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 get_removed_particles_attributes_age(self):
5468 r"""get_removed_particles_attributes_age(Model self) -> unsigned int"""
5469 return _IMP_kernel.Model_get_removed_particles_attributes_age(self)
5471 def save_dependencies(self):
5472 r"""save_dependencies(Model self)"""
5473 return _IMP_kernel.Model_save_dependencies(self)
5475 def restore_dependencies(self):
5476 r"""restore_dependencies(Model self)"""
5477 return _IMP_kernel.Model_restore_dependencies(self)
5479 def get_particles_size(self):
5480 r"""get_particles_size(Model self) -> unsigned int"""
5481 return _IMP_kernel.Model_get_particles_size(self)
5483 def get_unique_id(self):
5484 r"""get_unique_id(Model self) -> uint32_t"""
5485 return _IMP_kernel.Model_get_unique_id(self)
5488 def get_by_unique_id(id):
5489 r"""get_by_unique_id(uint32_t id) -> Model"""
5490 return _IMP_kernel.Model_get_by_unique_id(id)
5492 def get_version_info(self):
5493 r"""get_version_info(Model self) -> VersionInfo"""
5494 return _IMP_kernel.Model_get_version_info(self)
5495 __swig_destroy__ = _IMP_kernel.delete_Model
5497 r"""__del__(Model self)"""
5499 _director_objects.cleanup()
5505 def do_destroy(self):
5506 r"""do_destroy(Model self)"""
5507 return _IMP_kernel.Model_do_destroy(self)
5510 r"""__str__(Model self) -> std::string"""
5511 return _IMP_kernel.Model___str__(self)
5514 r"""__repr__(Model self) -> std::string"""
5515 return _IMP_kernel.Model___repr__(self)
5519 return _object_cast_to_Model(o)
5522 def _get_as_binary(self):
5523 r"""_get_as_binary(Model self) -> PyObject *"""
5524 return _IMP_kernel.Model__get_as_binary(self)
5526 def _set_from_binary(self, p):
5527 r"""_set_from_binary(Model self, PyObject * p)"""
5528 return _IMP_kernel.Model__set_from_binary(self, p)
5530 def __getstate__(self):
5531 p = self._get_as_binary()
5532 if len(self.__dict__) > 1:
5533 d = self.__dict__.copy()
5538 def __setstate__(self, p):
5539 if not hasattr(self,
'this'):
5541 if isinstance(p, tuple):
5543 self.__dict__.update(d)
5544 return self._set_from_binary(p)
5548 """Get the model's attribute array for IntKey k as a NumPy array.
5549 The array is indexed by ParticleIndex; particles that don't have
5550 this attribute will either be off the end of the array or will have
5552 This is a NumPy view that shares memory with the Model. Thus,
5553 any changes to values in this list will be reflected in the Model.
5554 Also, if the Model attribute array moves in memory (e.g. if particles
5555 or attributes are added) this array will be invalidated, so it is
5556 unsafe to keep it around long term.
5558 return _get_ints_numpy(self, k, self)
5561 """Get the model's attribute array for FloatKey k as a NumPy array.
5562 See Model::get_ints_numpy() for more details."""
5563 return _get_floats_numpy(self, k, self)
5566 """Get the model's attribute derivatives array for FloatKey k
5567 as a NumPy array. See Model::get_ints_numpy() for more details."""
5568 return _get_derivatives_numpy(self, k, self)
5571 """Get the model's XYZR attribute arrays as NumPy arrays.
5572 The attribute arrays for Cartesian coordinates and radii are
5573 stored separately from those for other FloatKeys. This function
5574 returns a tuple of two NumPy arrays, the first of coordinates and
5575 the second of radii. See Model::get_ints_numpy() for more details."""
5576 return _get_spheres_numpy(self, self)
5579 """Get the model's XYZR attribute derivatives arrays as NumPy arrays.
5580 See Model::get_ints_numpy() for more details."""
5581 return _get_sphere_derivatives_numpy(self, self)
5585 _IMP_kernel.Model_swigregister(Model)
5587 r"""Proxy of C++ IMP::Decorator class."""
5589 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5590 __repr__ = _swig_repr
5592 def __init__(self, p):
5593 r"""__init__(Decorator self, _ParticleAdaptor p) -> Decorator"""
5594 _IMP_kernel.Decorator_swiginit(self, _IMP_kernel.new_Decorator(p))
5596 def __ne__(self, o):
5597 r"""__ne__(Decorator self, Object o) -> bool"""
5598 return _IMP_kernel.Decorator___ne__(self, o)
5600 def __lt__(self, o):
5601 r"""__lt__(Decorator self, Object o) -> bool"""
5602 return _IMP_kernel.Decorator___lt__(self, o)
5604 def __gt__(self, o):
5605 r"""__gt__(Decorator self, Object o) -> bool"""
5606 return _IMP_kernel.Decorator___gt__(self, o)
5608 def __ge__(self, o):
5609 r"""__ge__(Decorator self, Object o) -> bool"""
5610 return _IMP_kernel.Decorator___ge__(self, o)
5612 def __le__(self, o):
5613 r"""__le__(Decorator self, Object o) -> bool"""
5614 return _IMP_kernel.Decorator___le__(self, o)
5617 r"""get_particle(Decorator self) -> Particle"""
5618 return _IMP_kernel.Decorator_get_particle(self)
5620 def get_particle_index(self):
5621 r"""get_particle_index(Decorator self) -> ParticleIndex"""
5622 return _IMP_kernel.Decorator_get_particle_index(self)
5624 def get_model(self):
5625 m = _IMP_kernel.Decorator_get_model(self)
5626 if m
in _models_set:
5627 m = _models_set_get(m)
5632 def get_is_valid(self):
5633 r"""get_is_valid(Decorator self) -> bool"""
5634 return _IMP_kernel.Decorator_get_is_valid(self)
5637 r"""__hash__(Decorator self) -> std::size_t"""
5638 return _IMP_kernel.Decorator___hash__(self)
5640 def __eq__(self, *args):
5642 __eq__(Decorator self, Object o) -> bool
5643 __eq__(Decorator self, Decorator o) -> bool
5644 __eq__(Decorator self, Particle o) -> bool
5646 return _IMP_kernel.Decorator___eq__(self, *args)
5649 r"""__bool__(Decorator self) -> bool"""
5650 return _IMP_kernel.Decorator___bool__(self)
5651 __swig_destroy__ = _IMP_kernel.delete_Decorator
5654 _IMP_kernel.Decorator_swigregister(Decorator)
5656 def check_particle(m, pi):
5657 r"""check_particle(Model m, ParticleIndex pi)"""
5658 return _IMP_kernel.check_particle(m, pi)
5660 r"""Proxy of C++ IMP::UnaryFunction class."""
5662 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5664 def __init__(self, *args):
5665 r"""__init__(UnaryFunction self, std::string name="UnaryFunction%1%") -> UnaryFunction"""
5666 if self.__class__ == UnaryFunction:
5670 _IMP_kernel.UnaryFunction_swiginit(self, _IMP_kernel.new_UnaryFunction(_self, *args))
5672 if self.__class__ != UnaryFunction:
5673 _director_objects.register(self)
5678 def evaluate(self, feature):
5679 r"""evaluate(UnaryFunction self, double feature) -> double"""
5680 return _IMP_kernel.UnaryFunction_evaluate(self, feature)
5682 def evaluate_with_derivative(self, feature):
5683 r"""evaluate_with_derivative(UnaryFunction self, double feature) -> IMP::DerivativePair"""
5684 return _IMP_kernel.UnaryFunction_evaluate_with_derivative(self, feature)
5685 __swig_destroy__ = _IMP_kernel.delete_UnaryFunction
5688 r"""__str__(UnaryFunction self) -> std::string"""
5689 return _IMP_kernel.UnaryFunction___str__(self)
5692 r"""__repr__(UnaryFunction self) -> std::string"""
5693 return _IMP_kernel.UnaryFunction___repr__(self)
5697 return _object_cast_to_UnaryFunction(o)
5700 def get_type_name(self):
5701 return self.__class__.__name__
5702 def do_show(self, out):
5706 return VersionInfo(self.__module__,
5713 return _object_cast_to_UnaryFunction(o)
5715 def __disown__(self):
5717 _IMP_kernel.disown_UnaryFunction(self)
5718 return weakref.proxy(self)
5721 r"""do_destroy(UnaryFunction self)"""
5722 return _IMP_kernel.UnaryFunction_do_destroy(self)
5725 _IMP_kernel.UnaryFunction_swigregister(UnaryFunction)
5726 class OptimizerState(ModelObject):
5727 r"""Proxy of C++ IMP::OptimizerState class."""
5729 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5731 def __init__(self, *args):
5733 __init__(OptimizerState self, Model m, std::string name) -> OptimizerState
5734 __init__(OptimizerState self) -> OptimizerState
5736 if self.__class__ == OptimizerState:
5740 _IMP_kernel.OptimizerState_swiginit(self, _IMP_kernel.new_OptimizerState(_self, *args))
5742 if self.__class__ != OptimizerState:
5743 _director_objects.register(self)
5749 r"""update(OptimizerState self)"""
5750 return _IMP_kernel.OptimizerState_update(self)
5752 def set_is_optimizing(self, arg0):
5753 r"""set_is_optimizing(OptimizerState self, bool arg0)"""
5754 return _IMP_kernel.OptimizerState_set_is_optimizing(self, arg0)
5756 def get_optimizer(self):
5757 r"""get_optimizer(OptimizerState self) -> Optimizer"""
5758 return _IMP_kernel.OptimizerState_get_optimizer(self)
5760 def set_period(self, p):
5761 r"""set_period(OptimizerState self, unsigned int p)"""
5762 return _IMP_kernel.OptimizerState_set_period(self, p)
5764 def get_period(self):
5765 r"""get_period(OptimizerState self) -> unsigned int"""
5766 return _IMP_kernel.OptimizerState_get_period(self)
5769 r"""reset(OptimizerState self)"""
5770 return _IMP_kernel.OptimizerState_reset(self)
5772 def update_always(self):
5773 r"""update_always(OptimizerState self)"""
5774 return _IMP_kernel.OptimizerState_update_always(self)
5776 def get_number_of_updates(self):
5777 r"""get_number_of_updates(OptimizerState self) -> unsigned int"""
5778 return _IMP_kernel.OptimizerState_get_number_of_updates(self)
5780 def set_number_of_updates(self, n):
5781 r"""set_number_of_updates(OptimizerState self, unsigned int n)"""
5782 return _IMP_kernel.OptimizerState_set_number_of_updates(self, n)
5783 __swig_destroy__ = _IMP_kernel.delete_OptimizerState
5785 def do_update(self, arg0):
5786 r"""do_update(OptimizerState self, unsigned int arg0)"""
5787 return _IMP_kernel.OptimizerState_do_update(self, arg0)
5789 def do_set_is_optimizing(self, arg0):
5790 r"""do_set_is_optimizing(OptimizerState self, bool arg0)"""
5791 return _IMP_kernel.OptimizerState_do_set_is_optimizing(self, arg0)
5793 def do_get_inputs(self):
5794 r"""do_get_inputs(OptimizerState self) -> IMP::ModelObjectsTemp"""
5795 return _IMP_kernel.OptimizerState_do_get_inputs(self)
5797 def do_get_outputs(self):
5798 r"""do_get_outputs(OptimizerState self) -> IMP::ModelObjectsTemp"""
5799 return _IMP_kernel.OptimizerState_do_get_outputs(self)
5802 r"""__str__(OptimizerState self) -> std::string"""
5803 return _IMP_kernel.OptimizerState___str__(self)
5806 r"""__repr__(OptimizerState self) -> std::string"""
5807 return _IMP_kernel.OptimizerState___repr__(self)
5811 return _object_cast_to_OptimizerState(o)
5814 def get_type_name(self):
5815 return self.__class__.__name__
5816 def do_show(self, out):
5820 return VersionInfo(self.__module__,
5827 return _object_cast_to_OptimizerState(o)
5829 def __disown__(self):
5831 _IMP_kernel.disown_OptimizerState(self)
5832 return weakref.proxy(self)
5835 r"""do_destroy(OptimizerState self)"""
5836 return _IMP_kernel.OptimizerState_do_destroy(self)
5838 def handle_set_has_required_score_states(self, arg0):
5839 r"""handle_set_has_required_score_states(OptimizerState self, bool arg0)"""
5840 return _IMP_kernel.OptimizerState_handle_set_has_required_score_states(self, arg0)
5842 def do_get_interactions(self):
5843 r"""do_get_interactions(OptimizerState self) -> IMP::ModelObjectsTemps"""
5844 return _IMP_kernel.OptimizerState_do_get_interactions(self)
5847 _IMP_kernel.OptimizerState_swigregister(OptimizerState)
5848 class Refiner(_ParticleInputs,
Object):
5849 r"""Proxy of C++ IMP::Refiner class."""
5851 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5853 def __init__(self, *args):
5854 r"""__init__(Refiner self, std::string name="Refiner %1%", bool is_by_ref=False) -> Refiner"""
5855 if self.__class__ == Refiner:
5859 _IMP_kernel.Refiner_swiginit(self, _IMP_kernel.new_Refiner(_self, *args))
5861 if self.__class__ != Refiner:
5862 _director_objects.register(self)
5867 def get_can_refine(self, arg0):
5868 r"""get_can_refine(Refiner self, Particle arg0) -> bool"""
5869 return _IMP_kernel.Refiner_get_can_refine(self, arg0)
5871 def get_refined_indexes(self, m, pi):
5872 r"""get_refined_indexes(Refiner self, Model m, ParticleIndex pi) -> IMP::ParticleIndexes"""
5873 return _IMP_kernel.Refiner_get_refined_indexes(self, m, pi)
5875 def get_refined_indexes_by_ref(self, m, pi):
5876 r"""get_refined_indexes_by_ref(Refiner self, Model m, ParticleIndex pi) -> IMP::ParticleIndexes const &"""
5877 return _IMP_kernel.Refiner_get_refined_indexes_by_ref(self, m, pi)
5879 def get_is_by_ref_supported(self):
5880 r"""get_is_by_ref_supported(Refiner self) -> bool"""
5881 return _IMP_kernel.Refiner_get_is_by_ref_supported(self)
5883 def get_refined(self, *args):
5885 get_refined(Refiner self, Particle a) -> IMP::ParticlesTemp const
5886 get_refined(Refiner self, Particle a, unsigned int i) -> Particle
5888 return _IMP_kernel.Refiner_get_refined(self, *args)
5890 def get_number_of_refined(self, a):
5891 r"""get_number_of_refined(Refiner self, Particle a) -> unsigned int"""
5892 return _IMP_kernel.Refiner_get_number_of_refined(self, a)
5895 r"""__str__(Refiner self) -> std::string"""
5896 return _IMP_kernel.Refiner___str__(self)
5899 r"""__repr__(Refiner self) -> std::string"""
5900 return _IMP_kernel.Refiner___repr__(self)
5904 return _object_cast_to_Refiner(o)
5907 def get_type_name(self):
5908 return self.__class__.__name__
5909 def do_show(self, out):
5913 return VersionInfo(self.__module__,
5920 return _object_cast_to_Refiner(o)
5922 __swig_destroy__ = _IMP_kernel.delete_Refiner
5923 def __disown__(self):
5925 _IMP_kernel.disown_Refiner(self)
5926 return weakref.proxy(self)
5928 def do_get_inputs(self, m, pis):
5929 r"""do_get_inputs(Refiner self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
5930 return _IMP_kernel.Refiner_do_get_inputs(self, m, pis)
5933 r"""do_destroy(Refiner self)"""
5934 return _IMP_kernel.Refiner_do_destroy(self)
5937 _IMP_kernel.Refiner_swigregister(Refiner)
5938 class Optimizer(ModelObject):
5939 r"""Proxy of C++ IMP::Optimizer class."""
5941 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
5943 def set_is_optimizing_states(self, tf):
5944 r"""set_is_optimizing_states(Optimizer self, bool tf)"""
5945 return _IMP_kernel.Optimizer_set_is_optimizing_states(self, tf)
5947 def get_optimizer_state_inputs(self):
5948 r"""get_optimizer_state_inputs(Optimizer self) -> IMP::ModelObjectsTemp"""
5949 return _IMP_kernel.Optimizer_get_optimizer_state_inputs(self)
5951 def do_get_inputs(self):
5952 r"""do_get_inputs(Optimizer self) -> IMP::ModelObjectsTemp"""
5953 return _IMP_kernel.Optimizer_do_get_inputs(self)
5955 def do_get_outputs(self):
5956 r"""do_get_outputs(Optimizer self) -> IMP::ModelObjectsTemp"""
5957 return _IMP_kernel.Optimizer_do_get_outputs(self)
5959 def __init__(self, *args):
5961 __init__(Optimizer self, Model m, std::string name="Optimizer %1%") -> Optimizer
5962 __init__(Optimizer self) -> Optimizer
5964 if self.__class__ == Optimizer:
5968 _IMP_kernel.Optimizer_swiginit(self, _IMP_kernel.new_Optimizer(_self, *args))
5970 if self.__class__ != Optimizer:
5971 _director_objects.register(self)
5976 def optimize(self, max_steps):
5977 r"""optimize(Optimizer self, unsigned int max_steps) -> double"""
5978 return _IMP_kernel.Optimizer_optimize(self, max_steps)
5980 def set_stop_on_good_score(self, tf):
5981 r"""set_stop_on_good_score(Optimizer self, bool tf)"""
5982 return _IMP_kernel.Optimizer_set_stop_on_good_score(self, tf)
5984 def get_stop_on_good_score(self):
5985 r"""get_stop_on_good_score(Optimizer self) -> bool"""
5986 return _IMP_kernel.Optimizer_get_stop_on_good_score(self)
5988 def get_last_score(self):
5989 r"""get_last_score(Optimizer self) -> double"""
5990 return _IMP_kernel.Optimizer_get_last_score(self)
5992 def get_scoring_function(self):
5993 r"""get_scoring_function(Optimizer self) -> ScoringFunction"""
5994 return _IMP_kernel.Optimizer_get_scoring_function(self)
5995 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)
5996 def __set_optimizer_states(self, obj): _list_util.set_varlist(self.optimizer_states, obj)
5997 def __del_optimizer_states(self): _list_util.del_varlist(self.optimizer_states)
5998 optimizer_states = property(__get_optimizer_states, __set_optimizer_states, __del_optimizer_states, doc=
"List of ##ucnames")
6000 def remove_optimizer_state(self, d):
6001 r"""remove_optimizer_state(Optimizer self, OptimizerState d)"""
6002 return _IMP_kernel.Optimizer_remove_optimizer_state(self, d)
6004 def _python_index_optimizer_state(self, d, start, stop):
6005 r"""_python_index_optimizer_state(Optimizer self, OptimizerState d, unsigned int start, unsigned int stop) -> unsigned int"""
6006 return _IMP_kernel.Optimizer__python_index_optimizer_state(self, d, start, stop)
6008 def remove_optimizer_states(self, d):
6009 r"""remove_optimizer_states(Optimizer self, IMP::OptimizerStates const & d)"""
6010 return _IMP_kernel.Optimizer_remove_optimizer_states(self, d)
6012 def set_optimizer_states(self, ps):
6013 r"""set_optimizer_states(Optimizer self, IMP::OptimizerStates const & ps)"""
6014 return _IMP_kernel.Optimizer_set_optimizer_states(self, ps)
6016 def set_optimizer_states_order(self, objs):
6017 r"""set_optimizer_states_order(Optimizer self, IMP::OptimizerStates const & objs)"""
6018 return _IMP_kernel.Optimizer_set_optimizer_states_order(self, objs)
6020 def add_optimizer_state(self, obj):
6021 r"""add_optimizer_state(Optimizer self, OptimizerState obj) -> unsigned int"""
6022 return _IMP_kernel.Optimizer_add_optimizer_state(self, obj)
6024 def add_optimizer_states(self, objs):
6025 r"""add_optimizer_states(Optimizer self, IMP::OptimizerStates const & objs)"""
6026 return _IMP_kernel.Optimizer_add_optimizer_states(self, objs)
6028 def clear_optimizer_states(self):
6029 r"""clear_optimizer_states(Optimizer self)"""
6030 return _IMP_kernel.Optimizer_clear_optimizer_states(self)
6032 def get_number_of_optimizer_states(self):
6033 r"""get_number_of_optimizer_states(Optimizer self) -> unsigned int"""
6034 return _IMP_kernel.Optimizer_get_number_of_optimizer_states(self)
6036 def get_has_optimizer_states(self):
6037 r"""get_has_optimizer_states(Optimizer self) -> bool"""
6038 return _IMP_kernel.Optimizer_get_has_optimizer_states(self)
6040 def get_optimizer_state(self, i):
6041 r"""get_optimizer_state(Optimizer self, unsigned int i) -> OptimizerState"""
6042 return _IMP_kernel.Optimizer_get_optimizer_state(self, i)
6044 def get_optimizer_states(self):
6045 r"""get_optimizer_states(Optimizer self) -> IMP::OptimizerStates"""
6046 return _IMP_kernel.Optimizer_get_optimizer_states(self)
6048 def erase_optimizer_state(self, i):
6049 r"""erase_optimizer_state(Optimizer self, unsigned int i)"""
6050 return _IMP_kernel.Optimizer_erase_optimizer_state(self, i)
6052 def reserve_optimizer_states(self, sz):
6053 r"""reserve_optimizer_states(Optimizer self, unsigned int sz)"""
6054 return _IMP_kernel.Optimizer_reserve_optimizer_states(self, sz)
6056 def set_scoring_function(self, sf):
6057 r"""set_scoring_function(Optimizer self, _ScoringFunctionAdaptor sf)"""
6058 return _IMP_kernel.Optimizer_set_scoring_function(self, sf)
6059 __swig_destroy__ = _IMP_kernel.delete_Optimizer
6061 r"""__del__(Optimizer self)"""
6063 _director_objects.cleanup()
6069 def do_optimize(self, ns):
6070 r"""do_optimize(Optimizer self, unsigned int ns) -> double"""
6071 return _IMP_kernel.Optimizer_do_optimize(self, ns)
6073 def update_states(self):
6074 r"""update_states(Optimizer self)"""
6075 return _IMP_kernel.Optimizer_update_states(self)
6078 r"""__str__(Optimizer self) -> std::string"""
6079 return _IMP_kernel.Optimizer___str__(self)
6082 r"""__repr__(Optimizer self) -> std::string"""
6083 return _IMP_kernel.Optimizer___repr__(self)
6087 return _object_cast_to_Optimizer(o)
6090 def get_type_name(self):
6091 return self.__class__.__name__
6092 def do_show(self, out):
6096 return VersionInfo(self.__module__,
6103 return _object_cast_to_Optimizer(o)
6105 def __disown__(self):
6107 _IMP_kernel.disown_Optimizer(self)
6108 return weakref.proxy(self)
6111 r"""do_destroy(Optimizer self)"""
6112 return _IMP_kernel.Optimizer_do_destroy(self)
6114 def handle_set_has_required_score_states(self, arg0):
6115 r"""handle_set_has_required_score_states(Optimizer self, bool arg0)"""
6116 return _IMP_kernel.Optimizer_handle_set_has_required_score_states(self, arg0)
6118 def do_get_interactions(self):
6119 r"""do_get_interactions(Optimizer self) -> IMP::ModelObjectsTemps"""
6120 return _IMP_kernel.Optimizer_do_get_interactions(self)
6123 _IMP_kernel.Optimizer_swigregister(Optimizer)
6124 class AttributeOptimizer(Optimizer):
6125 r"""Proxy of C++ IMP::AttributeOptimizer class."""
