particles(Model m, IMP::Particles const & ps) -> unsigned int
9094 _take_particles(Model m, IMP::Particles const & ps, TextOutput out) -> unsigned int
9096 return _IMP_kernel._take_particles(*args)
9098 def _give_particles(m):
9099 r"""_give_particles(Model m) -> IMP::Particles const &"""
9100 return _IMP_kernel._give_particles(m)
9102 def _pass_particles(ps):
9103 r"""_pass_particles(IMP::Particles const & ps) -> IMP::Particles const &"""
9104 return _IMP_kernel._pass_particles(ps)
9106 def _pass_particle(ps):
9107 r"""_pass_particle(Particle ps) -> Particle"""
9108 return _IMP_kernel._pass_particle(ps)
9110 def _pass_particle_pair(pp):
9111 r"""_pass_particle_pair(IMP::ParticlePair const & pp) -> IMP::ParticlePair const &"""
9112 return _IMP_kernel._pass_particle_pair(pp)
9114 def _give_particles_copy(m):
9115 r"""_give_particles_copy(Model m) -> IMP::Particles"""
9116 return _IMP_kernel._give_particles_copy(m)
9118 def _pass_float_keys(input):
9119 r"""_pass_float_keys(IMP::FloatKeys const & input) -> IMP::FloatKeys"""
9120 return _IMP_kernel._pass_float_keys(input)
9124 _pass(IMP::Particles const & p) -> IMP::Particles const
9125 _pass(IMP::Restraints const & p) -> IMP::Restraints const &
9127 return _IMP_kernel._pass(*args)
9129 def _pass_decorators(p):
9130 r"""_pass_decorators(IMP::internal::_TrivialDecorators const & p) -> IMP::internal::_TrivialDecorators const &"""
9131 return _IMP_kernel._pass_decorators(p)
9133 def _pass_decorator_traits(p):
9134 r"""_pass_decorator_traits(IMP::internal::_TrivialTraitsDecorators const & p) -> IMP::internal::_TrivialTraitsDecorators const &"""
9135 return _IMP_kernel._pass_decorator_traits(p)
9137 def _pass_particle_pairs(p):
9138 r"""_pass_particle_pairs(IMP::ParticlePairsTemp const & p) -> IMP::ParticlePairsTemp"""
9139 return _IMP_kernel._pass_particle_pairs(p)
9141 def _pass_particle_index_pairs(p):
9142 r"""_pass_particle_index_pairs(IMP::ParticleIndexPairs const & p) -> IMP::ParticleIndexPairs"""
9143 return _IMP_kernel._pass_particle_index_pairs(p)
9145 def _pass_model_objects(p):
9146 r"""_pass_model_objects(IMP::ModelObjectsTemp const & p) -> IMP::ModelObjectsTemp"""
9147 return _IMP_kernel._pass_model_objects(p)
9149 def _pass_particles_temps(ps):
9150 r"""_pass_particles_temps(IMP::ParticlesTemps const & ps) -> IMP::ParticlesTemps"""
9151 return _IMP_kernel._pass_particles_temps(ps)
9153 def _test_overload(*args):
9155 _test_overload(IMP::Particles const & ps) -> int
9156 _test_overload(IMP::Restraints const & ps) -> int
9158 return _IMP_kernel._test_overload(*args)
9160 def _get_range(m, k):
9161 r"""_get_range(Model m, FloatKey k) -> IMP::FloatRange"""
9162 return _IMP_kernel._get_range(m, k)
9164 def _create_particles_from_pdb(name, m):
9165 r"""_create_particles_from_pdb(std::string name, Model m) -> IMP::ParticleIndexes"""
9166 return _IMP_kernel._create_particles_from_pdb(name, m)
9167 class _LogPairScore(PairScore):
9168 r"""Proxy of C++ IMP::internal::_LogPairScore class."""
9170 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9171 __repr__ = _swig_repr
9174 r"""__init__(_LogPairScore self) -> _LogPairScore"""
9175 _IMP_kernel._LogPairScore_swiginit(self, _IMP_kernel.new__LogPairScore())
9177 def do_get_inputs(self, arg2, arg3):
9178 r"""do_get_inputs(_LogPairScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
9179 return _IMP_kernel._LogPairScore_do_get_inputs(self, arg2, arg3)
9182 r"""get_version_info(_LogPairScore self) -> VersionInfo"""
9183 return _IMP_kernel._LogPairScore_get_version_info(self)
9184 __swig_destroy__ = _IMP_kernel.delete__LogPairScore
9186 def get_particle_pairs(self):
9187 r"""get_particle_pairs(_LogPairScore self) -> IMP::ParticlePairsTemp"""
9188 return _IMP_kernel._LogPairScore_get_particle_pairs(self)
9191 r"""clear(_LogPairScore self)"""
9192 return _IMP_kernel._LogPairScore_clear(self)
9194 def get_contains(self, pp):
9195 r"""get_contains(_LogPairScore self, IMP::ParticlePair const & pp) -> bool"""
9196 return _IMP_kernel._LogPairScore_get_contains(self, pp)
9199 _IMP_kernel._LogPairScore_swigregister(_LogPairScore)
9201 def _overloaded_particles(*args):
9203 _overloaded_particles(Particle arg1)
9204 _overloaded_particles(IMP::Particles const & arg1)
9205 _overloaded_particles(IMP::ParticlesTemp const & arg1)
9206 _overloaded_particles(Model arg1, IMP::ParticleIndexes const & arg2)
9207 _overloaded_particles(IMP::internal::_TrivialDecorators const & arg1)
9208 _overloaded_particles(_TrivialDecorator arg1)
9210 return _IMP_kernel._overloaded_particles(*args)
9211 class _ImplicitParticles(object):
9212 r"""Proxy of C++ IMP::internal::_ImplicitParticles class."""
9214 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9215 __repr__ = _swig_repr
9217 def __init__(self, *args):
9219 __init__(_ImplicitParticles self, Particle arg2) -> _ImplicitParticles
9220 __init__(_ImplicitParticles self, IMP::Particles const & arg2) -> _ImplicitParticles
9221 __init__(_ImplicitParticles self, IMP::ParticlesTemp const & arg2) -> _ImplicitParticles
9222 __init__(_ImplicitParticles self, Model arg2, IMP::ParticleIndexes const & arg3) -> _ImplicitParticles
9223 __init__(_ImplicitParticles self, IMP::internal::_TrivialDecorators const & arg2) -> _ImplicitParticles
9224 __init__(_ImplicitParticles self, _TrivialDecorator arg2) -> _ImplicitParticles
9226 _IMP_kernel._ImplicitParticles_swiginit(self, _IMP_kernel.new__ImplicitParticles(*args))
9227 __swig_destroy__ = _IMP_kernel.delete__ImplicitParticles
9230 _IMP_kernel._ImplicitParticles_swigregister(_ImplicitParticles)
9232 def _implicit_particles(arg1):
9233 r"""_implicit_particles(_ImplicitParticles arg1)"""
9234 return _IMP_kernel._implicit_particles(arg1)
9236 def _take_particle_adaptor(pa):
9237 r"""_take_particle_adaptor(_ParticleAdaptor pa) -> ParticleIndex"""
9238 return _IMP_kernel._take_particle_adaptor(pa)
9240 def _take_particle_indexes_adaptor(pa):
9241 r"""_take_particle_indexes_adaptor(_ParticleIndexesAdaptor pa) -> IMP::ParticleIndexes"""
9242 return _IMP_kernel._take_particle_indexes_adaptor(pa)
9243 class ScopedSetFloatAttribute(_RAII):
9244 r"""Proxy of C++ IMP::ScopedSetAttribute< IMP::FloatKey,IMP::Float > class."""