6127 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6129 def __init__(self, *args):
6131 __init__(AttributeOptimizer self, Model m, std::string name="Optimizer %1%") -> AttributeOptimizer
6132 __init__(AttributeOptimizer self) -> AttributeOptimizer
6134 if self.__class__ == AttributeOptimizer:
6138 _IMP_kernel.AttributeOptimizer_swiginit(self, _IMP_kernel.new_AttributeOptimizer(_self, *args))
6140 if self.__class__ != AttributeOptimizer:
6141 _director_objects.register(self)
6146 def get_optimized_attributes(self):
6147 r"""get_optimized_attributes(AttributeOptimizer self) -> IMP::FloatIndexes"""
6148 return _IMP_kernel.AttributeOptimizer_get_optimized_attributes(self)
6150 def set_value(self, fi, v):
6151 r"""set_value(AttributeOptimizer self, FloatIndex fi, double v)"""
6152 return _IMP_kernel.AttributeOptimizer_set_value(self, fi, v)
6154 def get_value(self, fi):
6155 r"""get_value(AttributeOptimizer self, FloatIndex fi) -> IMP::Float"""
6156 return _IMP_kernel.AttributeOptimizer_get_value(self, fi)
6158 def get_derivative(self, fi):
6159 r"""get_derivative(AttributeOptimizer self, FloatIndex fi) -> IMP::Float"""
6160 return _IMP_kernel.AttributeOptimizer_get_derivative(self, fi)
6162 def get_width(self, k):
6163 r"""get_width(AttributeOptimizer self, FloatKey k) -> double"""
6164 return _IMP_kernel.AttributeOptimizer_get_width(self, k)
6166 def set_scaled_value(self, fi, v):
6167 r"""set_scaled_value(AttributeOptimizer self, FloatIndex fi, IMP::Float v)"""
6168 return _IMP_kernel.AttributeOptimizer_set_scaled_value(self, fi, v)
6170 def get_scaled_value(self, fi):
6171 r"""get_scaled_value(AttributeOptimizer self, FloatIndex fi) -> double"""
6172 return _IMP_kernel.AttributeOptimizer_get_scaled_value(self, fi)
6174 def get_scaled_derivative(self, fi):
6175 r"""get_scaled_derivative(AttributeOptimizer self, FloatIndex fi) -> double"""
6176 return _IMP_kernel.AttributeOptimizer_get_scaled_derivative(self, fi)
6178 def clear_range_cache(self):
6179 r"""clear_range_cache(AttributeOptimizer self)"""
6180 return _IMP_kernel.AttributeOptimizer_clear_range_cache(self)
6183 r"""__str__(AttributeOptimizer self) -> std::string"""
6184 return _IMP_kernel.AttributeOptimizer___str__(self)
6187 r"""__repr__(AttributeOptimizer self) -> std::string"""
6188 return _IMP_kernel.AttributeOptimizer___repr__(self)
6192 return _object_cast_to_AttributeOptimizer(o)
6195 def get_type_name(self):
6196 return self.__class__.__name__
6197 def do_show(self, out):
6201 return VersionInfo(self.__module__,
6208 return _object_cast_to_AttributeOptimizer(o)
6210 __swig_destroy__ = _IMP_kernel.delete_AttributeOptimizer
6211 def __disown__(self):
6213 _IMP_kernel.disown_AttributeOptimizer(self)
6214 return weakref.proxy(self)
6217 r"""do_destroy(AttributeOptimizer self)"""
6218 return _IMP_kernel.AttributeOptimizer_do_destroy(self)
6220 def handle_set_has_required_score_states(self, arg0):
6221 r"""handle_set_has_required_score_states(AttributeOptimizer self, bool arg0)"""
6222 return _IMP_kernel.AttributeOptimizer_handle_set_has_required_score_states(self, arg0)
6224 def do_get_inputs(self):
6225 r"""do_get_inputs(AttributeOptimizer self) -> IMP::ModelObjectsTemp"""
6226 return _IMP_kernel.AttributeOptimizer_do_get_inputs(self)
6228 def do_get_outputs(self):
6229 r"""do_get_outputs(AttributeOptimizer self) -> IMP::ModelObjectsTemp"""
6230 return _IMP_kernel.AttributeOptimizer_do_get_outputs(self)
6232 def do_get_interactions(self):
6233 r"""do_get_interactions(AttributeOptimizer self) -> IMP::ModelObjectsTemps"""
6234 return _IMP_kernel.AttributeOptimizer_do_get_interactions(self)
6236 def do_optimize(self, ns):
6237 r"""do_optimize(AttributeOptimizer self, unsigned int ns) -> double"""
6238 return _IMP_kernel.AttributeOptimizer_do_optimize(self, ns)
6241 _IMP_kernel.AttributeOptimizer_swigregister(AttributeOptimizer)
6242 class ConfigurationSet(
Object):
6243 r"""Proxy of C++ IMP::ConfigurationSet class."""
6245 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6247 def __init__(self, *args):
6248 r"""__init__(ConfigurationSet self, Model m, std::string name="ConfigurationSet %1%") -> ConfigurationSet"""
6249 _IMP_kernel.ConfigurationSet_swiginit(self, _IMP_kernel.new_ConfigurationSet(*args))
6251 def save_configuration(self):
6252 r"""save_configuration(ConfigurationSet self)"""
6253 return _IMP_kernel.ConfigurationSet_save_configuration(self)
6255 def get_number_of_configurations(self):
6256 r"""get_number_of_configurations(ConfigurationSet self) -> unsigned int"""
6257 return _IMP_kernel.ConfigurationSet_get_number_of_configurations(self)
6259 def load_configuration(self, i):
6260 r"""load_configuration(ConfigurationSet self, int i)"""
6261 return _IMP_kernel.ConfigurationSet_load_configuration(self, i)
6263 def remove_configuration(self, i):
6264 r"""remove_configuration(ConfigurationSet self, unsigned int i)"""
6265 return _IMP_kernel.ConfigurationSet_remove_configuration(self, i)
6267 def get_model(self):
6268 r"""get_model(ConfigurationSet self) -> Model"""
6269 return _IMP_kernel.ConfigurationSet_get_model(self)
6272 r"""get_version_info(ConfigurationSet self) -> VersionInfo"""
6273 return _IMP_kernel.ConfigurationSet_get_version_info(self)
6274 __swig_destroy__ = _IMP_kernel.delete_ConfigurationSet
6277 r"""__str__(ConfigurationSet self) -> std::string"""
6278 return _IMP_kernel.ConfigurationSet___str__(self)
6281 r"""__repr__(ConfigurationSet self) -> std::string"""
6282 return _IMP_kernel.ConfigurationSet___repr__(self)
6286 return _object_cast_to_ConfigurationSet(o)
6290 _IMP_kernel.ConfigurationSet_swigregister(ConfigurationSet)
6291 class SaveToConfigurationSetOptimizerState(OptimizerState):
6292 r"""Proxy of C++ IMP::SaveToConfigurationSetOptimizerState class."""
6294 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6296 def __init__(self, cs):
6297 r"""__init__(SaveToConfigurationSetOptimizerState self, ConfigurationSet cs) -> SaveToConfigurationSetOptimizerState"""
6298 _IMP_kernel.SaveToConfigurationSetOptimizerState_swiginit(self, _IMP_kernel.new_SaveToConfigurationSetOptimizerState(cs))
6301 r"""get_version_info(SaveToConfigurationSetOptimizerState self) -> VersionInfo"""
6302 return _IMP_kernel.SaveToConfigurationSetOptimizerState_get_version_info(self)
6303 __swig_destroy__ = _IMP_kernel.delete_SaveToConfigurationSetOptimizerState
6306 r"""__str__(SaveToConfigurationSetOptimizerState self) -> std::string"""
6307 return _IMP_kernel.SaveToConfigurationSetOptimizerState___str__(self)
6310 r"""__repr__(SaveToConfigurationSetOptimizerState self) -> std::string"""
6311 return _IMP_kernel.SaveToConfigurationSetOptimizerState___repr__(self)
6315 return _object_cast_to_SaveToConfigurationSetOptimizerState(o)
6319 _IMP_kernel.SaveToConfigurationSetOptimizerState_swigregister(SaveToConfigurationSetOptimizerState)
6320 class Configuration(
Object):
6321 r"""Proxy of C++ IMP::Configuration class."""
6323 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6325 def __init__(self, *args):
6327 __init__(Configuration self, Model m, std::string name="Configuration %1%") -> Configuration
6328 __init__(Configuration self, Model m, Configuration base, std::string name="Configuration %1%") -> Configuration
6330 _IMP_kernel.Configuration_swiginit(self, _IMP_kernel.new_Configuration(*args))
6332 def load_configuration(self):
6333 r"""load_configuration(Configuration self)"""
6334 return _IMP_kernel.Configuration_load_configuration(self)
6336 def swap_configuration(self):
6337 r"""swap_configuration(Configuration self)"""
6338 return _IMP_kernel.Configuration_swap_configuration(self)
6341 r"""get_version_info(Configuration self) -> VersionInfo"""
6342 return _IMP_kernel.Configuration_get_version_info(self)
6343 __swig_destroy__ = _IMP_kernel.delete_Configuration
6346 r"""__str__(Configuration self) -> std::string"""
6347 return _IMP_kernel.Configuration___str__(self)
6350 r"""__repr__(Configuration self) -> std::string"""
6351 return _IMP_kernel.Configuration___repr__(self)
6355 return _object_cast_to_Configuration(o)
6359 _IMP_kernel.Configuration_swigregister(Configuration)
6361 r"""Proxy of C++ IMP::Sampler class."""
6363 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6365 def __init__(self, *args):
6366 r"""__init__(Sampler self, Model m, std::string name="Sampler %1%") -> Sampler"""
6367 if self.__class__ == Sampler:
6371 _IMP_kernel.Sampler_swiginit(self, _IMP_kernel.new_Sampler(_self, *args))
6373 if self.__class__ != Sampler:
6374 _director_objects.register(self)
6379 def create_sample(self):
6380 r"""create_sample(Sampler self) -> ConfigurationSet"""
6381 return _IMP_kernel.Sampler_create_sample(self)
6383 def get_scoring_function(self):
6384 r"""get_scoring_function(Sampler self) -> ScoringFunction"""
6385 return _IMP_kernel.Sampler_get_scoring_function(self)
6387 def set_scoring_function(self, sf):
6388 r"""set_scoring_function(Sampler self, _ScoringFunctionAdaptor sf)"""
6389 return _IMP_kernel.Sampler_set_scoring_function(self, sf)
6391 def get_model(self):
6392 r"""get_model(Sampler self) -> Model"""
6393 return _IMP_kernel.Sampler_get_model(self)
6395 def do_sample(self):
6396 r"""do_sample(Sampler self) -> ConfigurationSet"""
6397 return _IMP_kernel.Sampler_do_sample(self)
6398 __swig_destroy__ = _IMP_kernel.delete_Sampler
6401 r"""__str__(Sampler self) -> std::string"""
6402 return _IMP_kernel.Sampler___str__(self)
6405 r"""__repr__(Sampler self) -> std::string"""
6406 return _IMP_kernel.Sampler___repr__(self)
6410 return _object_cast_to_Sampler(o)
6413 def get_type_name(self):
6414 return self.__class__.__name__
6415 def do_show(self, out):
6419 return VersionInfo(self.__module__,
6426 return _object_cast_to_Sampler(o)
6428 def __disown__(self):
6430 _IMP_kernel.disown_Sampler(self)
6431 return weakref.proxy(self)
6434 r"""do_destroy(Sampler self)"""
6435 return _IMP_kernel.Sampler_do_destroy(self)
6438 _IMP_kernel.Sampler_swigregister(Sampler)
6439 class PairModifier(_ParticleInputs, _ParticleOutputs,
Object):
6440 r"""Proxy of C++ IMP::PairModifier class."""
6442 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6444 def __init__(self, *args):
6445 r"""__init__(PairModifier self, std::string name="PairModifier %1%") -> PairModifier"""
6446 if self.__class__ == PairModifier:
6450 _IMP_kernel.PairModifier_swiginit(self, _IMP_kernel.new_PairModifier(_self, *args))
6452 if self.__class__ != PairModifier:
6453 _director_objects.register(self)
6458 def apply_index(self, m, v):
6459 r"""apply_index(PairModifier self, Model m, IMP::ParticleIndexPair const & v)"""
6460 return _IMP_kernel.PairModifier_apply_index(self, m, v)
6462 def apply_indexes(self, m, o, lower_bound, upper_bound):
6463 r"""apply_indexes(PairModifier self, Model m, IMP::ParticleIndexPairs const & o, unsigned int lower_bound, unsigned int upper_bound)"""
6464 return _IMP_kernel.PairModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
6466 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
6467 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)"""
6468 return _IMP_kernel.PairModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
6471 r"""__str__(PairModifier self) -> std::string"""
6472 return _IMP_kernel.PairModifier___str__(self)
6475 r"""__repr__(PairModifier self) -> std::string"""
6476 return _IMP_kernel.PairModifier___repr__(self)
6480 return _object_cast_to_PairModifier(o)
6483 def get_type_name(self):
6484 return self.__class__.__name__
6485 def do_show(self, out):
6489 return VersionInfo(self.__module__,
6496 return _object_cast_to_PairModifier(o)
6498 __swig_destroy__ = _IMP_kernel.delete_PairModifier
6499 def __disown__(self):
6501 _IMP_kernel.disown_PairModifier(self)
6502 return weakref.proxy(self)
6504 def do_get_inputs(self, m, pis):
6505 r"""do_get_inputs(PairModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6506 return _IMP_kernel.PairModifier_do_get_inputs(self, m, pis)
6508 def do_get_outputs(self, m, pis):
6509 r"""do_get_outputs(PairModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6510 return _IMP_kernel.PairModifier_do_get_outputs(self, m, pis)
6513 r"""do_destroy(PairModifier self)"""
6514 return _IMP_kernel.PairModifier_do_destroy(self)
6517 _IMP_kernel.PairModifier_swigregister(PairModifier)
6518 class PairScore(_ParticleInputs,
Object):
6519 r"""Proxy of C++ IMP::PairScore class."""
6521 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6523 def __init__(self, *args):
6524 r"""__init__(PairScore self, std::string name="PairScore %1%") -> PairScore"""
6525 if self.__class__ == PairScore:
6529 _IMP_kernel.PairScore_swiginit(self, _IMP_kernel.new_PairScore(_self, *args))
6531 if self.__class__ != PairScore:
6532 _director_objects.register(self)
6537 def evaluate_index(self, m, vt, da):
6538 r"""evaluate_index(PairScore self, Model m, IMP::ParticleIndexPair const & vt, DerivativeAccumulator da) -> double"""
6539 return _IMP_kernel.PairScore_evaluate_index(self, m, vt, da)
6541 def check_indexes(self, m, pis):
6542 r"""check_indexes(PairScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
6543 return _IMP_kernel.PairScore_check_indexes(self, m, pis)
6545 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
6546 r"""evaluate_indexes(PairScore self, Model m, IMP::ParticleIndexPairs const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
6547 return _IMP_kernel.PairScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
6549 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
6550 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, bool all_indexes_checked=False) -> double"""
6551 return _IMP_kernel.PairScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
6553 def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
6554 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, bool all_indexes_checked=False) -> double"""
6555 return _IMP_kernel.PairScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
6557 def evaluate_if_good_index(self, m, vt, da, max):
6558 r"""evaluate_if_good_index(PairScore self, Model m, IMP::ParticleIndexPair const & vt, DerivativeAccumulator da, double max) -> double"""
6559 return _IMP_kernel.PairScore_evaluate_if_good_index(self, m, vt, da, max)
6561 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
6562 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, bool all_indexes_checked=False) -> double"""
6563 return _IMP_kernel.PairScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
6565 def create_current_decomposition(self, m, vt):
6566 r"""create_current_decomposition(PairScore self, Model m, IMP::ParticleIndexPair const & vt) -> IMP::Restraints"""
6567 return _IMP_kernel.PairScore_create_current_decomposition(self, m, vt)
6569 def do_create_current_decomposition(self, m, vt):
6570 r"""do_create_current_decomposition(PairScore self, Model m, IMP::ParticleIndexPair const & vt) -> IMP::Restraints"""
6571 return _IMP_kernel.PairScore_do_create_current_decomposition(self, m, vt)
6572 __swig_destroy__ = _IMP_kernel.delete_PairScore
6575 r"""__str__(PairScore self) -> std::string"""
6576 return _IMP_kernel.PairScore___str__(self)
6579 r"""__repr__(PairScore self) -> std::string"""
6580 return _IMP_kernel.PairScore___repr__(self)
6584 return _object_cast_to_PairScore(o)
6587 def get_type_name(self):
6588 return self.__class__.__name__
6589 def do_show(self, out):
6593 return VersionInfo(self.__module__,
6600 return _object_cast_to_PairScore(o)
6602 def __disown__(self):
6604 _IMP_kernel.disown_PairScore(self)
6605 return weakref.proxy(self)
6607 def do_get_inputs(self, m, pis):
6608 r"""do_get_inputs(PairScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6609 return _IMP_kernel.PairScore_do_get_inputs(self, m, pis)
6612 r"""do_destroy(PairScore self)"""
6613 return _IMP_kernel.PairScore_do_destroy(self)
6616 _IMP_kernel.PairScore_swigregister(PairScore)
6617 class PairPredicate(_ParticleInputs,
Object):
6618 r"""Proxy of C++ IMP::PairPredicate class."""