9246 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9248 def __init__(self, *args):
9250 __init__(ScopedSetFloatAttribute self) -> ScopedSetFloatAttribute
9251 __init__(ScopedSetFloatAttribute self, Particle p, FloatKey key, double const & value) -> ScopedSetFloatAttribute
9253 _IMP_kernel.ScopedSetFloatAttribute_swiginit(self, _IMP_kernel.new_ScopedSetFloatAttribute(*args))
9255 def set(self, p, key, value):
9256 r"""set(ScopedSetFloatAttribute self, Particle p, FloatKey key, double const & value)"""
9257 return _IMP_kernel.ScopedSetFloatAttribute_set(self, p, key, value)
9260 r"""reset(ScopedSetFloatAttribute self)"""
9261 return _IMP_kernel.ScopedSetFloatAttribute_reset(self)
9262 __swig_destroy__ = _IMP_kernel.delete_ScopedSetFloatAttribute
9264 def show(self, *args):
9265 r"""show(ScopedSetFloatAttribute self, _ostream out=std::cout)"""
9266 return _IMP_kernel.ScopedSetFloatAttribute_show(self, *args)
9269 r"""__str__(ScopedSetFloatAttribute self) -> std::string"""
9270 return _IMP_kernel.ScopedSetFloatAttribute___str__(self)
9273 r"""__repr__(ScopedSetFloatAttribute self) -> std::string"""
9274 return _IMP_kernel.ScopedSetFloatAttribute___repr__(self)
9277 _IMP_kernel.ScopedSetFloatAttribute_swigregister(ScopedSetFloatAttribute)
9279 def _get_module_data_path(module, file_name):
9280 r"""_get_module_data_path(std::string module, std::string file_name) -> std::string"""
9281 return _IMP_kernel._get_module_data_path(module, file_name)
9283 def _get_module_example_path(module, file_name):
9284 r"""_get_module_example_path(std::string module, std::string file_name) -> std::string"""
9285 return _IMP_kernel._get_module_example_path(module, file_name)
9294 if sys.platform ==
'win32' and 'IMP_LD_PATH' in os.environ:
9295 dirs = os.environ[
'IMP_LD_PATH'].split(
":")
9296 pathcomps = os.environ[
'PATH'].split(
";")
9298 if d
not in pathcomps:
9299 os.environ[
'PATH'] = d +
';' + os.environ[
'PATH']
9307 """Allow command line tools to easily implement multiple commands.
9308 Typically, an IMP command line tool will use an instance of this class
9309 to provide a consistent interface to multiple distinct commands
9310 from a single binary, rather than providing a potentially large
9311 number of binaries. This is similar to the way a number of common
9312 command line tools outside of IMP function (e.g. Git provides a single
9313 `git` tool which implements multiple commands - `git add`, `git commit`,
9314 `git push` and so on).
9316 Each command is implemented with a Python module of the same name
9317 that can be imported from the module (for example, if `module_name`
9318 is `IMP.foo`, the `bar` command is provided by the `IMP.foo.bar` Python
9319 module, which would usually be found as `modules/foo/pyext/src/bar.py`).
9320 Each such module should have a docstring and a `%main()` method
9321 that takes no arguments (the module should also call its `%main()` method
9322 if it is run directly, i.e. with something like
9323 `if __name__=="__main__": %main()`). The encompassing module
9324 (`IMP.foo` in the example) should define `_all_commands` as a Python
9325 list of all valid commands.
9327 See the `multifit` and `cnmultifit` command line tools for example
9331 def __init__(self, short_help, long_help, module_name):
9333 @param short_help A few words that describe the command line tool.
9334 @param long_help Longer text, used in the `help` command.
9335 @param module_name Name of the module (e.g. `IMP.foo`) that
9336 implements the commands.
9338 self.short_help = short_help
9339 self.long_help = long_help
9340 self.module_name = module_name
9341 self._all_commands = self.import_module()._all_commands
9342 self._progname = os.path.basename(sys.argv[0])
9345 """Call this method to act upon the user-provided command line"""
9346 if len(sys.argv) <= 1:
9347 print(self.short_help +
" Use '%s help' for help." % self._progname)
9349 command = sys.argv[1]
9350 if command
in (
'help',
'--help',
'-h'):
9351 if len(sys.argv) == 3:
9352 self.show_command_help(sys.argv[2])
9355 elif command ==
'--version':
9357 elif command
in self._all_commands:
9358 self.do_command(command)
9360 self.unknown_command(command)
9362 def import_module(self, mod=None):
9363 modname = self.module_name
9365 modname +=
"." + mod
9366 return __import__(modname, {}, {}, [
''])
9368 def unknown_command(self, command):
9369 print(
"Unknown command: '%s'" % command)
9370 print(
"Use '%s help' for help." % self._progname)
9373 def _get_version(self):
9376 def show_version(self):
9377 print(self._progname +
' ' + self._get_version())
9379 def show_help(self):
9380 ver = self._get_version()
9381 print(
"%s, version %s." % (self._progname, ver))
9382 print(self.long_help +
"""
9384 This program is part of IMP, the Integrative Modeling Platform,
9386 For additional information about IMP, see <https://integrativemodeling.org>.
9388 Usage: %s <command> [options] [args]
9391 commands = self._all_commands[:] + [
'help']
9393 cmdlen = max([len(c)
for c
in commands])
9396 doc =
'Get help on using %s.' % self._progname
9398 doc = self.import_module(c).__doc__
or "<no help>"
9399 c +=
' ' * (cmdlen - len(c))
9400 print(
' ' + c +
' ' + doc)
9402 Use "%s help <command>" for detailed help on any command
9403 or "%s --version" to see the version number.""" % (self._progname,
9406 def do_command(self, command):
9407 mod = self.import_module(command)
9408 sys.argv[0] = self._progname +
' ' + command
9412 def show_command_help(self, command):
9413 if command ==
'help':
9415 elif command
in self._all_commands
or command ==
'help':
9416 mod = self.import_module(command)
9417 sys.argv = [self._progname +
' ' + command,
'--help']
9420 self.unknown_command(command)
9427 g = networkx.DiGraph()
9428 if len(ig.get_vertices()) == 0:
9437 return self.p.get_name()
9439 def __call__(self, name):
9440 return self.p.__call__(name)
9442 for vi
in ig.get_vertices():
9443 n = ig.get_vertex_name(vi)
9444 g.add_node(NodeWrapper(n))
9445 for vi
in ig.get_vertices():
9446 n = ig.get_vertex_name(vi)
9447 for ni
in ig.get_out_neighbors(vi):
9448 nn = ig.get_vertex_name(ni)
9449 g.add_edge(NodeWrapper(n), NodeWrapper(nn))
9456 n0 = name.get_name()
9459 n1 = str(n0).replace(
'"',
'')
9460 n2 = n1.replace(
"\n",
'')
9463 from altgraph
import Graph, Dot
9464 graph = Graph.Graph()
9465 for i, v
in enumerate(g.get_vertices()):
9467 for i, v
in enumerate(g.get_vertices()):
9468 for n
in g.get_out_neighbors(v):
9469 graph.add_edge(v, n)
9470 dot = Dot.Dot(graph)
9471 for i, v
in enumerate(g.get_vertices()):
9472 dot.node_style(i, label=clean(g.get_vertex_name(v)))
9480 st = g.get_graphviz_string()
9481 with open(tfn,
"w")
as fh:
9484 print(
"running dot")
9485 sp = subprocess.Popen([
"dot",
"-Tpdf", tfn,
"-o" + tfon])
9489 sys.stderr.write(
"The dot command from the graphviz package was not found. Please make sure it is in the PATH passed to IMP.\n")
9492 if platform.system() ==
"Darwin":
9495 cmd = [
"gv",
"acroread",
"xpdf"]
9498 print(
"launching viewer " + c)
9500 subprocess.check_call([c, tfon])
9506 print(
"Could not display file. It is saved at " + tfon)
9516 """Mark a Python module as deprecated.
9517 @note The `module` argument would normally be `__name__`.
9518 @see [deprecation support](@ref deprecation)."""
9520 "Module %s is deprecated. %s\n" % (module, help_message))
9523 """Python decorator to mark a class as deprecated.
9524 @see [deprecation support](@ref deprecation)."""