6620 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6622 def __init__(self, *args):
6623 r"""__init__(PairPredicate self, std::string name="PairPredicate %1%") -> PairPredicate"""
6624 if self.__class__ == PairPredicate:
6628 _IMP_kernel.PairPredicate_swiginit(self, _IMP_kernel.new_PairPredicate(_self, *args))
6630 if self.__class__ != PairPredicate:
6631 _director_objects.register(self)
6636 def setup_for_get_value_index_in_batch(self, arg0):
6637 r"""setup_for_get_value_index_in_batch(PairPredicate self, Model arg0)"""
6638 return _IMP_kernel.PairPredicate_setup_for_get_value_index_in_batch(self, arg0)
6640 def get_value_index_in_batch(self, m, vt):
6641 r"""get_value_index_in_batch(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int"""
6642 return _IMP_kernel.PairPredicate_get_value_index_in_batch(self, m, vt)
6644 def __call__(self, m, vt):
6645 r"""__call__(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int"""
6646 return _IMP_kernel.PairPredicate___call__(self, m, vt)
6648 def get_value_index(self, *args):
6650 get_value_index(PairPredicate self, Model m, IMP::ParticleIndexPair const & vt) -> int
6651 get_value_index(PairPredicate self, Model m, IMP::ParticleIndexPairs const & o) -> IMP::Ints
6653 return _IMP_kernel.PairPredicate_get_value_index(self, *args)
6654 __swig_destroy__ = _IMP_kernel.delete_PairPredicate
6657 r"""__str__(PairPredicate self) -> std::string"""
6658 return _IMP_kernel.PairPredicate___str__(self)
6661 r"""__repr__(PairPredicate self) -> std::string"""
6662 return _IMP_kernel.PairPredicate___repr__(self)
6666 return _object_cast_to_PairPredicate(o)
6669 def get_type_name(self):
6670 return self.__class__.__name__
6671 def do_show(self, out):
6675 return VersionInfo(self.__module__,
6682 return _object_cast_to_PairPredicate(o)
6684 def __disown__(self):
6686 _IMP_kernel.disown_PairPredicate(self)
6687 return weakref.proxy(self)
6689 def do_get_inputs(self, m, pis):
6690 r"""do_get_inputs(PairPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6691 return _IMP_kernel.PairPredicate_do_get_inputs(self, m, pis)
6694 r"""do_destroy(PairPredicate self)"""
6695 return _IMP_kernel.PairPredicate_do_destroy(self)
6698 _IMP_kernel.PairPredicate_swigregister(PairPredicate)
6699 class PairContainer(Container):
6700 r"""Proxy of C++ IMP::PairContainer class."""
6702 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6704 def apply_generic(self, m):
6705 r"""apply_generic(PairContainer self, PairModifier m)"""
6706 return _IMP_kernel.PairContainer_apply_generic(self, m)
6708 def apply_generic_moved(self, m, moved_pis, reset_pis):
6709 r"""apply_generic_moved(PairContainer self, PairModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6710 return _IMP_kernel.PairContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
6712 def apply(self, sm):
6713 r"""apply(PairContainer self, PairModifier sm)"""
6714 return _IMP_kernel.PairContainer_apply(self, sm)
6716 def apply_moved(self, sm, moved_pis, reset_pis):
6717 r"""apply_moved(PairContainer self, PairModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6718 return _IMP_kernel.PairContainer_apply_moved(self, sm, moved_pis, reset_pis)
6720 def get_range_indexes(self):
6721 r"""get_range_indexes(PairContainer self) -> IMP::ParticleIndexPairs"""
6722 return _IMP_kernel.PairContainer_get_range_indexes(self)
6724 def get_contents(self):
6725 r"""get_contents(PairContainer self) -> IMP::ParticleIndexPairs const &"""
6726 return _IMP_kernel.PairContainer_get_contents(self)
6729 r"""get_indexes(PairContainer self) -> IMP::ParticleIndexPairs"""
6730 return _IMP_kernel.PairContainer_get_indexes(self)
6732 def get(self, *args):
6734 get(PairContainer self) -> IMP::ParticlePairsTemp
6735 get(PairContainer self, unsigned int i) -> IMP::ParticlePair
6737 return _IMP_kernel.PairContainer_get(self, *args)
6739 def get_number(self):
6740 r"""get_number(PairContainer self) -> unsigned int"""
6741 return _IMP_kernel.PairContainer_get_number(self)
6743 def __init__(self, *args):
6745 __init__(PairContainer self, Model m, std::string name="PairContainer %1%") -> PairContainer
6746 __init__(PairContainer self) -> PairContainer
6748 if self.__class__ == PairContainer:
6752 _IMP_kernel.PairContainer_swiginit(self, _IMP_kernel.new_PairContainer(_self, *args))
6754 if self.__class__ != PairContainer:
6755 _director_objects.register(self)
6760 def do_apply(self, sm):
6761 r"""do_apply(PairContainer self, PairModifier sm)"""
6762 return _IMP_kernel.PairContainer_do_apply(self, sm)
6764 def do_apply_moved(self, sm, moved_pis, reset_pis):
6765 r"""do_apply_moved(PairContainer self, PairModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
6766 return _IMP_kernel.PairContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
6768 def do_get_provides_access(self):
6769 r"""do_get_provides_access(PairContainer self) -> bool"""
6770 return _IMP_kernel.PairContainer_do_get_provides_access(self)
6771 __swig_destroy__ = _IMP_kernel.delete_PairContainer
6774 r"""__str__(PairContainer self) -> std::string"""
6775 return _IMP_kernel.PairContainer___str__(self)
6778 r"""__repr__(PairContainer self) -> std::string"""
6779 return _IMP_kernel.PairContainer___repr__(self)
6783 return _object_cast_to_PairContainer(o)
6786 def get_type_name(self):
6787 return self.__class__.__name__
6788 def do_show(self, out):
6792 return VersionInfo(self.__module__,
6799 return _object_cast_to_PairContainer(o)
6801 def __disown__(self):
6803 _IMP_kernel.disown_PairContainer(self)
6804 return weakref.proxy(self)
6807 r"""do_destroy(PairContainer self)"""
6808 return _IMP_kernel.PairContainer_do_destroy(self)
6810 def handle_set_has_required_score_states(self, arg0):
6811 r"""handle_set_has_required_score_states(PairContainer self, bool arg0)"""
6812 return _IMP_kernel.PairContainer_handle_set_has_required_score_states(self, arg0)
6814 def do_get_inputs(self):
6815 r"""do_get_inputs(PairContainer self) -> IMP::ModelObjectsTemp"""
6816 return _IMP_kernel.PairContainer_do_get_inputs(self)
6818 def do_get_interactions(self):
6819 r"""do_get_interactions(PairContainer self) -> IMP::ModelObjectsTemps"""
6820 return _IMP_kernel.PairContainer_do_get_interactions(self)
6822 def do_get_contents_hash(self):
6823 r"""do_get_contents_hash(PairContainer self) -> std::size_t"""
6824 return _IMP_kernel.PairContainer_do_get_contents_hash(self)
6827 _IMP_kernel.PairContainer_swigregister(PairContainer)
6828 class _PairContainerAdaptor(_InputAdaptor):
6829 r"""Proxy of C++ IMP::PairContainerAdaptor class."""
6831 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6832 __repr__ = _swig_repr
6834 def __init__(self, *args):
6836 __init__(_PairContainerAdaptor self) -> _PairContainerAdaptor
6837 __init__(_PairContainerAdaptor self, PairContainer c) -> _PairContainerAdaptor
6838 __init__(_PairContainerAdaptor self, IMP::ParticlePairsTemp const & t) -> _PairContainerAdaptor
6840 _IMP_kernel._PairContainerAdaptor_swiginit(self, _IMP_kernel.new__PairContainerAdaptor(*args))
6842 def set_name_if_default(self, name):
6843 r"""set_name_if_default(_PairContainerAdaptor self, std::string name)"""
6844 return _IMP_kernel._PairContainerAdaptor_set_name_if_default(self, name)
6845 __swig_destroy__ = _IMP_kernel.delete__PairContainerAdaptor
6848 _IMP_kernel._PairContainerAdaptor_swigregister(_PairContainerAdaptor)
6849 class QuadModifier(_ParticleInputs, _ParticleOutputs,
Object):
6850 r"""Proxy of C++ IMP::QuadModifier class."""
6852 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6854 def __init__(self, *args):
6855 r"""__init__(QuadModifier self, std::string name="QuadModifier %1%") -> QuadModifier"""
6856 if self.__class__ == QuadModifier:
6860 _IMP_kernel.QuadModifier_swiginit(self, _IMP_kernel.new_QuadModifier(_self, *args))
6862 if self.__class__ != QuadModifier:
6863 _director_objects.register(self)
6868 def apply_index(self, m, v):
6869 r"""apply_index(QuadModifier self, Model m, IMP::ParticleIndexQuad const & v)"""
6870 return _IMP_kernel.QuadModifier_apply_index(self, m, v)
6872 def apply_indexes(self, m, o, lower_bound, upper_bound):
6873 r"""apply_indexes(QuadModifier self, Model m, IMP::ParticleIndexQuads const & o, unsigned int lower_bound, unsigned int upper_bound)"""
6874 return _IMP_kernel.QuadModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
6876 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
6877 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)"""
6878 return _IMP_kernel.QuadModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
6881 r"""__str__(QuadModifier self) -> std::string"""
6882 return _IMP_kernel.QuadModifier___str__(self)
6885 r"""__repr__(QuadModifier self) -> std::string"""
6886 return _IMP_kernel.QuadModifier___repr__(self)
6890 return _object_cast_to_QuadModifier(o)
6893 def get_type_name(self):
6894 return self.__class__.__name__
6895 def do_show(self, out):
6899 return VersionInfo(self.__module__,
6906 return _object_cast_to_QuadModifier(o)
6908 __swig_destroy__ = _IMP_kernel.delete_QuadModifier
6909 def __disown__(self):
6911 _IMP_kernel.disown_QuadModifier(self)
6912 return weakref.proxy(self)
6914 def do_get_inputs(self, m, pis):
6915 r"""do_get_inputs(QuadModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6916 return _IMP_kernel.QuadModifier_do_get_inputs(self, m, pis)
6918 def do_get_outputs(self, m, pis):
6919 r"""do_get_outputs(QuadModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
6920 return _IMP_kernel.QuadModifier_do_get_outputs(self, m, pis)
6923 r"""do_destroy(QuadModifier self)"""
6924 return _IMP_kernel.QuadModifier_do_destroy(self)
6927 _IMP_kernel.QuadModifier_swigregister(QuadModifier)
6928 class QuadScore(_ParticleInputs,
Object):
6929 r"""Proxy of C++ IMP::QuadScore class."""
6931 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
6933 def __init__(self, *args):
6934 r"""__init__(QuadScore self, std::string name="QuadScore %1%") -> QuadScore"""
6935 if self.__class__ == QuadScore:
6939 _IMP_kernel.QuadScore_swiginit(self, _IMP_kernel.new_QuadScore(_self, *args))
6941 if self.__class__ != QuadScore:
6942 _director_objects.register(self)
6947 def evaluate_index(self, m, vt, da):
6948 r"""evaluate_index(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt, DerivativeAccumulator da) -> double"""
6949 return _IMP_kernel.QuadScore_evaluate_index(self, m, vt, da)
6951 def check_indexes(self, m, pis):
6952 r"""check_indexes(QuadScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
6953 return _IMP_kernel.QuadScore_check_indexes(self, m, pis)
6955 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
6956 r"""evaluate_indexes(QuadScore self, Model m, IMP::ParticleIndexQuads const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
6957 return _IMP_kernel.QuadScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
6959 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
6960 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, bool all_indexes_checked=False) -> double"""
6961 return _IMP_kernel.QuadScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
6963 def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
6964 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, bool all_indexes_checked=False) -> double"""
6965 return _IMP_kernel.QuadScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
6967 def evaluate_if_good_index(self, m, vt, da, max):
6968 r"""evaluate_if_good_index(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt, DerivativeAccumulator da, double max) -> double"""
6969 return _IMP_kernel.QuadScore_evaluate_if_good_index(self, m, vt, da, max)
6971 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
6972 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, bool all_indexes_checked=False) -> double"""
6973 return _IMP_kernel.QuadScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
6975 def create_current_decomposition(self, m, vt):
6976 r"""create_current_decomposition(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt) -> IMP::Restraints"""
6977 return _IMP_kernel.QuadScore_create_current_decomposition(self, m, vt)
6979 def do_create_current_decomposition(self, m, vt):
6980 r"""do_create_current_decomposition(QuadScore self, Model m, IMP::ParticleIndexQuad const & vt) -> IMP::Restraints"""
6981 return _IMP_kernel.QuadScore_do_create_current_decomposition(self, m, vt)
6982 __swig_destroy__ = _IMP_kernel.delete_QuadScore
6985 r"""__str__(QuadScore self) -> std::string"""
6986 return _IMP_kernel.QuadScore___str__(self)
6989 r"""__repr__(QuadScore self) -> std::string"""
6990 return _IMP_kernel.QuadScore___repr__(self)
6994 return _object_cast_to_QuadScore(o)
6997 def get_type_name(self):
6998 return self.__class__.__name__
6999 def do_show(self, out):
7003 return VersionInfo(self.__module__,
7010 return _object_cast_to_QuadScore(o)
7012 def __disown__(self):
7014 _IMP_kernel.disown_QuadScore(self)
7015 return weakref.proxy(self)
7017 def do_get_inputs(self, m, pis):
7018 r"""do_get_inputs(QuadScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7019 return _IMP_kernel.QuadScore_do_get_inputs(self, m, pis)
7022 r"""do_destroy(QuadScore self)"""
7023 return _IMP_kernel.QuadScore_do_destroy(self)
7026 _IMP_kernel.QuadScore_swigregister(QuadScore)
7027 class QuadPredicate(_ParticleInputs,
Object):
7028 r"""Proxy of C++ IMP::QuadPredicate class."""
7030 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7032 def __init__(self, *args):
7033 r"""__init__(QuadPredicate self, std::string name="QuadPredicate %1%") -> QuadPredicate"""
7034 if self.__class__ == QuadPredicate:
7038 _IMP_kernel.QuadPredicate_swiginit(self, _IMP_kernel.new_QuadPredicate(_self, *args))
7040 if self.__class__ != QuadPredicate:
7041 _director_objects.register(self)
7046 def setup_for_get_value_index_in_batch(self, arg0):
7047 r"""setup_for_get_value_index_in_batch(QuadPredicate self, Model arg0)"""
7048 return _IMP_kernel.QuadPredicate_setup_for_get_value_index_in_batch(self, arg0)
7050 def get_value_index_in_batch(self, m, vt):
7051 r"""get_value_index_in_batch(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int"""
7052 return _IMP_kernel.QuadPredicate_get_value_index_in_batch(self, m, vt)
7054 def __call__(self, m, vt):
7055 r"""__call__(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int"""
7056 return _IMP_kernel.QuadPredicate___call__(self, m, vt)
7058 def get_value_index(self, *args):
7060 get_value_index(QuadPredicate self, Model m, IMP::ParticleIndexQuad const & vt) -> int
7061 get_value_index(QuadPredicate self, Model m, IMP::ParticleIndexQuads const & o) -> IMP::Ints
7063 return _IMP_kernel.QuadPredicate_get_value_index(self, *args)
7064 __swig_destroy__ = _IMP_kernel.delete_QuadPredicate
7067 r"""__str__(QuadPredicate self) -> std::string"""
7068 return _IMP_kernel.QuadPredicate___str__(self)
7071 r"""__repr__(QuadPredicate self) -> std::string"""
7072 return _IMP_kernel.QuadPredicate___repr__(self)
7076 return _object_cast_to_QuadPredicate(o)
7079 def get_type_name(self):
7080 return self.__class__.__name__
7081 def do_show(self, out):
7085 return VersionInfo(self.__module__,
7092 return _object_cast_to_QuadPredicate(o)
7094 def __disown__(self):
7096 _IMP_kernel.disown_QuadPredicate(self)
7097 return weakref.proxy(self)
7099 def do_get_inputs(self, m, pis):
7100 r"""do_get_inputs(QuadPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7101 return _IMP_kernel.QuadPredicate_do_get_inputs(self, m, pis)
7104 r"""do_destroy(QuadPredicate self)"""
7105 return _IMP_kernel.QuadPredicate_do_destroy(self)
7108 _IMP_kernel.QuadPredicate_swigregister(QuadPredicate)
7109 class QuadContainer(Container):
7110 r"""Proxy of C++ IMP::QuadContainer class."""