9526 orig_init = obj.__init__
9529 @functools.wraps(orig_init, (
'__name__',
'__doc__'))
9530 def __init__(obj, *args, **keys):
9532 % (type(obj), help_message))
9533 orig_init(obj, *args, **keys)
9534 obj.__init__ = __init__
9539 """Python decorator to mark a method as deprecated.
9540 @see [deprecation support](@ref deprecation)."""
9541 def out_wrapper(obj):
9542 @functools.wraps(obj)
9543 def wrapper(cls, *args, **keys):
9545 % (obj.__name__, type(cls), help_message))
9546 return obj(cls, *args, **keys)
9551 """Python decorator to mark a function as deprecated.
9552 @see [deprecation support](@ref deprecation)."""
9553 def out_wrapper(obj):
9554 @functools.wraps(obj)
9555 def wrapper(*args, **keys):
9557 % (obj.__name__, help_message))
9558 return obj(*args, **keys)
9562 @contextlib.contextmanager
9564 """Context manager to temporarily allow (or disallow) deprecated code.
9565 @see [deprecation support](@ref deprecation)."""
9572 def _get_all_flags(ntokens):
9573 r"""_get_all_flags(unsigned int ntokens) -> IMP::Strings"""
9574 return _IMP_kernel._get_all_flags(ntokens)
9576 def _print_internal_help(out, description):
9577 r"""_print_internal_help(_ostream out, std::string description)"""
9578 return _IMP_kernel._print_internal_help(out, description)
9584 class _PassThroughAction(argparse.Action):
9585 """Pass an argument through to the IMP Boost parser"""
9586 def __call__(self, parser, namespace, values, option_string=None):
9587 parser._boost_command_line.append(option_string)
9589 parser._boost_command_line.append(values)
9592 if option_string
in (
'-h',
'--help',
'--help_advanced',
'--version'):
9593 parser._handle_boost()
9597 """IMP-specific subclass of argparse.ArgumentParser.
9598 This adds options common to all IMP applications
9599 (see IMP::setup_from_argv()).
9602 def __init__(self, *args, **kwargs):
9604 kwargs[
'add_help'] =
False
9605 super().__init__(*args, **kwargs)
9606 for ntoken
in (0, 1):
9607 flags = _get_all_flags(ntoken)
9609 arg = [
'-h',
'--help']
if f ==
'help' else [
'--' + f]
9610 self.add_argument(*arg, help=argparse.SUPPRESS,
9611 nargs=
None if ntoken
else 0,
9612 action=_PassThroughAction,
9613 default=argparse.SUPPRESS)
9616 """Parse the command line and return optional and positional arguments.
9617 This functions in the same way as the method in the base class
9618 argparse.ArgumentParser, except that it also processes optional
9619 arguments common to all IMP applications (these are not returned
9620 in `args`, but can be obtained in the usual way, e.g. by calling
9621 IMP::get_string_flag()).
9624 self._boost_command_line = [sys.argv[0]]
9626 if len(self._boost_command_line) > 1:
9627 self._handle_boost()
9630 def _get_description(self):
9631 return self.format_help() +
"\nOptions common to all IMP applications:"
9633 def print_help(self, file=None):
9634 _print_internal_help(file
if file
else sys.stdout,
9635 self._get_description())
9637 def _handle_boost(self):
9639 self._get_description(),
9642 class RandomNumberGenerator(object):
9643 r"""Proxy of C++ IMP::RandomNumberGenerator class."""
9645 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9646 __repr__ = _swig_repr
9649 r"""seed(RandomNumberGenerator self, int x)"""
9650 return _IMP_kernel.RandomNumberGenerator_seed(self, x)
9653 r"""__call__(RandomNumberGenerator self) -> int"""
9654 return _IMP_kernel.RandomNumberGenerator___call__(self)
9657 r"""__init__(RandomNumberGenerator self) -> RandomNumberGenerator"""
9658 _IMP_kernel.RandomNumberGenerator_swiginit(self, _IMP_kernel.new_RandomNumberGenerator())
9659 __swig_destroy__ = _IMP_kernel.delete_RandomNumberGenerator
9662 _IMP_kernel.RandomNumberGenerator_swigregister(RandomNumberGenerator)
9666 get_random_float_uniform() -> float
9667 get_random_float_uniform(float min, float max) -> float
9669 return _IMP_kernel.get_random_float_uniform(*args)
9673 get_random_double_uniform() -> double
9674 get_random_double_uniform(double min, double max) -> double
9676 return _IMP_kernel.get_random_double_uniform(*args)
9678 def get_random_floats_normal(n, mean=0.0, stddev=1.0):
9679 r"""get_random_floats_normal(unsigned int n, float mean=0.0, float stddev=1.0) -> IMP::Vector< float,std::allocator< float > >"""
9680 return _IMP_kernel.get_random_floats_normal(n, mean, stddev)
9682 def get_random_doubles_normal(n, mean=0.0, stddev=1.0):
9683 r"""get_random_doubles_normal(unsigned int n, double mean=0.0, double stddev=1.0) -> IMP::Vector< double,std::allocator< double > >"""
9684 return _IMP_kernel.get_random_doubles_normal(n, mean, stddev)
9686 def get_random_floats_uniform(n):
9687 r"""get_random_floats_uniform(unsigned int n) -> IMP::Vector< float,std::allocator< float > >"""
9688 return _IMP_kernel.get_random_floats_uniform(n)
9690 def get_random_doubles_uniform(n):
9691 r"""get_random_doubles_uniform(unsigned int n) -> IMP::Vector< double,std::allocator< double > >"""
9692 return _IMP_kernel.get_random_doubles_uniform(n)
9695 r"""get_random_seed() -> boost::uint64_t"""
9696 return _IMP_kernel.get_random_seed()
9698 def _get_derivatives_numpy(m, k, m_pyobj):
9699 r"""_get_derivatives_numpy(Model m, FloatKey k, PyObject * m_pyobj) -> PyObject *"""
9700 return _IMP_kernel._get_derivatives_numpy(m, k, m_pyobj)
9702 def _get_floats_numpy(m, k, m_pyobj):
9703 r"""_get_floats_numpy(Model m, FloatKey k, PyObject * m_pyobj) -> PyObject *"""
9704 return _IMP_kernel._get_floats_numpy(m, k, m_pyobj)
9706 def _get_ints_numpy(m, k, m_pyobj):
9707 r"""_get_ints_numpy(Model m, IntKey k, PyObject * m_pyobj) -> PyObject *"""
9708 return _IMP_kernel._get_ints_numpy(m, k, m_pyobj)
9710 def _get_spheres_numpy(m, m_pyobj):
9711 r"""_get_spheres_numpy(Model m, PyObject * m_pyobj) -> PyObject *"""
9712 return _IMP_kernel._get_spheres_numpy(m, m_pyobj)
9714 def _get_sphere_derivatives_numpy(m, m_pyobj):
9715 r"""_get_sphere_derivatives_numpy(Model m, PyObject * m_pyobj) -> PyObject *"""
9716 return _IMP_kernel._get_sphere_derivatives_numpy(m, m_pyobj)
9720 ParticleIndex = numpy.intc
9726 r"""get_module_version() -> std::string const"""
9727 return _IMP_kernel.get_module_version()
9730 r"""get_example_path(std::string fname) -> std::string"""
9731 return _IMP_kernel.get_example_path(fname)
9734 r"""get_data_path(std::string fname) -> std::string"""
9735 return _IMP_kernel.get_data_path(fname)
9737 from .
import _version_check
9742 random_number_generator = cvar.random_number_generator
Particle * get_particle(ParticleIndex p) const
Get the particle from an index.
def get_ints_numpy
Get the model's attribute array for IntKey k as a NumPy array.
void add_int_flag(std::string name, size_t default_value, std::string description)
Allow command line tools to easily implement multiple commands.
CheckLevel get_check_level()
Get the current audit mode.
Key< 11 > TriggerKey
The type used to identify changed model properties.
Key< 0 > FloatKey
The type used to identify float attributes in the Particles.
def allow_deprecated
Context manager to temporarily allow (or disallow) deprecated code.
std::string get_unique_name(std::string templ)
Return a unique name produced from the string.