7112 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7114 def apply_generic(self, m):
7115 r"""apply_generic(QuadContainer self, QuadModifier m)"""
7116 return _IMP_kernel.QuadContainer_apply_generic(self, m)
7118 def apply_generic_moved(self, m, moved_pis, reset_pis):
7119 r"""apply_generic_moved(QuadContainer self, QuadModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7120 return _IMP_kernel.QuadContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
7122 def apply(self, sm):
7123 r"""apply(QuadContainer self, QuadModifier sm)"""
7124 return _IMP_kernel.QuadContainer_apply(self, sm)
7126 def apply_moved(self, sm, moved_pis, reset_pis):
7127 r"""apply_moved(QuadContainer self, QuadModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7128 return _IMP_kernel.QuadContainer_apply_moved(self, sm, moved_pis, reset_pis)
7130 def get_range_indexes(self):
7131 r"""get_range_indexes(QuadContainer self) -> IMP::ParticleIndexQuads"""
7132 return _IMP_kernel.QuadContainer_get_range_indexes(self)
7134 def get_contents(self):
7135 r"""get_contents(QuadContainer self) -> IMP::ParticleIndexQuads const &"""
7136 return _IMP_kernel.QuadContainer_get_contents(self)
7139 r"""get_indexes(QuadContainer self) -> IMP::ParticleIndexQuads"""
7140 return _IMP_kernel.QuadContainer_get_indexes(self)
7142 def get(self, *args):
7144 get(QuadContainer self) -> IMP::ParticleQuadsTemp
7145 get(QuadContainer self, unsigned int i) -> IMP::ParticleQuad
7147 return _IMP_kernel.QuadContainer_get(self, *args)
7149 def get_number(self):
7150 r"""get_number(QuadContainer self) -> unsigned int"""
7151 return _IMP_kernel.QuadContainer_get_number(self)
7153 def __init__(self, *args):
7155 __init__(QuadContainer self, Model m, std::string name="QuadContainer %1%") -> QuadContainer
7156 __init__(QuadContainer self) -> QuadContainer
7158 if self.__class__ == QuadContainer:
7162 _IMP_kernel.QuadContainer_swiginit(self, _IMP_kernel.new_QuadContainer(_self, *args))
7164 if self.__class__ != QuadContainer:
7165 _director_objects.register(self)
7170 def do_apply(self, sm):
7171 r"""do_apply(QuadContainer self, QuadModifier sm)"""
7172 return _IMP_kernel.QuadContainer_do_apply(self, sm)
7174 def do_apply_moved(self, sm, moved_pis, reset_pis):
7175 r"""do_apply_moved(QuadContainer self, QuadModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7176 return _IMP_kernel.QuadContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
7178 def do_get_provides_access(self):
7179 r"""do_get_provides_access(QuadContainer self) -> bool"""
7180 return _IMP_kernel.QuadContainer_do_get_provides_access(self)
7181 __swig_destroy__ = _IMP_kernel.delete_QuadContainer
7184 r"""__str__(QuadContainer self) -> std::string"""
7185 return _IMP_kernel.QuadContainer___str__(self)
7188 r"""__repr__(QuadContainer self) -> std::string"""
7189 return _IMP_kernel.QuadContainer___repr__(self)
7193 return _object_cast_to_QuadContainer(o)
7196 def get_type_name(self):
7197 return self.__class__.__name__
7198 def do_show(self, out):
7202 return VersionInfo(self.__module__,
7209 return _object_cast_to_QuadContainer(o)
7211 def __disown__(self):
7213 _IMP_kernel.disown_QuadContainer(self)
7214 return weakref.proxy(self)
7217 r"""do_destroy(QuadContainer self)"""
7218 return _IMP_kernel.QuadContainer_do_destroy(self)
7220 def handle_set_has_required_score_states(self, arg0):
7221 r"""handle_set_has_required_score_states(QuadContainer self, bool arg0)"""
7222 return _IMP_kernel.QuadContainer_handle_set_has_required_score_states(self, arg0)
7224 def do_get_inputs(self):
7225 r"""do_get_inputs(QuadContainer self) -> IMP::ModelObjectsTemp"""
7226 return _IMP_kernel.QuadContainer_do_get_inputs(self)
7228 def do_get_interactions(self):
7229 r"""do_get_interactions(QuadContainer self) -> IMP::ModelObjectsTemps"""
7230 return _IMP_kernel.QuadContainer_do_get_interactions(self)
7232 def do_get_contents_hash(self):
7233 r"""do_get_contents_hash(QuadContainer self) -> std::size_t"""
7234 return _IMP_kernel.QuadContainer_do_get_contents_hash(self)
7237 _IMP_kernel.QuadContainer_swigregister(QuadContainer)
7238 class _QuadContainerAdaptor(_InputAdaptor):
7239 r"""Proxy of C++ IMP::QuadContainerAdaptor class."""
7241 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7242 __repr__ = _swig_repr
7244 def __init__(self, *args):
7246 __init__(_QuadContainerAdaptor self) -> _QuadContainerAdaptor
7247 __init__(_QuadContainerAdaptor self, QuadContainer c) -> _QuadContainerAdaptor
7248 __init__(_QuadContainerAdaptor self, IMP::ParticleQuadsTemp const & t) -> _QuadContainerAdaptor
7250 _IMP_kernel._QuadContainerAdaptor_swiginit(self, _IMP_kernel.new__QuadContainerAdaptor(*args))
7252 def set_name_if_default(self, name):
7253 r"""set_name_if_default(_QuadContainerAdaptor self, std::string name)"""
7254 return _IMP_kernel._QuadContainerAdaptor_set_name_if_default(self, name)
7255 __swig_destroy__ = _IMP_kernel.delete__QuadContainerAdaptor
7258 _IMP_kernel._QuadContainerAdaptor_swigregister(_QuadContainerAdaptor)
7259 class SingletonModifier(_ParticleInputs, _ParticleOutputs,
Object):
7260 r"""Proxy of C++ IMP::SingletonModifier class."""
7262 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7264 def __init__(self, *args):
7265 r"""__init__(SingletonModifier self, std::string name="SingletonModifier %1%") -> SingletonModifier"""
7266 if self.__class__ == SingletonModifier:
7270 _IMP_kernel.SingletonModifier_swiginit(self, _IMP_kernel.new_SingletonModifier(_self, *args))
7272 if self.__class__ != SingletonModifier:
7273 _director_objects.register(self)
7278 def apply_index(self, m, v):
7279 r"""apply_index(SingletonModifier self, Model m, ParticleIndex v)"""
7280 return _IMP_kernel.SingletonModifier_apply_index(self, m, v)
7282 def apply_indexes(self, m, o, lower_bound, upper_bound):
7283 r"""apply_indexes(SingletonModifier self, Model m, IMP::ParticleIndexes const & o, unsigned int lower_bound, unsigned int upper_bound)"""
7284 return _IMP_kernel.SingletonModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
7286 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
7287 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)"""
7288 return _IMP_kernel.SingletonModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
7291 r"""__str__(SingletonModifier self) -> std::string"""
7292 return _IMP_kernel.SingletonModifier___str__(self)
7295 r"""__repr__(SingletonModifier self) -> std::string"""
7296 return _IMP_kernel.SingletonModifier___repr__(self)
7300 return _object_cast_to_SingletonModifier(o)
7303 def get_type_name(self):
7304 return self.__class__.__name__
7305 def do_show(self, out):
7309 return VersionInfo(self.__module__,
7316 return _object_cast_to_SingletonModifier(o)
7318 __swig_destroy__ = _IMP_kernel.delete_SingletonModifier
7319 def __disown__(self):
7321 _IMP_kernel.disown_SingletonModifier(self)
7322 return weakref.proxy(self)
7324 def do_get_inputs(self, m, pis):
7325 r"""do_get_inputs(SingletonModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7326 return _IMP_kernel.SingletonModifier_do_get_inputs(self, m, pis)
7328 def do_get_outputs(self, m, pis):
7329 r"""do_get_outputs(SingletonModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7330 return _IMP_kernel.SingletonModifier_do_get_outputs(self, m, pis)
7333 r"""do_destroy(SingletonModifier self)"""
7334 return _IMP_kernel.SingletonModifier_do_destroy(self)
7337 _IMP_kernel.SingletonModifier_swigregister(SingletonModifier)
7338 class SingletonScore(_ParticleInputs,
Object):
7339 r"""Proxy of C++ IMP::SingletonScore class."""
7341 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7343 def __init__(self, *args):
7344 r"""__init__(SingletonScore self, std::string name="SingletonScore %1%") -> SingletonScore"""
7345 if self.__class__ == SingletonScore:
7349 _IMP_kernel.SingletonScore_swiginit(self, _IMP_kernel.new_SingletonScore(_self, *args))
7351 if self.__class__ != SingletonScore:
7352 _director_objects.register(self)
7357 def evaluate_index(self, m, vt, da):
7358 r"""evaluate_index(SingletonScore self, Model m, ParticleIndex vt, DerivativeAccumulator da) -> double"""
7359 return _IMP_kernel.SingletonScore_evaluate_index(self, m, vt, da)
7361 def check_indexes(self, m, pis):
7362 r"""check_indexes(SingletonScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
7363 return _IMP_kernel.SingletonScore_check_indexes(self, m, pis)
7365 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
7366 r"""evaluate_indexes(SingletonScore self, Model m, IMP::ParticleIndexes const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
7367 return _IMP_kernel.SingletonScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
7369 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
7370 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, bool all_indexes_checked=False) -> double"""
7371 return _IMP_kernel.SingletonScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
7373 def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
7374 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, bool all_indexes_checked=False) -> double"""
7375 return _IMP_kernel.SingletonScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
7377 def evaluate_if_good_index(self, m, vt, da, max):
7378 r"""evaluate_if_good_index(SingletonScore self, Model m, ParticleIndex vt, DerivativeAccumulator da, double max) -> double"""
7379 return _IMP_kernel.SingletonScore_evaluate_if_good_index(self, m, vt, da, max)
7381 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
7382 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, bool all_indexes_checked=False) -> double"""
7383 return _IMP_kernel.SingletonScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
7385 def create_current_decomposition(self, m, vt):
7386 r"""create_current_decomposition(SingletonScore self, Model m, ParticleIndex vt) -> IMP::Restraints"""
7387 return _IMP_kernel.SingletonScore_create_current_decomposition(self, m, vt)
7389 def do_create_current_decomposition(self, m, vt):
7390 r"""do_create_current_decomposition(SingletonScore self, Model m, ParticleIndex vt) -> IMP::Restraints"""
7391 return _IMP_kernel.SingletonScore_do_create_current_decomposition(self, m, vt)
7392 __swig_destroy__ = _IMP_kernel.delete_SingletonScore
7395 r"""__str__(SingletonScore self) -> std::string"""
7396 return _IMP_kernel.SingletonScore___str__(self)
7399 r"""__repr__(SingletonScore self) -> std::string"""
7400 return _IMP_kernel.SingletonScore___repr__(self)
7404 return _object_cast_to_SingletonScore(o)
7407 def get_type_name(self):
7408 return self.__class__.__name__
7409 def do_show(self, out):
7413 return VersionInfo(self.__module__,
7420 return _object_cast_to_SingletonScore(o)
7422 def __disown__(self):
7424 _IMP_kernel.disown_SingletonScore(self)
7425 return weakref.proxy(self)
7427 def do_get_inputs(self, m, pis):
7428 r"""do_get_inputs(SingletonScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7429 return _IMP_kernel.SingletonScore_do_get_inputs(self, m, pis)
7432 r"""do_destroy(SingletonScore self)"""
7433 return _IMP_kernel.SingletonScore_do_destroy(self)
7436 _IMP_kernel.SingletonScore_swigregister(SingletonScore)
7437 class SingletonPredicate(_ParticleInputs,
Object):
7438 r"""Proxy of C++ IMP::SingletonPredicate class."""
7440 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7442 def __init__(self, *args):
7443 r"""__init__(SingletonPredicate self, std::string name="SingletonPredicate %1%") -> SingletonPredicate"""
7444 if self.__class__ == SingletonPredicate:
7448 _IMP_kernel.SingletonPredicate_swiginit(self, _IMP_kernel.new_SingletonPredicate(_self, *args))
7450 if self.__class__ != SingletonPredicate:
7451 _director_objects.register(self)
7456 def setup_for_get_value_index_in_batch(self, arg0):
7457 r"""setup_for_get_value_index_in_batch(SingletonPredicate self, Model arg0)"""
7458 return _IMP_kernel.SingletonPredicate_setup_for_get_value_index_in_batch(self, arg0)
7460 def get_value_index_in_batch(self, m, vt):
7461 r"""get_value_index_in_batch(SingletonPredicate self, Model m, ParticleIndex vt) -> int"""
7462 return _IMP_kernel.SingletonPredicate_get_value_index_in_batch(self, m, vt)
7464 def __call__(self, m, vt):
7465 r"""__call__(SingletonPredicate self, Model m, ParticleIndex vt) -> int"""
7466 return _IMP_kernel.SingletonPredicate___call__(self, m, vt)
7468 def get_value_index(self, *args):
7470 get_value_index(SingletonPredicate self, Model m, ParticleIndex vt) -> int
7471 get_value_index(SingletonPredicate self, Model m, IMP::ParticleIndexes const & o) -> IMP::Ints
7473 return _IMP_kernel.SingletonPredicate_get_value_index(self, *args)
7474 __swig_destroy__ = _IMP_kernel.delete_SingletonPredicate
7477 r"""__str__(SingletonPredicate self) -> std::string"""
7478 return _IMP_kernel.SingletonPredicate___str__(self)
7481 r"""__repr__(SingletonPredicate self) -> std::string"""
7482 return _IMP_kernel.SingletonPredicate___repr__(self)
7486 return _object_cast_to_SingletonPredicate(o)
7489 def get_type_name(self):
7490 return self.__class__.__name__
7491 def do_show(self, out):
7495 return VersionInfo(self.__module__,
7502 return _object_cast_to_SingletonPredicate(o)
7504 def __disown__(self):
7506 _IMP_kernel.disown_SingletonPredicate(self)
7507 return weakref.proxy(self)
7509 def do_get_inputs(self, m, pis):
7510 r"""do_get_inputs(SingletonPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7511 return _IMP_kernel.SingletonPredicate_do_get_inputs(self, m, pis)
7514 r"""do_destroy(SingletonPredicate self)"""
7515 return _IMP_kernel.SingletonPredicate_do_destroy(self)
7518 _IMP_kernel.SingletonPredicate_swigregister(SingletonPredicate)
7519 class SingletonContainer(Container):
7520 r"""Proxy of C++ IMP::SingletonContainer class."""
7522 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7524 def apply_generic(self, m):
7525 r"""apply_generic(SingletonContainer self, SingletonModifier m)"""
7526 return _IMP_kernel.SingletonContainer_apply_generic(self, m)
7528 def apply_generic_moved(self, m, moved_pis, reset_pis):
7529 r"""apply_generic_moved(SingletonContainer self, SingletonModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7530 return _IMP_kernel.SingletonContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
7532 def apply(self, sm):
7533 r"""apply(SingletonContainer self, SingletonModifier sm)"""
7534 return _IMP_kernel.SingletonContainer_apply(self, sm)
7536 def apply_moved(self, sm, moved_pis, reset_pis):
7537 r"""apply_moved(SingletonContainer self, SingletonModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7538 return _IMP_kernel.SingletonContainer_apply_moved(self, sm, moved_pis, reset_pis)
7540 def get_range_indexes(self):
7541 r"""get_range_indexes(SingletonContainer self) -> IMP::ParticleIndexes"""
7542 return _IMP_kernel.SingletonContainer_get_range_indexes(self)
7544 def get_contents(self):
7545 r"""get_contents(SingletonContainer self) -> IMP::ParticleIndexes const &"""
7546 return _IMP_kernel.SingletonContainer_get_contents(self)
7549 r"""get_indexes(SingletonContainer self) -> IMP::ParticleIndexes"""
7550 return _IMP_kernel.SingletonContainer_get_indexes(self)
7552 def get(self, *args):
7554 get(SingletonContainer self) -> IMP::ParticlesTemp
7555 get(SingletonContainer self, unsigned int i) -> Particle
7557 return _IMP_kernel.SingletonContainer_get(self, *args)
7559 def get_number(self):
7560 r"""get_number(SingletonContainer self) -> unsigned int"""
7561 return _IMP_kernel.SingletonContainer_get_number(self)
7563 def __init__(self, *args):
7565 __init__(SingletonContainer self, Model m, std::string name="SingletonContainer %1%") -> SingletonContainer
7566 __init__(SingletonContainer self) -> SingletonContainer
7568 if self.__class__ == SingletonContainer:
7572 _IMP_kernel.SingletonContainer_swiginit(self, _IMP_kernel.new_SingletonContainer(_self, *args))
7574 if self.__class__ != SingletonContainer:
7575 _director_objects.register(self)
7580 def do_apply(self, sm):
7581 r"""do_apply(SingletonContainer self, SingletonModifier sm)"""
7582 return _IMP_kernel.SingletonContainer_do_apply(self, sm)
7584 def do_apply_moved(self, sm, moved_pis, reset_pis):
7585 r"""do_apply_moved(SingletonContainer self, SingletonModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7586 return _IMP_kernel.SingletonContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
7588 def do_get_provides_access(self):
7589 r"""do_get_provides_access(SingletonContainer self) -> bool"""
7590 return _IMP_kernel.SingletonContainer_do_get_provides_access(self)
7591 __swig_destroy__ = _IMP_kernel.delete_SingletonContainer
7594 r"""__str__(SingletonContainer self) -> std::string"""
7595 return _IMP_kernel.SingletonContainer___str__(self)
7598 r"""__repr__(SingletonContainer self) -> std::string"""
7599 return _IMP_kernel.SingletonContainer___repr__(self)
7603 return _object_cast_to_SingletonContainer(o)
7606 def get_type_name(self):
7607 return self.__class__.__name__
7608 def do_show(self, out):
7612 return VersionInfo(self.__module__,
7619 return _object_cast_to_SingletonContainer(o)
7621 def __disown__(self):
7623 _IMP_kernel.disown_SingletonContainer(self)
7624 return weakref.proxy(self)
7627 r"""do_destroy(SingletonContainer self)"""
7628 return _IMP_kernel.SingletonContainer_do_destroy(self)
7630 def handle_set_has_required_score_states(self, arg0):
7631 r"""handle_set_has_required_score_states(SingletonContainer self, bool arg0)"""
7632 return _IMP_kernel.SingletonContainer_handle_set_has_required_score_states(self, arg0)
7634 def do_get_inputs(self):
7635 r"""do_get_inputs(SingletonContainer self) -> IMP::ModelObjectsTemp"""
7636 return _IMP_kernel.SingletonContainer_do_get_inputs(self)
7638 def do_get_interactions(self):
7639 r"""do_get_interactions(SingletonContainer self) -> IMP::ModelObjectsTemps"""
7640 return _IMP_kernel.SingletonContainer_do_get_interactions(self)
7642 def do_get_contents_hash(self):
7643 r"""do_get_contents_hash(SingletonContainer self) -> std::size_t"""
7644 return _IMP_kernel.SingletonContainer_do_get_contents_hash(self)
7647 _IMP_kernel.SingletonContainer_swigregister(SingletonContainer)
7648 class _SingletonContainerAdaptor(_InputAdaptor):
7649 r"""Proxy of C++ IMP::SingletonContainerAdaptor class."""
7651 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7652 __repr__ = _swig_repr
7654 def __init__(self, *args):
7656 __init__(_SingletonContainerAdaptor self) -> _SingletonContainerAdaptor
7657 __init__(_SingletonContainerAdaptor self, SingletonContainer c) -> _SingletonContainerAdaptor
7658 __init__(_SingletonContainerAdaptor self, IMP::ParticlesTemp const & t) -> _SingletonContainerAdaptor
7660 _IMP_kernel._SingletonContainerAdaptor_swiginit(self, _IMP_kernel.new__SingletonContainerAdaptor(*args))
7662 def set_name_if_default(self, name):
7663 r"""set_name_if_default(_SingletonContainerAdaptor self, std::string name)"""
7664 return _IMP_kernel._SingletonContainerAdaptor_set_name_if_default(self, name)
7665 __swig_destroy__ = _IMP_kernel.delete__SingletonContainerAdaptor
7668 _IMP_kernel._SingletonContainerAdaptor_swigregister(_SingletonContainerAdaptor)
7669 class TripletModifier(_ParticleInputs, _ParticleOutputs,
Object):
7670 r"""Proxy of C++ IMP::TripletModifier class."""