DependencyGraph get_dependency_graph(Model *m)
def get_floats_numpy
Get the model's attribute array for FloatKey k as a NumPy array.
Objects get_live_objects()
Return pointers to all live objects.
Vector< char > write_particles_to_buffer(const ParticlesTemp &particles, const FloatKeys &keys)
return a binary buffer with the data
Key< 13 > SparseIntKey
The type used to identify sparse int attributes in the Particles.
def main
Call this method to act upon the user-provided command line.
Key< 15 > SparseParticleIndexKey
The type used to identify sparse particle attributes in the Particles.
boost::graph DependencyGraph
Directed graph on the interactions between the various objects in the model.
ContainersTemp get_input_containers(const ModelObjectsTemp &mos)
Return all the input particles for a given ModelObject.
def deprecated_module
Mark a Python module as deprecated.
Vector< VectorD< D > > get_vertices(const BoundingBoxD< D > &bb)
Return a list of the 2^D bounding points for the bounding box.
Array< 4, WeakPointer< Particle >, Particle * > ParticleQuad
bool get_bool_flag(std::string name)
void handle_use_deprecated(std::string message)
Break in this method in gdb to find deprecated uses at runtime.
void set_progress_display(std::string description, unsigned int steps)
Set up the progress bar with the passed description.
def deprecated_function
Python decorator to mark a function as deprecated.
virtual ::IMP::VersionInfo get_version_info() const override
Get information about the module and version of the object.
void remove_attribute(TypeKey attribute_key, ParticleIndex particle)
remove particle attribute with the specified key
Index< ParticleIndexTag > ParticleIndex
ParticlesTemp get_particles(Model *m, const ParticleIndexes &ps)
Get the particles from a list of indexes.
Key< 6 > ParticleIndexesKey
The type used to identify a particle attribute in the Particles.
Array< 3, WeakPointer< Particle >, Particle * > ParticleTriplet
ContainersTemp get_output_containers(const ModelObjectsTemp &mos)
Return all the output particles for a given ModelObject.
void add_particle(RMF::FileHandle fh, Particle *hs)
virtual void clear_caches()
std::string get_data_path(std::string file_name)
Return the full path to one of this module's data files.
void add_string_flag(std::string name, std::string default_value, std::string description)
LogLevel get_log_level()
Get the currently active global log level.
def get_sphere_derivatives_numpy
Get the model's XYZR attribute derivatives arrays as NumPy arrays.
void set_deprecation_warnings(bool tf)
Toggle printing of warnings on using deprecated classes.
TextOutput create_temporary_file(std::string prefix="imp_temp", std::string suffix="")
Create a temporary file. The path can be extracted from the TextOutput.
ParticlesTemp get_output_particles(const ModelObjectsTemp &mos)
Return all the output particles for a given ModelObject.
ScoringFunction * create_scoring_function(RestraintType *rs, double weight=1.0, double max=NO_MAX, std::string name=std::string())
Create a ScoringFunction on a single restraint.
void write_help(std::ostream &out=std::cerr)
Key< 2 > StringKey
The type used to identify string attributes in the Particles.
size_t get_int_flag(std::string name)
Key< 10 > FloatsKey
The type used to identify float vector attributes in the Particles.
void add_restraint(RMF::FileHandle fh, Restraint *hs)
boost::uint64_t get_random_seed()
Return the initial random seed.
Key< 3 > ParticleIndexKey
The type used to identify a particle attribute in the Particles.
Strings get_live_object_names()
Return the names of all live objects.
void add_to_progress_display(unsigned int step=1)
Set the current progress.
void add_attribute(TypeKey attribute_key, ParticleIndex particle, Type value)
add particle attribute with the specified key and initial value
void add_float_flag(std::string name, double default_value, std::string description)
virtual void do_destroy()
Ints get_index(const ParticlesTemp &particles, const Subset &subset, const Subsets &excluded)
Common base class for heavy weight IMP objects.
ParticleIndexes get_particle_indexes(ParticlesTemp const &particles)
def deprecated_method
Python decorator to mark a method as deprecated.
void reset_log_timer()
Reset the log timer.
void add_restraints(RMF::FileHandle fh, const Restraints &hs)
void add_to_log(LogLevel level, std::string to_write)
Write a string to the log, for Python.
def parse_args
Parse the command line and return optional and positional arguments.
void set_is_optimized(TypeKey attribute_key, ParticleIndex particle, bool true_or_false)
Key< 1 > IntKey
The type used to identify int attributes in the Particles.
Version and module information for Objects.
Restraints create_decomposition(const RestraintsTemp &rs)
Return the decomposition of a list of restraints.
std::string get_relative_path(std::string base, std::string relative)
Return a path to a file relative to another file.
void set_deprecation_exceptions(bool tf)
Toggle whether an exception is thrown when a deprecated method is used.
def get_spheres_numpy
Get the model's XYZR attribute arrays as NumPy arrays.
Key< 4 > ObjectKey
The type used to identify an Object attribute.
Interface to specialized Particle types (e.g. atoms)
IMP-specific subclass of argparse.ArgumentParser.
def get_derivatives_numpy
Get the model's attribute derivatives array for FloatKey k as a NumPy array.
std::ostream & show(Hierarchy h, std::ostream &out=std::cout)
Print the hierarchy using a given decorator to display each node.
std::string get_absolute_path(std::string file)
Convert a possibly relative path to an absolute path.
std::string get_executable_name()
Return the name of the current executable.
void set_log_level(LogLevel l)
Set the current global log level.
unsigned int get_number_of_threads()
float get_random_float_uniform()
Return a uniformly distributed float number in range [0..1)
def deprecated_object
Python decorator to mark a class as deprecated.
ParticlesTemp get_input_particles(const ModelObjectsTemp &mos)
Return all the input particles for a given ModelObject.
void set_show_leaked_objects(bool tf)
Set whether to complain about objects not being properly cleaned up.
bool get_deprecation_exceptions()
Get whether an exception is thrown when a deprecated method is used.
void set_log_timer(bool tb)
Set whether log messages are tagged with the current log time.
void show_restraint_hierarchy(ScoringFunctionAdaptor rs, std::ostream &out=std::cout)
Print the hierarchy of restraints.
DependencyGraph get_pruned_dependency_graph(Model *m)
std::string get_example_path(std::string file_name)
Return the full path to one of this module's example files.
Object(std::string name)
Construct an object with the given name.
Array< 2, WeakPointer< Particle >, Particle * > ParticlePair
Key< 5 > IntsKey
The type used to identify int attributes in the Particles.
Restraints create_restraints(RMF::FileConstHandle fh, Model *m)
std::string show_graphviz(Graph g)
void set_check_level(CheckLevel l)
std::string get_string_flag(std::string name)
networkx::DiGraph get_networkx_graph(Graph g)
double get_random_double_uniform()
Return a uniformly distributed double number in range [0..1)
Key< 8 > ModelKey
The type used to identify data stored directly in the model.
Key< 14 > SparseFloatKey
The type used to identify sparse float attributes in the Particles.
void show_altgraph(Graph g)
void update()
Sometimes it is useful to be able to make sure the model is up to date.
void setup_from_argv(int argc, char **argv, std::string description)
Parse the command line flags and return the positional arguments.
void add_bool_flag(std::string name, std::string description)
ParticleIndexes get_indexes(const ParticlesTemp &ps)
Get the indexes from a list of particles.
void read_particles_from_buffer(const Vector< char > &buffer, const ParticlesTemp &particles, const FloatKeys &keys)
load found attributes into the particles
Abstract single variable functor class for score functions.
void set_number_of_threads(unsigned int n)
double get_float_flag(std::string name)
void set_check_level(CheckLevel tf)
Control runtime checks in the code.
ScoreStatesTemp get_update_order(ScoreStatesTemp input)
std::string get_module_version()
Return the version of this module, as a string.
std::string create_temporary_file_name(std::string prefix="imp_temp", std::string suffix="")
Create a temporary file.
Key< 12 > SparseStringKey
The type used to identify sparse string attributes in the Particles.
std::string get_copyright()
Get the IMP copyright notice.