7672 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7674 def __init__(self, *args):
7675 r"""__init__(TripletModifier self, std::string name="TripletModifier %1%") -> TripletModifier"""
7676 if self.__class__ == TripletModifier:
7680 _IMP_kernel.TripletModifier_swiginit(self, _IMP_kernel.new_TripletModifier(_self, *args))
7682 if self.__class__ != TripletModifier:
7683 _director_objects.register(self)
7688 def apply_index(self, m, v):
7689 r"""apply_index(TripletModifier self, Model m, IMP::ParticleIndexTriplet const & v)"""
7690 return _IMP_kernel.TripletModifier_apply_index(self, m, v)
7692 def apply_indexes(self, m, o, lower_bound, upper_bound):
7693 r"""apply_indexes(TripletModifier self, Model m, IMP::ParticleIndexTriplets const & o, unsigned int lower_bound, unsigned int upper_bound)"""
7694 return _IMP_kernel.TripletModifier_apply_indexes(self, m, o, lower_bound, upper_bound)
7696 def apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis):
7697 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)"""
7698 return _IMP_kernel.TripletModifier_apply_indexes_moved(self, m, o, lower_bound, upper_bound, moved_pis, reset_pis)
7701 r"""__str__(TripletModifier self) -> std::string"""
7702 return _IMP_kernel.TripletModifier___str__(self)
7705 r"""__repr__(TripletModifier self) -> std::string"""
7706 return _IMP_kernel.TripletModifier___repr__(self)
7710 return _object_cast_to_TripletModifier(o)
7713 def get_type_name(self):
7714 return self.__class__.__name__
7715 def do_show(self, out):
7719 return VersionInfo(self.__module__,
7726 return _object_cast_to_TripletModifier(o)
7728 __swig_destroy__ = _IMP_kernel.delete_TripletModifier
7729 def __disown__(self):
7731 _IMP_kernel.disown_TripletModifier(self)
7732 return weakref.proxy(self)
7734 def do_get_inputs(self, m, pis):
7735 r"""do_get_inputs(TripletModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7736 return _IMP_kernel.TripletModifier_do_get_inputs(self, m, pis)
7738 def do_get_outputs(self, m, pis):
7739 r"""do_get_outputs(TripletModifier self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7740 return _IMP_kernel.TripletModifier_do_get_outputs(self, m, pis)
7743 r"""do_destroy(TripletModifier self)"""
7744 return _IMP_kernel.TripletModifier_do_destroy(self)
7747 _IMP_kernel.TripletModifier_swigregister(TripletModifier)
7748 class TripletScore(_ParticleInputs,
Object):
7749 r"""Proxy of C++ IMP::TripletScore class."""
7751 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7753 def __init__(self, *args):
7754 r"""__init__(TripletScore self, std::string name="TripletScore %1%") -> TripletScore"""
7755 if self.__class__ == TripletScore:
7759 _IMP_kernel.TripletScore_swiginit(self, _IMP_kernel.new_TripletScore(_self, *args))
7761 if self.__class__ != TripletScore:
7762 _director_objects.register(self)
7767 def evaluate_index(self, m, vt, da):
7768 r"""evaluate_index(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt, DerivativeAccumulator da) -> double"""
7769 return _IMP_kernel.TripletScore_evaluate_index(self, m, vt, da)
7771 def check_indexes(self, m, pis):
7772 r"""check_indexes(TripletScore self, Model m, IMP::ParticleIndexes const & pis) -> bool"""
7773 return _IMP_kernel.TripletScore_check_indexes(self, m, pis)
7775 def evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked=False):
7776 r"""evaluate_indexes(TripletScore self, Model m, IMP::ParticleIndexTriplets const & o, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
7777 return _IMP_kernel.TripletScore_evaluate_indexes(self, m, o, da, lower_bound, upper_bound, all_indexes_checked)
7779 def evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked=False):
7780 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, bool all_indexes_checked=False) -> double"""
7781 return _IMP_kernel.TripletScore_evaluate_indexes_scores(self, m, o, da, lower_bound, upper_bound, score, all_indexes_checked)
7783 def evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked=False):
7784 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, bool all_indexes_checked=False) -> double"""
7785 return _IMP_kernel.TripletScore_evaluate_indexes_delta(self, m, o, da, indexes, score, all_indexes_checked)
7787 def evaluate_if_good_index(self, m, vt, da, max):
7788 r"""evaluate_if_good_index(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt, DerivativeAccumulator da, double max) -> double"""
7789 return _IMP_kernel.TripletScore_evaluate_if_good_index(self, m, vt, da, max)
7791 def evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked=False):
7792 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, bool all_indexes_checked=False) -> double"""
7793 return _IMP_kernel.TripletScore_evaluate_if_good_indexes(self, m, o, da, max, lower_bound, upper_bound, all_indexes_checked)
7795 def create_current_decomposition(self, m, vt):
7796 r"""create_current_decomposition(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt) -> IMP::Restraints"""
7797 return _IMP_kernel.TripletScore_create_current_decomposition(self, m, vt)
7799 def do_create_current_decomposition(self, m, vt):
7800 r"""do_create_current_decomposition(TripletScore self, Model m, IMP::ParticleIndexTriplet const & vt) -> IMP::Restraints"""
7801 return _IMP_kernel.TripletScore_do_create_current_decomposition(self, m, vt)
7802 __swig_destroy__ = _IMP_kernel.delete_TripletScore
7805 r"""__str__(TripletScore self) -> std::string"""
7806 return _IMP_kernel.TripletScore___str__(self)
7809 r"""__repr__(TripletScore self) -> std::string"""
7810 return _IMP_kernel.TripletScore___repr__(self)
7814 return _object_cast_to_TripletScore(o)
7817 def get_type_name(self):
7818 return self.__class__.__name__
7819 def do_show(self, out):
7823 return VersionInfo(self.__module__,
7830 return _object_cast_to_TripletScore(o)
7832 def __disown__(self):
7834 _IMP_kernel.disown_TripletScore(self)
7835 return weakref.proxy(self)
7837 def do_get_inputs(self, m, pis):
7838 r"""do_get_inputs(TripletScore self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7839 return _IMP_kernel.TripletScore_do_get_inputs(self, m, pis)
7842 r"""do_destroy(TripletScore self)"""
7843 return _IMP_kernel.TripletScore_do_destroy(self)
7846 _IMP_kernel.TripletScore_swigregister(TripletScore)
7847 class TripletPredicate(_ParticleInputs,
Object):
7848 r"""Proxy of C++ IMP::TripletPredicate class."""
7850 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7852 def __init__(self, *args):
7853 r"""__init__(TripletPredicate self, std::string name="TripletPredicate %1%") -> TripletPredicate"""
7854 if self.__class__ == TripletPredicate:
7858 _IMP_kernel.TripletPredicate_swiginit(self, _IMP_kernel.new_TripletPredicate(_self, *args))
7860 if self.__class__ != TripletPredicate:
7861 _director_objects.register(self)
7866 def setup_for_get_value_index_in_batch(self, arg0):
7867 r"""setup_for_get_value_index_in_batch(TripletPredicate self, Model arg0)"""
7868 return _IMP_kernel.TripletPredicate_setup_for_get_value_index_in_batch(self, arg0)
7870 def get_value_index_in_batch(self, m, vt):
7871 r"""get_value_index_in_batch(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int"""
7872 return _IMP_kernel.TripletPredicate_get_value_index_in_batch(self, m, vt)
7874 def __call__(self, m, vt):
7875 r"""__call__(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int"""
7876 return _IMP_kernel.TripletPredicate___call__(self, m, vt)
7878 def get_value_index(self, *args):
7880 get_value_index(TripletPredicate self, Model m, IMP::ParticleIndexTriplet const & vt) -> int
7881 get_value_index(TripletPredicate self, Model m, IMP::ParticleIndexTriplets const & o) -> IMP::Ints
7883 return _IMP_kernel.TripletPredicate_get_value_index(self, *args)
7884 __swig_destroy__ = _IMP_kernel.delete_TripletPredicate
7887 r"""__str__(TripletPredicate self) -> std::string"""
7888 return _IMP_kernel.TripletPredicate___str__(self)
7891 r"""__repr__(TripletPredicate self) -> std::string"""
7892 return _IMP_kernel.TripletPredicate___repr__(self)
7896 return _object_cast_to_TripletPredicate(o)
7899 def get_type_name(self):
7900 return self.__class__.__name__
7901 def do_show(self, out):
7905 return VersionInfo(self.__module__,
7912 return _object_cast_to_TripletPredicate(o)
7914 def __disown__(self):
7916 _IMP_kernel.disown_TripletPredicate(self)
7917 return weakref.proxy(self)
7919 def do_get_inputs(self, m, pis):
7920 r"""do_get_inputs(TripletPredicate self, Model m, IMP::ParticleIndexes const & pis) -> IMP::ModelObjectsTemp"""
7921 return _IMP_kernel.TripletPredicate_do_get_inputs(self, m, pis)
7924 r"""do_destroy(TripletPredicate self)"""
7925 return _IMP_kernel.TripletPredicate_do_destroy(self)
7928 _IMP_kernel.TripletPredicate_swigregister(TripletPredicate)
7929 class TripletContainer(Container):
7930 r"""Proxy of C++ IMP::TripletContainer class."""
7932 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
7934 def apply_generic(self, m):
7935 r"""apply_generic(TripletContainer self, TripletModifier m)"""
7936 return _IMP_kernel.TripletContainer_apply_generic(self, m)
7938 def apply_generic_moved(self, m, moved_pis, reset_pis):
7939 r"""apply_generic_moved(TripletContainer self, TripletModifier m, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7940 return _IMP_kernel.TripletContainer_apply_generic_moved(self, m, moved_pis, reset_pis)
7942 def apply(self, sm):
7943 r"""apply(TripletContainer self, TripletModifier sm)"""
7944 return _IMP_kernel.TripletContainer_apply(self, sm)
7946 def apply_moved(self, sm, moved_pis, reset_pis):
7947 r"""apply_moved(TripletContainer self, TripletModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7948 return _IMP_kernel.TripletContainer_apply_moved(self, sm, moved_pis, reset_pis)
7950 def get_range_indexes(self):
7951 r"""get_range_indexes(TripletContainer self) -> IMP::ParticleIndexTriplets"""
7952 return _IMP_kernel.TripletContainer_get_range_indexes(self)
7954 def get_contents(self):
7955 r"""get_contents(TripletContainer self) -> IMP::ParticleIndexTriplets const &"""
7956 return _IMP_kernel.TripletContainer_get_contents(self)
7959 r"""get_indexes(TripletContainer self) -> IMP::ParticleIndexTriplets"""
7960 return _IMP_kernel.TripletContainer_get_indexes(self)
7962 def get(self, *args):
7964 get(TripletContainer self) -> IMP::ParticleTripletsTemp
7965 get(TripletContainer self, unsigned int i) -> IMP::ParticleTriplet
7967 return _IMP_kernel.TripletContainer_get(self, *args)
7969 def get_number(self):
7970 r"""get_number(TripletContainer self) -> unsigned int"""
7971 return _IMP_kernel.TripletContainer_get_number(self)
7973 def __init__(self, *args):
7975 __init__(TripletContainer self, Model m, std::string name="TripletContainer %1%") -> TripletContainer
7976 __init__(TripletContainer self) -> TripletContainer
7978 if self.__class__ == TripletContainer:
7982 _IMP_kernel.TripletContainer_swiginit(self, _IMP_kernel.new_TripletContainer(_self, *args))
7984 if self.__class__ != TripletContainer:
7985 _director_objects.register(self)
7990 def do_apply(self, sm):
7991 r"""do_apply(TripletContainer self, TripletModifier sm)"""
7992 return _IMP_kernel.TripletContainer_do_apply(self, sm)
7994 def do_apply_moved(self, sm, moved_pis, reset_pis):
7995 r"""do_apply_moved(TripletContainer self, TripletModifier sm, IMP::ParticleIndexes const & moved_pis, IMP::ParticleIndexes const & reset_pis)"""
7996 return _IMP_kernel.TripletContainer_do_apply_moved(self, sm, moved_pis, reset_pis)
7998 def do_get_provides_access(self):
7999 r"""do_get_provides_access(TripletContainer self) -> bool"""
8000 return _IMP_kernel.TripletContainer_do_get_provides_access(self)
8001 __swig_destroy__ = _IMP_kernel.delete_TripletContainer
8004 r"""__str__(TripletContainer self) -> std::string"""
8005 return _IMP_kernel.TripletContainer___str__(self)
8008 r"""__repr__(TripletContainer self) -> std::string"""
8009 return _IMP_kernel.TripletContainer___repr__(self)
8013 return _object_cast_to_TripletContainer(o)
8016 def get_type_name(self):
8017 return self.__class__.__name__
8018 def do_show(self, out):
8022 return VersionInfo(self.__module__,
8029 return _object_cast_to_TripletContainer(o)
8031 def __disown__(self):
8033 _IMP_kernel.disown_TripletContainer(self)
8034 return weakref.proxy(self)
8037 r"""do_destroy(TripletContainer self)"""
8038 return _IMP_kernel.TripletContainer_do_destroy(self)
8040 def handle_set_has_required_score_states(self, arg0):
8041 r"""handle_set_has_required_score_states(TripletContainer self, bool arg0)"""
8042 return _IMP_kernel.TripletContainer_handle_set_has_required_score_states(self, arg0)
8044 def do_get_inputs(self):
8045 r"""do_get_inputs(TripletContainer self) -> IMP::ModelObjectsTemp"""
8046 return _IMP_kernel.TripletContainer_do_get_inputs(self)
8048 def do_get_interactions(self):
8049 r"""do_get_interactions(TripletContainer self) -> IMP::ModelObjectsTemps"""
8050 return _IMP_kernel.TripletContainer_do_get_interactions(self)
8052 def do_get_contents_hash(self):
8053 r"""do_get_contents_hash(TripletContainer self) -> std::size_t"""
8054 return _IMP_kernel.TripletContainer_do_get_contents_hash(self)
8057 _IMP_kernel.TripletContainer_swigregister(TripletContainer)
8058 class _TripletContainerAdaptor(_InputAdaptor):
8059 r"""Proxy of C++ IMP::TripletContainerAdaptor class."""
8061 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8062 __repr__ = _swig_repr
8064 def __init__(self, *args):
8066 __init__(_TripletContainerAdaptor self) -> _TripletContainerAdaptor
8067 __init__(_TripletContainerAdaptor self, TripletContainer c) -> _TripletContainerAdaptor
8068 __init__(_TripletContainerAdaptor self, IMP::ParticleTripletsTemp const & t) -> _TripletContainerAdaptor
8070 _IMP_kernel._TripletContainerAdaptor_swiginit(self, _IMP_kernel.new__TripletContainerAdaptor(*args))
8072 def set_name_if_default(self, name):
8073 r"""set_name_if_default(_TripletContainerAdaptor self, std::string name)"""
8074 return _IMP_kernel._TripletContainerAdaptor_set_name_if_default(self, name)
8075 __swig_destroy__ = _IMP_kernel.delete__TripletContainerAdaptor
8078 _IMP_kernel._TripletContainerAdaptor_swigregister(_TripletContainerAdaptor)
8081 r"""write_particles_to_buffer(IMP::ParticlesTemp const & particles, IMP::FloatKeys const & keys) -> IMP::Vector< char,std::allocator< char > >"""
8082 return _IMP_kernel.write_particles_to_buffer(particles, keys)
8085 r"""read_particles_from_buffer(IMP::Vector< char,std::allocator< char > > const & buffer, IMP::ParticlesTemp const & particles, IMP::FloatKeys const & keys)"""
8086 return _IMP_kernel.read_particles_from_buffer(buffer, particles, keys)
8089 r"""get_particles(Model m, IMP::ParticleIndexes const & ps) -> IMP::ParticlesTemp"""
8090 return _IMP_kernel.get_particles(m, ps)
8094 get_indexes(IMP::ParticlesTemp const & ps) -> IMP::ParticleIndexes
8095 get_indexes(IMP::ParticlePairsTemp const & ps) -> IMP::ParticleIndexPairs
8097 return _IMP_kernel.get_indexes(*args)
8098 class _ParticleIndexAdaptor(object):
8099 r"""Proxy of C++ IMP::ParticleIndexAdaptor class."""
8101 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8102 __repr__ = _swig_repr
8104 def __init__(self, *args):
8106 __init__(_ParticleIndexAdaptor self, Particle p) -> _ParticleIndexAdaptor
8107 __init__(_ParticleIndexAdaptor self, ParticleIndex pi) -> _ParticleIndexAdaptor
8108 __init__(_ParticleIndexAdaptor self, Decorator d) -> _ParticleIndexAdaptor
8110 _IMP_kernel._ParticleIndexAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexAdaptor(*args))
8111 __swig_destroy__ = _IMP_kernel.delete__ParticleIndexAdaptor
8114 _IMP_kernel._ParticleIndexAdaptor_swigregister(_ParticleIndexAdaptor)
8115 class _ParticleIndexesAdaptor(_InputAdaptor):
8116 r"""Proxy of C++ IMP::ParticleIndexesAdaptor class."""
8118 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8119 __repr__ = _swig_repr
8121 def __init__(self, *args):
8123 __init__(_ParticleIndexesAdaptor self, IMP::ParticlesTemp const & ps) -> _ParticleIndexesAdaptor
8124 __init__(_ParticleIndexesAdaptor self, IMP::ParticleIndexes const & pi) -> _ParticleIndexesAdaptor
8125 __init__(_ParticleIndexesAdaptor self) -> _ParticleIndexesAdaptor
8127 _IMP_kernel._ParticleIndexesAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexesAdaptor(*args))
8128 __swig_destroy__ = _IMP_kernel.delete__ParticleIndexesAdaptor
8131 _IMP_kernel._ParticleIndexesAdaptor_swigregister(_ParticleIndexesAdaptor)
8132 class _ParticleIndexPairsAdaptor(object):
8133 r"""Proxy of C++ IMP::ParticleIndexPairsAdaptor class."""
8135 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8136 __repr__ = _swig_repr
8138 def __init__(self, *args):
8140 __init__(_ParticleIndexPairsAdaptor self, IMP::ParticlePairsTemp const & ps) -> _ParticleIndexPairsAdaptor
8141 __init__(_ParticleIndexPairsAdaptor self, IMP::ParticleIndexPairs const & pi) -> _ParticleIndexPairsAdaptor
8142 __init__(_ParticleIndexPairsAdaptor self) -> _ParticleIndexPairsAdaptor
8144 _IMP_kernel._ParticleIndexPairsAdaptor_swiginit(self, _IMP_kernel.new__ParticleIndexPairsAdaptor(*args))
8145 __swig_destroy__ = _IMP_kernel.delete__ParticleIndexPairsAdaptor
8148 _IMP_kernel._ParticleIndexPairsAdaptor_swigregister(_ParticleIndexPairsAdaptor)
8149 class _ConstRestraint(Restraint):
8150 r"""Proxy of C++ IMP::internal::_ConstRestraint class."""
8152 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8154 def __init__(self, *args):
8156 __init__(_ConstRestraint self, Model m, IMP::ParticleIndexes const & pis, double v) -> _ConstRestraint
8157 __init__(_ConstRestraint self) -> _ConstRestraint
8159 _IMP_kernel._ConstRestraint_swiginit(self, _IMP_kernel.new__ConstRestraint(*args))
8161 def get_value(self):
8162 r"""get_value(_ConstRestraint self) -> double"""
8163 return _IMP_kernel._ConstRestraint_get_value(self)
8165 def do_create_decomposition(self):
8166 r"""do_create_decomposition(_ConstRestraint self) -> IMP::Restraints"""
8167 return _IMP_kernel._ConstRestraint_do_create_decomposition(self)
8169 def do_get_inputs(self):
8170 r"""do_get_inputs(_ConstRestraint self) -> IMP::ModelObjectsTemp"""
8171 return _IMP_kernel._ConstRestraint_do_get_inputs(self)
8174 r"""get_version_info(_ConstRestraint self) -> VersionInfo"""
8175 return _IMP_kernel._ConstRestraint_get_version_info(self)
8176 __swig_destroy__ = _IMP_kernel.delete__ConstRestraint
8179 r"""__str__(_ConstRestraint self) -> std::string"""
8180 return _IMP_kernel._ConstRestraint___str__(self)
8183 r"""__repr__(_ConstRestraint self) -> std::string"""
8184 return _IMP_kernel._ConstRestraint___repr__(self)
8188 return _object_cast_to__ConstRestraint(o)
8191 def _get_as_binary(self):
8192 r"""_get_as_binary(_ConstRestraint self) -> PyObject *"""
8193 return _IMP_kernel._ConstRestraint__get_as_binary(self)
8195 def _set_from_binary(self, p):
8196 r"""_set_from_binary(_ConstRestraint self, PyObject * p)"""
8197 return _IMP_kernel._ConstRestraint__set_from_binary(self, p)
8199 def __getstate__(self):
8200 p = self._get_as_binary()
8201 if len(self.__dict__) > 1:
8202 d = self.__dict__.copy()
8207 def __setstate__(self, p):
8208 if not hasattr(self,
'this'):
8210 if isinstance(p, tuple):
8212 self.__dict__.update(d)
8213 return self._set_from_binary(p)
8217 _IMP_kernel._ConstRestraint_swigregister(_ConstRestraint)
8218 class _ConstSingletonScore(SingletonScore):
8219 r"""Proxy of C++ IMP::internal::_ConstSingletonScore class."""
8221 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8223 def __init__(self, *args):
8225 __init__(_ConstSingletonScore self, double v) -> _ConstSingletonScore
8226 __init__(_ConstSingletonScore self) -> _ConstSingletonScore
8228 _IMP_kernel._ConstSingletonScore_swiginit(self, _IMP_kernel.new__ConstSingletonScore(*args))
8230 def do_get_inputs(self, arg2, arg3):
8231 r"""do_get_inputs(_ConstSingletonScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
8232 return _IMP_kernel._ConstSingletonScore_do_get_inputs(self, arg2, arg3)
8234 def evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked=False):
8235 r"""evaluate_indexes(_ConstSingletonScore self, Model m, IMP::ParticleIndexes const & p, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
8236 return _IMP_kernel._ConstSingletonScore_evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked)
8238 def evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked=False):
8239 r"""evaluate_indexes_scores(_ConstSingletonScore self, Model m, IMP::ParticleIndexes const & p, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, std::vector< double,std::allocator< double > > & score, bool all_indexes_checked=False) -> double"""
8240 return _IMP_kernel._ConstSingletonScore_evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked)
8242 def evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked=False):
8243 r"""evaluate_indexes_delta(_ConstSingletonScore self, Model m, IMP::ParticleIndexes const & p, DerivativeAccumulator da, std::vector< unsigned int,std::allocator< unsigned int > > const & indexes, std::vector< double,std::allocator< double > > & score, bool all_indexes_checked=False) -> double"""
8244 return _IMP_kernel._ConstSingletonScore_evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked)
8246 def evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked=False):
8247 r"""evaluate_if_good_indexes(_ConstSingletonScore self, Model m, IMP::ParticleIndexes const & p, DerivativeAccumulator da, double max, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
8248 return _IMP_kernel._ConstSingletonScore_evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked)
8251 r"""get_version_info(_ConstSingletonScore self) -> VersionInfo"""
8252 return _IMP_kernel._ConstSingletonScore_get_version_info(self)
8253 __swig_destroy__ = _IMP_kernel.delete__ConstSingletonScore
8256 r"""__str__(_ConstSingletonScore self) -> std::string"""
8257 return _IMP_kernel._ConstSingletonScore___str__(self)
8260 r"""__repr__(_ConstSingletonScore self) -> std::string"""
8261 return _IMP_kernel._ConstSingletonScore___repr__(self)
8265 return _object_cast_to__ConstSingletonScore(o)
8268 def _get_as_binary(self):
8269 r"""_get_as_binary(_ConstSingletonScore self) -> PyObject *"""
8270 return _IMP_kernel._ConstSingletonScore__get_as_binary(self)
8272 def _set_from_binary(self, p):
8273 r"""_set_from_binary(_ConstSingletonScore self, PyObject * p)"""
8274 return _IMP_kernel._ConstSingletonScore__set_from_binary(self, p)
8276 def __getstate__(self):
8277 p = self._get_as_binary()
8278 if len(self.__dict__) > 1:
8279 d = self.__dict__.copy()
8284 def __setstate__(self, p):
8285 if not hasattr(self,
'this'):
8287 if isinstance(p, tuple):
8289 self.__dict__.update(d)
8290 return self._set_from_binary(p)
8294 _IMP_kernel._ConstSingletonScore_swigregister(_ConstSingletonScore)
8295 class _ConstPairScore(PairScore):
8296 r"""Proxy of C++ IMP::internal::_ConstPairScore class."""
8298 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8300 def __init__(self, *args):
8302 __init__(_ConstPairScore self, double v) -> _ConstPairScore
8303 __init__(_ConstPairScore self) -> _ConstPairScore
8305 _IMP_kernel._ConstPairScore_swiginit(self, _IMP_kernel.new__ConstPairScore(*args))
8307 def do_get_inputs(self, arg2, arg3):
8308 r"""do_get_inputs(_ConstPairScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
8309 return _IMP_kernel._ConstPairScore_do_get_inputs(self, arg2, arg3)
8311 def evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked=False):
8312 r"""evaluate_indexes(_ConstPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
8313 return _IMP_kernel._ConstPairScore_evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked)
8315 def evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked=False):
8316 r"""evaluate_indexes_scores(_ConstPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, std::vector< double,std::allocator< double > > & score, bool all_indexes_checked=False) -> double"""
8317 return _IMP_kernel._ConstPairScore_evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked)
8319 def evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked=False):
8320 r"""evaluate_indexes_delta(_ConstPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, std::vector< unsigned int,std::allocator< unsigned int > > const & indexes, std::vector< double,std::allocator< double > > & score, bool all_indexes_checked=False) -> double"""
8321 return _IMP_kernel._ConstPairScore_evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked)
8323 def evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked=False):
8324 r"""evaluate_if_good_indexes(_ConstPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, double max, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
8325 return _IMP_kernel._ConstPairScore_evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked)
8328 r"""get_version_info(_ConstPairScore self) -> VersionInfo"""
8329 return _IMP_kernel._ConstPairScore_get_version_info(self)
8330 __swig_destroy__ = _IMP_kernel.delete__ConstPairScore
8333 r"""__str__(_ConstPairScore self) -> std::string"""
8334 return _IMP_kernel._ConstPairScore___str__(self)
8337 r"""__repr__(_ConstPairScore self) -> std::string"""
8338 return _IMP_kernel._ConstPairScore___repr__(self)
8342 return _object_cast_to__ConstPairScore(o)
8345 def _get_as_binary(self):
8346 r"""_get_as_binary(_ConstPairScore self) -> PyObject *"""
8347 return _IMP_kernel._ConstPairScore__get_as_binary(self)
8349 def _set_from_binary(self, p):
8350 r"""_set_from_binary(_ConstPairScore self, PyObject * p)"""
8351 return _IMP_kernel._ConstPairScore__set_from_binary(self, p)
8353 def __getstate__(self):
8354 p = self._get_as_binary()
8355 if len(self.__dict__) > 1:
8356 d = self.__dict__.copy()
8361 def __setstate__(self, p):
8362 if not hasattr(self,
'this'):
8364 if isinstance(p, tuple):
8366 self.__dict__.update(d)
8367 return self._set_from_binary(p)
8371 _IMP_kernel._ConstPairScore_swigregister(_ConstPairScore)
8372 class _TrivialDecorator(Decorator):
8373 r"""Proxy of C++ IMP::internal::_TrivialDecorator class."""
8375 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8377 def __init__(self, *args):
8379 __init__(_TrivialDecorator self) -> _TrivialDecorator
8380 __init__(_TrivialDecorator self, Model m, ParticleIndex id) -> _TrivialDecorator
8381 __init__(_TrivialDecorator self, _ParticleAdaptor d) -> _TrivialDecorator
8383 _IMP_kernel._TrivialDecorator_swiginit(self, _IMP_kernel.new__TrivialDecorator(*args))
8385 def show(self, *args):
8386 r"""show(_TrivialDecorator self, _ostream out=std::cout)"""
8387 return _IMP_kernel._TrivialDecorator_show(self, *args)
8390 def setup_particle(*args):
8392 setup_particle(Model m, ParticleIndex pi) -> _TrivialDecorator
8393 setup_particle(_ParticleAdaptor pa) -> _TrivialDecorator
8395 return _IMP_kernel._TrivialDecorator_setup_particle(*args)
8398 def get_is_setup(*args):
8400 get_is_setup(_ParticleAdaptor p) -> bool
8401 get_is_setup(Model m, ParticleIndex pi) -> bool
8403 return _IMP_kernel._TrivialDecorator_get_is_setup(*args)
8407 add_attribute(_TrivialDecorator self, FloatKey k, IMP::Float v, bool opt)
8408 add_attribute(_TrivialDecorator self, FloatKey a0, IMP::Float a1)
8409 add_attribute(_TrivialDecorator self, IntKey a0, IMP::Int a1)
8410 add_attribute(_TrivialDecorator self, FloatsKey a0, IMP::Floats a1)
8411 add_attribute(_TrivialDecorator self, IntsKey a0, IMP::Ints a1)
8412 add_attribute(_TrivialDecorator self, StringKey a0, IMP::String a1)
8413 add_attribute(_TrivialDecorator self, ParticleIndexKey a0, Particle a1)
8414 add_attribute(_TrivialDecorator self, ObjectKey a0, Object a1)
8415 add_attribute(_TrivialDecorator self, SparseFloatKey a0, IMP::Float a1)
8416 add_attribute(_TrivialDecorator self, SparseIntKey a0, IMP::Int a1)
8417 add_attribute(_TrivialDecorator self, SparseStringKey a0, IMP::String a1)
8418 add_attribute(_TrivialDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8420 return _IMP_kernel._TrivialDecorator_add_attribute(self, *args)
8422 def get_value(self, *args):
8424 get_value(_TrivialDecorator self, FloatKey a0) -> IMP::Float
8425 get_value(_TrivialDecorator self, IntKey a0) -> IMP::Int
8426 get_value(_TrivialDecorator self, FloatsKey a0) -> IMP::Floats
8427 get_value(_TrivialDecorator self, IntsKey a0) -> IMP::Ints
8428 get_value(_TrivialDecorator self, StringKey a0) -> IMP::String
8429 get_value(_TrivialDecorator self, ParticleIndexKey a0) -> Particle
8430 get_value(_TrivialDecorator self, ObjectKey a0) -> Object
8431 get_value(_TrivialDecorator self, SparseFloatKey a0) -> IMP::Float
8432 get_value(_TrivialDecorator self, SparseIntKey a0) -> IMP::Int
8433 get_value(_TrivialDecorator self, SparseStringKey a0) -> IMP::String
8434 get_value(_TrivialDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
8436 return _IMP_kernel._TrivialDecorator_get_value(self, *args)
8438 def set_value(self, *args):
8440 set_value(_TrivialDecorator self, FloatKey a0, IMP::Float a1)
8441 set_value(_TrivialDecorator self, IntKey a0, IMP::Int a1)
8442 set_value(_TrivialDecorator self, FloatsKey a0, IMP::Floats a1)
8443 set_value(_TrivialDecorator self, IntsKey a0, IMP::Ints a1)
8444 set_value(_TrivialDecorator self, StringKey a0, IMP::String a1)
8445 set_value(_TrivialDecorator self, ParticleIndexKey a0, Particle a1)
8446 set_value(_TrivialDecorator self, ObjectKey a0, Object a1)
8447 set_value(_TrivialDecorator self, SparseFloatKey a0, IMP::Float a1)
8448 set_value(_TrivialDecorator self, SparseIntKey a0, IMP::Int a1)
8449 set_value(_TrivialDecorator self, SparseStringKey a0, IMP::String a1)
8450 set_value(_TrivialDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8452 return _IMP_kernel._TrivialDecorator_set_value(self, *args)
8456 remove_attribute(_TrivialDecorator self, FloatKey a0)
8457 remove_attribute(_TrivialDecorator self, IntKey a0)
8458 remove_attribute(_TrivialDecorator self, FloatsKey a0)
8459 remove_attribute(_TrivialDecorator self, IntsKey a0)
8460 remove_attribute(_TrivialDecorator self, StringKey a0)
8461 remove_attribute(_TrivialDecorator self, ParticleIndexKey a0)
8462 remove_attribute(_TrivialDecorator self, ObjectKey a0)
8463 remove_attribute(_TrivialDecorator self, SparseFloatKey a0)
8464 remove_attribute(_TrivialDecorator self, SparseIntKey a0)
8465 remove_attribute(_TrivialDecorator self, SparseStringKey a0)
8466 remove_attribute(_TrivialDecorator self, SparseParticleIndexKey a0)
8468 return _IMP_kernel._TrivialDecorator_remove_attribute(self, *args)
8470 def has_attribute(self, *args):
8472 has_attribute(_TrivialDecorator self, FloatKey a0) -> bool
8473 has_attribute(_TrivialDecorator self, IntKey a0) -> bool
8474 has_attribute(_TrivialDecorator self, FloatsKey a0) -> bool
8475 has_attribute(_TrivialDecorator self, IntsKey a0) -> bool
8476 has_attribute(_TrivialDecorator self, StringKey a0) -> bool
8477 has_attribute(_TrivialDecorator self, ParticleIndexKey a0) -> bool
8478 has_attribute(_TrivialDecorator self, ObjectKey a0) -> bool
8479 has_attribute(_TrivialDecorator self, SparseFloatKey a0) -> bool
8480 has_attribute(_TrivialDecorator self, SparseIntKey a0) -> bool
8481 has_attribute(_TrivialDecorator self, SparseStringKey a0) -> bool
8482 has_attribute(_TrivialDecorator self, SparseParticleIndexKey a0) -> bool
8484 return _IMP_kernel._TrivialDecorator_has_attribute(self, *args)
8486 def get_derivative(self, a0):
8487 r"""get_derivative(_TrivialDecorator self, FloatKey a0) -> double"""
8488 return _IMP_kernel._TrivialDecorator_get_derivative(self, a0)
8491 r"""get_name(_TrivialDecorator self) -> std::string"""
8492 return _IMP_kernel._TrivialDecorator_get_name(self)
8495 r"""clear_caches(_TrivialDecorator self)"""
8496 return _IMP_kernel._TrivialDecorator_clear_caches(self)
8498 def set_name(self, a0):
8499 r"""set_name(_TrivialDecorator self, std::string a0)"""
8500 return _IMP_kernel._TrivialDecorator_set_name(self, a0)
8503 r"""set_check_level(_TrivialDecorator self, IMP::CheckLevel a0)"""
8504 return _IMP_kernel._TrivialDecorator_set_check_level(self, a0)
8506 def add_to_derivative(self, a0, a1, a2):
8507 r"""add_to_derivative(_TrivialDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
8508 return _IMP_kernel._TrivialDecorator_add_to_derivative(self, a0, a1, a2)
8511 r"""set_is_optimized(_TrivialDecorator self, FloatKey a0, bool a1)"""
8512 return _IMP_kernel._TrivialDecorator_set_is_optimized(self, a0, a1)
8514 def get_is_optimized(self, a0):
8515 r"""get_is_optimized(_TrivialDecorator self, FloatKey a0) -> bool"""
8516 return _IMP_kernel._TrivialDecorator_get_is_optimized(self, a0)
8518 def get_check_level(self):
8519 r"""get_check_level(_TrivialDecorator self) -> IMP::CheckLevel"""
8520 return _IMP_kernel._TrivialDecorator_get_check_level(self)
8522 def __eq__(self, *args):
8524 __eq__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8525 __eq__(_TrivialDecorator self, Particle d) -> bool
8527 return _IMP_kernel._TrivialDecorator___eq__(self, *args)
8529 def __ne__(self, *args):
8531 __ne__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8532 __ne__(_TrivialDecorator self, Particle d) -> bool
8534 return _IMP_kernel._TrivialDecorator___ne__(self, *args)
8536 def __le__(self, *args):
8538 __le__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8539 __le__(_TrivialDecorator self, Particle d) -> bool
8541 return _IMP_kernel._TrivialDecorator___le__(self, *args)
8543 def __lt__(self, *args):
8545 __lt__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8546 __lt__(_TrivialDecorator self, Particle d) -> bool
8548 return _IMP_kernel._TrivialDecorator___lt__(self, *args)
8550 def __ge__(self, *args):
8552 __ge__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8553 __ge__(_TrivialDecorator self, Particle d) -> bool
8555 return _IMP_kernel._TrivialDecorator___ge__(self, *args)
8557 def __gt__(self, *args):
8559 __gt__(_TrivialDecorator self, _TrivialDecorator o) -> bool
8560 __gt__(_TrivialDecorator self, Particle d) -> bool
8562 return _IMP_kernel._TrivialDecorator___gt__(self, *args)
8565 r"""__hash__(_TrivialDecorator self) -> std::size_t"""
8566 return _IMP_kernel._TrivialDecorator___hash__(self)
8569 r"""__str__(_TrivialDecorator self) -> std::string"""
8570 return _IMP_kernel._TrivialDecorator___str__(self)
8573 r"""__repr__(_TrivialDecorator self) -> std::string"""
8574 return _IMP_kernel._TrivialDecorator___repr__(self)
8576 def _get_as_binary(self):
8577 r"""_get_as_binary(_TrivialDecorator self) -> PyObject *"""
8578 return _IMP_kernel._TrivialDecorator__get_as_binary(self)
8580 def _set_from_binary(self, p):
8581 r"""_set_from_binary(_TrivialDecorator self, PyObject * p)"""
8582 return _IMP_kernel._TrivialDecorator__set_from_binary(self, p)
8584 def __getstate__(self):
8585 p = self._get_as_binary()
8586 if len(self.__dict__) > 1:
8587 d = self.__dict__.copy()
8592 def __setstate__(self, p):
8593 if not hasattr(self,
'this'):
8595 if isinstance(p, tuple):
8597 self.__dict__.update(d)
8598 return self._set_from_binary(p)
8600 __swig_destroy__ = _IMP_kernel.delete__TrivialDecorator
8603 _IMP_kernel._TrivialDecorator_swigregister(_TrivialDecorator)
8604 class _TrivialDerivedDecorator(_TrivialDecorator):
8605 r"""Proxy of C++ IMP::internal::_TrivialDerivedDecorator class."""
8607 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8609 def __init__(self, *args):
8611 __init__(_TrivialDerivedDecorator self) -> _TrivialDerivedDecorator
8612 __init__(_TrivialDerivedDecorator self, Model m, ParticleIndex id) -> _TrivialDerivedDecorator
8613 __init__(_TrivialDerivedDecorator self, _ParticleAdaptor d) -> _TrivialDerivedDecorator
8615 _IMP_kernel._TrivialDerivedDecorator_swiginit(self, _IMP_kernel.new__TrivialDerivedDecorator(*args))
8617 def show(self, *args):
8618 r"""show(_TrivialDerivedDecorator self, _ostream out=std::cout)"""
8619 return _IMP_kernel._TrivialDerivedDecorator_show(self, *args)
8622 def setup_particle(*args):
8624 setup_particle(Model m, ParticleIndex pi) -> _TrivialDerivedDecorator
8625 setup_particle(_ParticleAdaptor pa) -> _TrivialDerivedDecorator
8627 return _IMP_kernel._TrivialDerivedDecorator_setup_particle(*args)
8630 def get_is_setup(*args):
8632 get_is_setup(_ParticleAdaptor p) -> bool
8633 get_is_setup(Model m, ParticleIndex pi) -> bool
8635 return _IMP_kernel._TrivialDerivedDecorator_get_is_setup(*args)
8639 add_attribute(_TrivialDerivedDecorator self, FloatKey k, IMP::Float v, bool opt)
8640 add_attribute(_TrivialDerivedDecorator self, FloatKey a0, IMP::Float a1)
8641 add_attribute(_TrivialDerivedDecorator self, IntKey a0, IMP::Int a1)
8642 add_attribute(_TrivialDerivedDecorator self, FloatsKey a0, IMP::Floats a1)
8643 add_attribute(_TrivialDerivedDecorator self, IntsKey a0, IMP::Ints a1)
8644 add_attribute(_TrivialDerivedDecorator self, StringKey a0, IMP::String a1)
8645 add_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0, Particle a1)
8646 add_attribute(_TrivialDerivedDecorator self, ObjectKey a0, Object a1)
8647 add_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0, IMP::Float a1)
8648 add_attribute(_TrivialDerivedDecorator self, SparseIntKey a0, IMP::Int a1)
8649 add_attribute(_TrivialDerivedDecorator self, SparseStringKey a0, IMP::String a1)
8650 add_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8652 return _IMP_kernel._TrivialDerivedDecorator_add_attribute(self, *args)
8654 def get_value(self, *args):
8656 get_value(_TrivialDerivedDecorator self, FloatKey a0) -> IMP::Float
8657 get_value(_TrivialDerivedDecorator self, IntKey a0) -> IMP::Int
8658 get_value(_TrivialDerivedDecorator self, FloatsKey a0) -> IMP::Floats
8659 get_value(_TrivialDerivedDecorator self, IntsKey a0) -> IMP::Ints
8660 get_value(_TrivialDerivedDecorator self, StringKey a0) -> IMP::String
8661 get_value(_TrivialDerivedDecorator self, ParticleIndexKey a0) -> Particle
8662 get_value(_TrivialDerivedDecorator self, ObjectKey a0) -> Object
8663 get_value(_TrivialDerivedDecorator self, SparseFloatKey a0) -> IMP::Float
8664 get_value(_TrivialDerivedDecorator self, SparseIntKey a0) -> IMP::Int
8665 get_value(_TrivialDerivedDecorator self, SparseStringKey a0) -> IMP::String
8666 get_value(_TrivialDerivedDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
8668 return _IMP_kernel._TrivialDerivedDecorator_get_value(self, *args)
8670 def set_value(self, *args):
8672 set_value(_TrivialDerivedDecorator self, FloatKey a0, IMP::Float a1)
8673 set_value(_TrivialDerivedDecorator self, IntKey a0, IMP::Int a1)
8674 set_value(_TrivialDerivedDecorator self, FloatsKey a0, IMP::Floats a1)
8675 set_value(_TrivialDerivedDecorator self, IntsKey a0, IMP::Ints a1)
8676 set_value(_TrivialDerivedDecorator self, StringKey a0, IMP::String a1)
8677 set_value(_TrivialDerivedDecorator self, ParticleIndexKey a0, Particle a1)
8678 set_value(_TrivialDerivedDecorator self, ObjectKey a0, Object a1)
8679 set_value(_TrivialDerivedDecorator self, SparseFloatKey a0, IMP::Float a1)
8680 set_value(_TrivialDerivedDecorator self, SparseIntKey a0, IMP::Int a1)
8681 set_value(_TrivialDerivedDecorator self, SparseStringKey a0, IMP::String a1)
8682 set_value(_TrivialDerivedDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8684 return _IMP_kernel._TrivialDerivedDecorator_set_value(self, *args)
8688 remove_attribute(_TrivialDerivedDecorator self, FloatKey a0)
8689 remove_attribute(_TrivialDerivedDecorator self, IntKey a0)
8690 remove_attribute(_TrivialDerivedDecorator self, FloatsKey a0)
8691 remove_attribute(_TrivialDerivedDecorator self, IntsKey a0)
8692 remove_attribute(_TrivialDerivedDecorator self, StringKey a0)
8693 remove_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0)
8694 remove_attribute(_TrivialDerivedDecorator self, ObjectKey a0)
8695 remove_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0)
8696 remove_attribute(_TrivialDerivedDecorator self, SparseIntKey a0)
8697 remove_attribute(_TrivialDerivedDecorator self, SparseStringKey a0)
8698 remove_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0)
8700 return _IMP_kernel._TrivialDerivedDecorator_remove_attribute(self, *args)
8702 def has_attribute(self, *args):
8704 has_attribute(_TrivialDerivedDecorator self, FloatKey a0) -> bool
8705 has_attribute(_TrivialDerivedDecorator self, IntKey a0) -> bool
8706 has_attribute(_TrivialDerivedDecorator self, FloatsKey a0) -> bool
8707 has_attribute(_TrivialDerivedDecorator self, IntsKey a0) -> bool
8708 has_attribute(_TrivialDerivedDecorator self, StringKey a0) -> bool
8709 has_attribute(_TrivialDerivedDecorator self, ParticleIndexKey a0) -> bool
8710 has_attribute(_TrivialDerivedDecorator self, ObjectKey a0) -> bool
8711 has_attribute(_TrivialDerivedDecorator self, SparseFloatKey a0) -> bool
8712 has_attribute(_TrivialDerivedDecorator self, SparseIntKey a0) -> bool
8713 has_attribute(_TrivialDerivedDecorator self, SparseStringKey a0) -> bool
8714 has_attribute(_TrivialDerivedDecorator self, SparseParticleIndexKey a0) -> bool
8716 return _IMP_kernel._TrivialDerivedDecorator_has_attribute(self, *args)
8718 def get_derivative(self, a0):
8719 r"""get_derivative(_TrivialDerivedDecorator self, FloatKey a0) -> double"""
8720 return _IMP_kernel._TrivialDerivedDecorator_get_derivative(self, a0)
8723 r"""get_name(_TrivialDerivedDecorator self) -> std::string"""
8724 return _IMP_kernel._TrivialDerivedDecorator_get_name(self)
8727 r"""clear_caches(_TrivialDerivedDecorator self)"""
8728 return _IMP_kernel._TrivialDerivedDecorator_clear_caches(self)
8730 def set_name(self, a0):
8731 r"""set_name(_TrivialDerivedDecorator self, std::string a0)"""
8732 return _IMP_kernel._TrivialDerivedDecorator_set_name(self, a0)
8735 r"""set_check_level(_TrivialDerivedDecorator self, IMP::CheckLevel a0)"""
8736 return _IMP_kernel._TrivialDerivedDecorator_set_check_level(self, a0)
8738 def add_to_derivative(self, a0, a1, a2):
8739 r"""add_to_derivative(_TrivialDerivedDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
8740 return _IMP_kernel._TrivialDerivedDecorator_add_to_derivative(self, a0, a1, a2)
8743 r"""set_is_optimized(_TrivialDerivedDecorator self, FloatKey a0, bool a1)"""
8744 return _IMP_kernel._TrivialDerivedDecorator_set_is_optimized(self, a0, a1)
8746 def get_is_optimized(self, a0):
8747 r"""get_is_optimized(_TrivialDerivedDecorator self, FloatKey a0) -> bool"""
8748 return _IMP_kernel._TrivialDerivedDecorator_get_is_optimized(self, a0)
8750 def get_check_level(self):
8751 r"""get_check_level(_TrivialDerivedDecorator self) -> IMP::CheckLevel"""
8752 return _IMP_kernel._TrivialDerivedDecorator_get_check_level(self)
8754 def __eq__(self, *args):
8756 __eq__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8757 __eq__(_TrivialDerivedDecorator self, Particle d) -> bool
8759 return _IMP_kernel._TrivialDerivedDecorator___eq__(self, *args)
8761 def __ne__(self, *args):
8763 __ne__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8764 __ne__(_TrivialDerivedDecorator self, Particle d) -> bool
8766 return _IMP_kernel._TrivialDerivedDecorator___ne__(self, *args)
8768 def __le__(self, *args):
8770 __le__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8771 __le__(_TrivialDerivedDecorator self, Particle d) -> bool
8773 return _IMP_kernel._TrivialDerivedDecorator___le__(self, *args)
8775 def __lt__(self, *args):
8777 __lt__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8778 __lt__(_TrivialDerivedDecorator self, Particle d) -> bool
8780 return _IMP_kernel._TrivialDerivedDecorator___lt__(self, *args)
8782 def __ge__(self, *args):
8784 __ge__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8785 __ge__(_TrivialDerivedDecorator self, Particle d) -> bool
8787 return _IMP_kernel._TrivialDerivedDecorator___ge__(self, *args)
8789 def __gt__(self, *args):
8791 __gt__(_TrivialDerivedDecorator self, _TrivialDerivedDecorator o) -> bool
8792 __gt__(_TrivialDerivedDecorator self, Particle d) -> bool
8794 return _IMP_kernel._TrivialDerivedDecorator___gt__(self, *args)
8797 r"""__hash__(_TrivialDerivedDecorator self) -> std::size_t"""
8798 return _IMP_kernel._TrivialDerivedDecorator___hash__(self)
8801 r"""__str__(_TrivialDerivedDecorator self) -> std::string"""
8802 return _IMP_kernel._TrivialDerivedDecorator___str__(self)
8805 r"""__repr__(_TrivialDerivedDecorator self) -> std::string"""
8806 return _IMP_kernel._TrivialDerivedDecorator___repr__(self)
8808 def _get_as_binary(self):
8809 r"""_get_as_binary(_TrivialDerivedDecorator self) -> PyObject *"""
8810 return _IMP_kernel._TrivialDerivedDecorator__get_as_binary(self)
8812 def _set_from_binary(self, p):
8813 r"""_set_from_binary(_TrivialDerivedDecorator self, PyObject * p)"""
8814 return _IMP_kernel._TrivialDerivedDecorator__set_from_binary(self, p)
8816 def __getstate__(self):
8817 p = self._get_as_binary()
8818 if len(self.__dict__) > 1:
8819 d = self.__dict__.copy()
8824 def __setstate__(self, p):
8825 if not hasattr(self,
'this'):
8827 if isinstance(p, tuple):
8829 self.__dict__.update(d)
8830 return self._set_from_binary(p)
8832 __swig_destroy__ = _IMP_kernel.delete__TrivialDerivedDecorator
8835 _IMP_kernel._TrivialDerivedDecorator_swigregister(_TrivialDerivedDecorator)
8836 class _TrivialTraitsDecorator(Decorator):
8837 r"""Proxy of C++ IMP::internal::_TrivialTraitsDecorator class."""
8839 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
8841 def get_decorator_traits(self):
8842 r"""get_decorator_traits(_TrivialTraitsDecorator self) -> StringKey"""
8843 return _IMP_kernel._TrivialTraitsDecorator_get_decorator_traits(self)
8846 def get_default_decorator_traits():
8847 r"""get_default_decorator_traits() -> StringKey"""
8848 return _IMP_kernel._TrivialTraitsDecorator_get_default_decorator_traits()
8850 def __init__(self, *args):
8852 __init__(_TrivialTraitsDecorator self) -> _TrivialTraitsDecorator
8853 __init__(_TrivialTraitsDecorator self, Model m, ParticleIndex id, StringKey tr=get_default_key()) -> _TrivialTraitsDecorator
8854 __init__(_TrivialTraitsDecorator self, _ParticleAdaptor d, StringKey tr=get_default_key()) -> _TrivialTraitsDecorator
8856 _IMP_kernel._TrivialTraitsDecorator_swiginit(self, _IMP_kernel.new__TrivialTraitsDecorator(*args))
8858 def show(self, *args):
8859 r"""show(_TrivialTraitsDecorator self, _ostream out=std::cout)"""
8860 return _IMP_kernel._TrivialTraitsDecorator_show(self, *args)
8863 def setup_particle(*args):
8865 setup_particle(Model m, ParticleIndex pi, StringKey tr=IMP::internal::_TrivialTraitsDecorator::get_default_decorator_traits()) -> _TrivialTraitsDecorator
8866 setup_particle(_ParticleAdaptor d, StringKey tr=IMP::internal::_TrivialTraitsDecorator::get_default_decorator_traits()) -> _TrivialTraitsDecorator
8868 return _IMP_kernel._TrivialTraitsDecorator_setup_particle(*args)
8871 def get_is_setup(*args):
8873 get_is_setup(_ParticleAdaptor p, StringKey tr=get_default_key()) -> bool
8874 get_is_setup(Model m, ParticleIndex pi, StringKey k=get_default_key()) -> bool
8876 return _IMP_kernel._TrivialTraitsDecorator_get_is_setup(*args)
8879 def get_default_key():
8880 r"""get_default_key() -> StringKey"""
8881 return _IMP_kernel._TrivialTraitsDecorator_get_default_key()
8885 add_attribute(_TrivialTraitsDecorator self, FloatKey k, IMP::Float v, bool opt)
8886 add_attribute(_TrivialTraitsDecorator self, FloatKey a0, IMP::Float a1)
8887 add_attribute(_TrivialTraitsDecorator self, IntKey a0, IMP::Int a1)
8888 add_attribute(_TrivialTraitsDecorator self, FloatsKey a0, IMP::Floats a1)
8889 add_attribute(_TrivialTraitsDecorator self, IntsKey a0, IMP::Ints a1)
8890 add_attribute(_TrivialTraitsDecorator self, StringKey a0, IMP::String a1)
8891 add_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0, Particle a1)
8892 add_attribute(_TrivialTraitsDecorator self, ObjectKey a0, Object a1)
8893 add_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0, IMP::Float a1)
8894 add_attribute(_TrivialTraitsDecorator self, SparseIntKey a0, IMP::Int a1)
8895 add_attribute(_TrivialTraitsDecorator self, SparseStringKey a0, IMP::String a1)
8896 add_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8898 return _IMP_kernel._TrivialTraitsDecorator_add_attribute(self, *args)
8900 def get_value(self, *args):
8902 get_value(_TrivialTraitsDecorator self, FloatKey a0) -> IMP::Float
8903 get_value(_TrivialTraitsDecorator self, IntKey a0) -> IMP::Int
8904 get_value(_TrivialTraitsDecorator self, FloatsKey a0) -> IMP::Floats
8905 get_value(_TrivialTraitsDecorator self, IntsKey a0) -> IMP::Ints
8906 get_value(_TrivialTraitsDecorator self, StringKey a0) -> IMP::String
8907 get_value(_TrivialTraitsDecorator self, ParticleIndexKey a0) -> Particle
8908 get_value(_TrivialTraitsDecorator self, ObjectKey a0) -> Object
8909 get_value(_TrivialTraitsDecorator self, SparseFloatKey a0) -> IMP::Float
8910 get_value(_TrivialTraitsDecorator self, SparseIntKey a0) -> IMP::Int
8911 get_value(_TrivialTraitsDecorator self, SparseStringKey a0) -> IMP::String
8912 get_value(_TrivialTraitsDecorator self, SparseParticleIndexKey a0) -> ParticleIndex
8914 return _IMP_kernel._TrivialTraitsDecorator_get_value(self, *args)
8916 def set_value(self, *args):
8918 set_value(_TrivialTraitsDecorator self, FloatKey a0, IMP::Float a1)
8919 set_value(_TrivialTraitsDecorator self, IntKey a0, IMP::Int a1)
8920 set_value(_TrivialTraitsDecorator self, FloatsKey a0, IMP::Floats a1)
8921 set_value(_TrivialTraitsDecorator self, IntsKey a0, IMP::Ints a1)
8922 set_value(_TrivialTraitsDecorator self, StringKey a0, IMP::String a1)
8923 set_value(_TrivialTraitsDecorator self, ParticleIndexKey a0, Particle a1)
8924 set_value(_TrivialTraitsDecorator self, ObjectKey a0, Object a1)
8925 set_value(_TrivialTraitsDecorator self, SparseFloatKey a0, IMP::Float a1)
8926 set_value(_TrivialTraitsDecorator self, SparseIntKey a0, IMP::Int a1)
8927 set_value(_TrivialTraitsDecorator self, SparseStringKey a0, IMP::String a1)
8928 set_value(_TrivialTraitsDecorator self, SparseParticleIndexKey a0, ParticleIndex a1)
8930 return _IMP_kernel._TrivialTraitsDecorator_set_value(self, *args)
8934 remove_attribute(_TrivialTraitsDecorator self, FloatKey a0)
8935 remove_attribute(_TrivialTraitsDecorator self, IntKey a0)
8936 remove_attribute(_TrivialTraitsDecorator self, FloatsKey a0)
8937 remove_attribute(_TrivialTraitsDecorator self, IntsKey a0)
8938 remove_attribute(_TrivialTraitsDecorator self, StringKey a0)
8939 remove_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0)
8940 remove_attribute(_TrivialTraitsDecorator self, ObjectKey a0)
8941 remove_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0)
8942 remove_attribute(_TrivialTraitsDecorator self, SparseIntKey a0)
8943 remove_attribute(_TrivialTraitsDecorator self, SparseStringKey a0)
8944 remove_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0)
8946 return _IMP_kernel._TrivialTraitsDecorator_remove_attribute(self, *args)
8948 def has_attribute(self, *args):
8950 has_attribute(_TrivialTraitsDecorator self, FloatKey a0) -> bool
8951 has_attribute(_TrivialTraitsDecorator self, IntKey a0) -> bool
8952 has_attribute(_TrivialTraitsDecorator self, FloatsKey a0) -> bool
8953 has_attribute(_TrivialTraitsDecorator self, IntsKey a0) -> bool
8954 has_attribute(_TrivialTraitsDecorator self, StringKey a0) -> bool
8955 has_attribute(_TrivialTraitsDecorator self, ParticleIndexKey a0) -> bool
8956 has_attribute(_TrivialTraitsDecorator self, ObjectKey a0) -> bool
8957 has_attribute(_TrivialTraitsDecorator self, SparseFloatKey a0) -> bool
8958 has_attribute(_TrivialTraitsDecorator self, SparseIntKey a0) -> bool
8959 has_attribute(_TrivialTraitsDecorator self, SparseStringKey a0) -> bool
8960 has_attribute(_TrivialTraitsDecorator self, SparseParticleIndexKey a0) -> bool
8962 return _IMP_kernel._TrivialTraitsDecorator_has_attribute(self, *args)
8964 def get_derivative(self, a0):
8965 r"""get_derivative(_TrivialTraitsDecorator self, FloatKey a0) -> double"""
8966 return _IMP_kernel._TrivialTraitsDecorator_get_derivative(self, a0)
8969 r"""get_name(_TrivialTraitsDecorator self) -> std::string"""
8970 return _IMP_kernel._TrivialTraitsDecorator_get_name(self)
8973 r"""clear_caches(_TrivialTraitsDecorator self)"""
8974 return _IMP_kernel._TrivialTraitsDecorator_clear_caches(self)
8976 def set_name(self, a0):
8977 r"""set_name(_TrivialTraitsDecorator self, std::string a0)"""
8978 return _IMP_kernel._TrivialTraitsDecorator_set_name(self, a0)
8981 r"""set_check_level(_TrivialTraitsDecorator self, IMP::CheckLevel a0)"""
8982 return _IMP_kernel._TrivialTraitsDecorator_set_check_level(self, a0)
8984 def add_to_derivative(self, a0, a1, a2):
8985 r"""add_to_derivative(_TrivialTraitsDecorator self, FloatKey a0, double a1, DerivativeAccumulator a2)"""
8986 return _IMP_kernel._TrivialTraitsDecorator_add_to_derivative(self, a0, a1, a2)
8989 r"""set_is_optimized(_TrivialTraitsDecorator self, FloatKey a0, bool a1)"""
8990 return _IMP_kernel._TrivialTraitsDecorator_set_is_optimized(self, a0, a1)
8992 def get_is_optimized(self, a0):
8993 r"""get_is_optimized(_TrivialTraitsDecorator self, FloatKey a0) -> bool"""
8994 return _IMP_kernel._TrivialTraitsDecorator_get_is_optimized(self, a0)
8996 def get_check_level(self):
8997 r"""get_check_level(_TrivialTraitsDecorator self) -> IMP::CheckLevel"""
8998 return _IMP_kernel._TrivialTraitsDecorator_get_check_level(self)
9000 def __eq__(self, *args):
9002 __eq__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
9003 __eq__(_TrivialTraitsDecorator self, Particle d) -> bool
9005 return _IMP_kernel._TrivialTraitsDecorator___eq__(self, *args)
9007 def __ne__(self, *args):
9009 __ne__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
9010 __ne__(_TrivialTraitsDecorator self, Particle d) -> bool
9012 return _IMP_kernel._TrivialTraitsDecorator___ne__(self, *args)
9014 def __le__(self, *args):
9016 __le__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
9017 __le__(_TrivialTraitsDecorator self, Particle d) -> bool
9019 return _IMP_kernel._TrivialTraitsDecorator___le__(self, *args)
9021 def __lt__(self, *args):
9023 __lt__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
9024 __lt__(_TrivialTraitsDecorator self, Particle d) -> bool
9026 return _IMP_kernel._TrivialTraitsDecorator___lt__(self, *args)
9028 def __ge__(self, *args):
9030 __ge__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
9031 __ge__(_TrivialTraitsDecorator self, Particle d) -> bool
9033 return _IMP_kernel._TrivialTraitsDecorator___ge__(self, *args)
9035 def __gt__(self, *args):
9037 __gt__(_TrivialTraitsDecorator self, _TrivialTraitsDecorator o) -> bool
9038 __gt__(_TrivialTraitsDecorator self, Particle d) -> bool
9040 return _IMP_kernel._TrivialTraitsDecorator___gt__(self, *args)
9043 r"""__hash__(_TrivialTraitsDecorator self) -> std::size_t"""
9044 return _IMP_kernel._TrivialTraitsDecorator___hash__(self)
9047 r"""__str__(_TrivialTraitsDecorator self) -> std::string"""
9048 return _IMP_kernel._TrivialTraitsDecorator___str__(self)
9051 r"""__repr__(_TrivialTraitsDecorator self) -> std::string"""
9052 return _IMP_kernel._TrivialTraitsDecorator___repr__(self)
9053 __swig_destroy__ = _IMP_kernel.delete__TrivialTraitsDecorator
9056 _IMP_kernel._TrivialTraitsDecorator_swigregister(_TrivialTraitsDecorator)
9058 def __lshift__(*args):
9060 __lshift__(_ostream out, _TrivialDecorator n) -> _ostream
9061 __lshift__(_ostream out, _TrivialDerivedDecorator n) -> _ostream
9062 __lshift__(_ostream out, _TrivialTraitsDecorator n) -> _ostream
9064 return _IMP_kernel.__lshift__(*args)
9065 class _ConstOptimizer(Optimizer):
9066 r"""Proxy of C++ IMP::internal::_ConstOptimizer class."""
9068 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9070 def __init__(self, *args):
9072 __init__(_ConstOptimizer self, Model m) -> _ConstOptimizer
9073 __init__(_ConstOptimizer self) -> _ConstOptimizer
9075 _IMP_kernel._ConstOptimizer_swiginit(self, _IMP_kernel.new__ConstOptimizer(*args))
9077 def do_optimize(self, max_steps):
9078 r"""do_optimize(_ConstOptimizer self, unsigned int max_steps) -> IMP::Float"""
9079 return _IMP_kernel._ConstOptimizer_do_optimize(self, max_steps)
9082 r"""get_version_info(_ConstOptimizer self) -> VersionInfo"""
9083 return _IMP_kernel._ConstOptimizer_get_version_info(self)
9084 __swig_destroy__ = _IMP_kernel.delete__ConstOptimizer
9087 r"""__str__(_ConstOptimizer self) -> std::string"""
9088 return _IMP_kernel._ConstOptimizer___str__(self)
9091 r"""__repr__(_ConstOptimizer self) -> std::string"""
9092 return _IMP_kernel._ConstOptimizer___repr__(self)
9096 return _object_cast_to__ConstOptimizer(o)
9099 def _get_as_binary(self):
9100 r"""_get_as_binary(_ConstOptimizer self) -> PyObject *"""
9101 return _IMP_kernel._ConstOptimizer__get_as_binary(self)
9103 def _set_from_binary(self, p):
9104 r"""_set_from_binary(_ConstOptimizer self, PyObject * p)"""
9105 return _IMP_kernel._ConstOptimizer__set_from_binary(self, p)
9107 def __getstate__(self):
9108 p = self._get_as_binary()
9109 if len(self.__dict__) > 1:
9110 d = self.__dict__.copy()
9115 def __setstate__(self, p):
9116 if not hasattr(self,
'this'):
9118 if isinstance(p, tuple):
9120 self.__dict__.update(d)
9121 return self._set_from_binary(p)
9125 _IMP_kernel._ConstOptimizer_swigregister(_ConstOptimizer)
9128 r"""get_particle(Particle p) -> Particle"""
9129 return _IMP_kernel.get_particle(p)
9131 def _decorator_test(p):
9132 r"""_decorator_test(Particle p)"""
9133 return _IMP_kernel._decorator_test(p)
9135 def _overloaded_decorator(*args):
9137 _overloaded_decorator(_TrivialDecorator a) -> int
9138 _overloaded_decorator(_TrivialDerivedDecorator a) -> int
9140 return _IMP_kernel._overloaded_decorator(*args)
9142 def _take_particles(*args):
9144 _take_particles(IMP::Particles const & ps) -> unsigned int
9145 _take_particles(Model m, IMP::Particles const & ps) -> unsigned int
9146 _take_particles(Model m, IMP::Particles const & ps, TextOutput out) -> unsigned int
9148 return _IMP_kernel._take_particles(*args)
9150 def _give_particles(m):
9151 r"""_give_particles(Model m) -> IMP::Particles const &"""
9152 return _IMP_kernel._give_particles(m)
9154 def _pass_particles(ps):
9155 r"""_pass_particles(IMP::Particles const & ps) -> IMP::Particles const &"""
9156 return _IMP_kernel._pass_particles(ps)
9158 def _pass_particle(ps):
9159 r"""_pass_particle(Particle ps) -> Particle"""
9160 return _IMP_kernel._pass_particle(ps)
9162 def _pass_particle_pair(pp):
9163 r"""_pass_particle_pair(IMP::ParticlePair const & pp) -> IMP::ParticlePair const &"""
9164 return _IMP_kernel._pass_particle_pair(pp)
9166 def _give_particles_copy(m):
9167 r"""_give_particles_copy(Model m) -> IMP::Particles"""
9168 return _IMP_kernel._give_particles_copy(m)
9170 def _pass_float_keys(input):
9171 r"""_pass_float_keys(IMP::FloatKeys const & input) -> IMP::FloatKeys"""
9172 return _IMP_kernel._pass_float_keys(input)
9176 _pass(IMP::Particles const & p) -> IMP::Particles const
9177 _pass(IMP::Restraints const & p) -> IMP::Restraints const &
9179 return _IMP_kernel._pass(*args)
9181 def _pass_decorators(p):
9182 r"""_pass_decorators(IMP::internal::_TrivialDecorators const & p) -> IMP::internal::_TrivialDecorators const &"""
9183 return _IMP_kernel._pass_decorators(p)
9185 def _pass_decorator_traits(p):
9186 r"""_pass_decorator_traits(IMP::internal::_TrivialTraitsDecorators const & p) -> IMP::internal::_TrivialTraitsDecorators const &"""
9187 return _IMP_kernel._pass_decorator_traits(p)
9189 def _pass_particle_pairs(p):
9190 r"""_pass_particle_pairs(IMP::ParticlePairsTemp const & p) -> IMP::ParticlePairsTemp"""
9191 return _IMP_kernel._pass_particle_pairs(p)
9193 def _pass_particle_index_pairs(p):
9194 r"""_pass_particle_index_pairs(IMP::ParticleIndexPairs const & p) -> IMP::ParticleIndexPairs"""
9195 return _IMP_kernel._pass_particle_index_pairs(p)
9197 def _pass_model_objects(p):
9198 r"""_pass_model_objects(IMP::ModelObjectsTemp const & p) -> IMP::ModelObjectsTemp"""
9199 return _IMP_kernel._pass_model_objects(p)
9201 def _pass_particles_temps(ps):
9202 r"""_pass_particles_temps(IMP::ParticlesTemps const & ps) -> IMP::ParticlesTemps"""
9203 return _IMP_kernel._pass_particles_temps(ps)
9205 def _test_overload(*args):
9207 _test_overload(IMP::Particles const & ps) -> int
9208 _test_overload(IMP::Restraints const & ps) -> int
9210 return _IMP_kernel._test_overload(*args)
9212 def _get_range(m, k):
9213 r"""_get_range(Model m, FloatKey k) -> IMP::FloatRange"""
9214 return _IMP_kernel._get_range(m, k)
9216 def _create_particles_from_pdb(name, m):
9217 r"""_create_particles_from_pdb(std::string name, Model m) -> IMP::ParticleIndexes"""
9218 return _IMP_kernel._create_particles_from_pdb(name, m)
9219 class _LogPairScore(PairScore):
9220 r"""Proxy of C++ IMP::internal::_LogPairScore class."""
9222 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9223 __repr__ = _swig_repr
9226 r"""__init__(_LogPairScore self) -> _LogPairScore"""
9227 _IMP_kernel._LogPairScore_swiginit(self, _IMP_kernel.new__LogPairScore())
9229 def do_get_inputs(self, arg2, arg3):
9230 r"""do_get_inputs(_LogPairScore self, Model arg2, IMP::ParticleIndexes const & arg3) -> IMP::ModelObjectsTemp"""
9231 return _IMP_kernel._LogPairScore_do_get_inputs(self, arg2, arg3)
9233 def evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked=False):
9234 r"""evaluate_indexes(_LogPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
9235 return _IMP_kernel._LogPairScore_evaluate_indexes(self, m, p, da, lower_bound, upper_bound, all_indexes_checked)
9237 def evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked=False):
9238 r"""evaluate_indexes_scores(_LogPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, unsigned int lower_bound, unsigned int upper_bound, std::vector< double,std::allocator< double > > & score, bool all_indexes_checked=False) -> double"""
9239 return _IMP_kernel._LogPairScore_evaluate_indexes_scores(self, m, p, da, lower_bound, upper_bound, score, all_indexes_checked)
9241 def evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked=False):
9242 r"""evaluate_indexes_delta(_LogPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, std::vector< unsigned int,std::allocator< unsigned int > > const & indexes, std::vector< double,std::allocator< double > > & score, bool all_indexes_checked=False) -> double"""
9243 return _IMP_kernel._LogPairScore_evaluate_indexes_delta(self, m, p, da, indexes, score, all_indexes_checked)
9245 def evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked=False):
9246 r"""evaluate_if_good_indexes(_LogPairScore self, Model m, IMP::ParticleIndexPairs const & p, DerivativeAccumulator da, double max, unsigned int lower_bound, unsigned int upper_bound, bool all_indexes_checked=False) -> double"""
9247 return _IMP_kernel._LogPairScore_evaluate_if_good_indexes(self, m, p, da, max, lower_bound, upper_bound, all_indexes_checked)
9250 r"""get_version_info(_LogPairScore self) -> VersionInfo"""
9251 return _IMP_kernel._LogPairScore_get_version_info(self)
9252 __swig_destroy__ = _IMP_kernel.delete__LogPairScore
9254 def get_particle_pairs(self):
9255 r"""get_particle_pairs(_LogPairScore self) -> IMP::ParticlePairsTemp"""
9256 return _IMP_kernel._LogPairScore_get_particle_pairs(self)
9259 r"""clear(_LogPairScore self)"""
9260 return _IMP_kernel._LogPairScore_clear(self)
9262 def get_contains(self, pp):
9263 r"""get_contains(_LogPairScore self, IMP::ParticlePair const & pp) -> bool"""
9264 return _IMP_kernel._LogPairScore_get_contains(self, pp)
9267 _IMP_kernel._LogPairScore_swigregister(_LogPairScore)
9269 def _overloaded_particles(*args):
9271 _overloaded_particles(Particle arg1)
9272 _overloaded_particles(IMP::Particles const & arg1)
9273 _overloaded_particles(IMP::ParticlesTemp const & arg1)
9274 _overloaded_particles(Model arg1, IMP::ParticleIndexes const & arg2)
9275 _overloaded_particles(IMP::internal::_TrivialDecorators const & arg1)
9276 _overloaded_particles(_TrivialDecorator arg1)
9278 return _IMP_kernel._overloaded_particles(*args)
9279 class _ImplicitParticles(object):
9280 r"""Proxy of C++ IMP::internal::_ImplicitParticles class."""
9282 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9283 __repr__ = _swig_repr
9285 def __init__(self, *args):
9287 __init__(_ImplicitParticles self, Particle arg2) -> _ImplicitParticles
9288 __init__(_ImplicitParticles self, IMP::Particles const & arg2) -> _ImplicitParticles
9289 __init__(_ImplicitParticles self, IMP::ParticlesTemp const & arg2) -> _ImplicitParticles
9290 __init__(_ImplicitParticles self, Model arg2, IMP::ParticleIndexes const & arg3) -> _ImplicitParticles
9291 __init__(_ImplicitParticles self, IMP::internal::_TrivialDecorators const & arg2) -> _ImplicitParticles
9292 __init__(_ImplicitParticles self, _TrivialDecorator arg2) -> _ImplicitParticles
9294 _IMP_kernel._ImplicitParticles_swiginit(self, _IMP_kernel.new__ImplicitParticles(*args))
9295 __swig_destroy__ = _IMP_kernel.delete__ImplicitParticles
9298 _IMP_kernel._ImplicitParticles_swigregister(_ImplicitParticles)
9300 def _implicit_particles(arg1):
9301 r"""_implicit_particles(_ImplicitParticles arg1)"""
9302 return _IMP_kernel._implicit_particles(arg1)
9304 def _take_particle_adaptor(pa):
9305 r"""_take_particle_adaptor(_ParticleAdaptor pa) -> ParticleIndex"""
9306 return _IMP_kernel._take_particle_adaptor(pa)
9308 def _take_particle_indexes_adaptor(pa):
9309 r"""_take_particle_indexes_adaptor(_ParticleIndexesAdaptor pa) -> IMP::ParticleIndexes"""
9310 return _IMP_kernel._take_particle_indexes_adaptor(pa)
9311 class ScopedSetFloatAttribute(_RAII):
9312 r"""Proxy of C++ IMP::ScopedSetAttribute< IMP::FloatKey,IMP::Float > class."""
9314 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9316 def __init__(self, *args):
9318 __init__(ScopedSetFloatAttribute self) -> ScopedSetFloatAttribute
9319 __init__(ScopedSetFloatAttribute self, Particle p, FloatKey key, double const & value) -> ScopedSetFloatAttribute
9321 _IMP_kernel.ScopedSetFloatAttribute_swiginit(self, _IMP_kernel.new_ScopedSetFloatAttribute(*args))
9323 def set(self, p, key, value):
9324 r"""set(ScopedSetFloatAttribute self, Particle p, FloatKey key, double const & value)"""
9325 return _IMP_kernel.ScopedSetFloatAttribute_set(self, p, key, value)
9328 r"""reset(ScopedSetFloatAttribute self)"""
9329 return _IMP_kernel.ScopedSetFloatAttribute_reset(self)
9330 __swig_destroy__ = _IMP_kernel.delete_ScopedSetFloatAttribute
9332 def show(self, *args):
9333 r"""show(ScopedSetFloatAttribute self, _ostream out=std::cout)"""
9334 return _IMP_kernel.ScopedSetFloatAttribute_show(self, *args)
9337 r"""__str__(ScopedSetFloatAttribute self) -> std::string"""
9338 return _IMP_kernel.ScopedSetFloatAttribute___str__(self)
9341 r"""__repr__(ScopedSetFloatAttribute self) -> std::string"""
9342 return _IMP_kernel.ScopedSetFloatAttribute___repr__(self)
9345 _IMP_kernel.ScopedSetFloatAttribute_swigregister(ScopedSetFloatAttribute)
9347 def _get_module_data_path(module, file_name):
9348 r"""_get_module_data_path(std::string module, std::string file_name) -> std::string"""
9349 return _IMP_kernel._get_module_data_path(module, file_name)
9351 def _get_module_example_path(module, file_name):
9352 r"""_get_module_example_path(std::string module, std::string file_name) -> std::string"""
9353 return _IMP_kernel._get_module_example_path(module, file_name)
9362 if sys.platform ==
'win32' and 'IMP_LD_PATH' in os.environ:
9363 dirs = os.environ[
'IMP_LD_PATH'].split(
":")
9364 pathcomps = os.environ[
'PATH'].split(
";")
9366 if d
not in pathcomps:
9367 os.environ[
'PATH'] = d +
';' + os.environ[
'PATH']
9375 """Allow command line tools to easily implement multiple commands.
9376 Typically, an IMP command line tool will use an instance of this class
9377 to provide a consistent interface to multiple distinct commands
9378 from a single binary, rather than providing a potentially large
9379 number of binaries. This is similar to the way a number of common
9380 command line tools outside of IMP function (e.g. Git provides a single
9381 `git` tool which implements multiple commands - `git add`, `git commit`,
9382 `git push` and so on).
9384 Each command is implemented with a Python module of the same name
9385 that can be imported from the module (for example, if `module_name`
9386 is `IMP.foo`, the `bar` command is provided by the `IMP.foo.bar` Python
9387 module, which would usually be found as `modules/foo/pyext/src/bar.py`).
9388 Each such module should have a docstring and a `%main()` method
9389 that takes no arguments (the module should also call its `%main()` method
9390 if it is run directly, i.e. with something like
9391 `if __name__=="__main__": %main()`). The encompassing module
9392 (`IMP.foo` in the example) should define `_all_commands` as a Python
9393 list of all valid commands.
9395 See the `multifit` and `cnmultifit` command line tools for example
9399 def __init__(self, short_help, long_help, module_name):
9401 @param short_help A few words that describe the command line tool.
9402 @param long_help Longer text, used in the `help` command.
9403 @param module_name Name of the module (e.g. `IMP.foo`) that
9404 implements the commands.
9406 self.short_help = short_help
9407 self.long_help = long_help
9408 self.module_name = module_name
9409 self._all_commands = self.import_module()._all_commands
9410 self._progname = os.path.basename(sys.argv[0])
9413 """Call this method to act upon the user-provided command line"""
9414 if len(sys.argv) <= 1:
9415 print(self.short_help +
" Use '%s help' for help." % self._progname)
9417 command = sys.argv[1]
9418 if command
in (
'help',
'--help',
'-h'):
9419 if len(sys.argv) == 3:
9420 self.show_command_help(sys.argv[2])
9423 elif command ==
'--version':
9425 elif command
in self._all_commands:
9426 self.do_command(command)
9428 self.unknown_command(command)
9430 def import_module(self, mod=None):
9431 modname = self.module_name
9433 modname +=
"." + mod
9434 return __import__(modname, {}, {}, [
''])
9436 def unknown_command(self, command):
9437 print(
"Unknown command: '%s'" % command)
9438 print(
"Use '%s help' for help." % self._progname)
9441 def _get_version(self):
9444 def show_version(self):
9445 print(self._progname +
' ' + self._get_version())
9447 def show_help(self):
9448 ver = self._get_version()
9449 print(
"%s, version %s." % (self._progname, ver))
9450 print(self.long_help +
"""
9452 This program is part of IMP, the Integrative Modeling Platform,
9454 For additional information about IMP, see <https://integrativemodeling.org>.
9456 Usage: %s <command> [options] [args]
9459 commands = self._all_commands[:] + [
'help']
9461 cmdlen = max([len(c)
for c
in commands])
9464 doc =
'Get help on using %s.' % self._progname
9466 doc = self.import_module(c).__doc__
or "<no help>"
9467 c +=
' ' * (cmdlen - len(c))
9468 print(
' ' + c +
' ' + doc)
9470 Use "%s help <command>" for detailed help on any command
9471 or "%s --version" to see the version number.""" % (self._progname,
9474 def do_command(self, command):
9475 mod = self.import_module(command)
9476 sys.argv[0] = self._progname +
' ' + command
9480 def show_command_help(self, command):
9481 if command ==
'help':
9483 elif command
in self._all_commands
or command ==
'help':
9484 mod = self.import_module(command)
9485 sys.argv = [self._progname +
' ' + command,
'--help']
9488 self.unknown_command(command)
9495 g = networkx.DiGraph()
9496 if len(ig.get_vertices()) == 0:
9505 return self.p.get_name()
9507 def __call__(self, name):
9508 return self.p.__call__(name)
9510 for vi
in ig.get_vertices():
9511 n = ig.get_vertex_name(vi)
9512 g.add_node(NodeWrapper(n))
9513 for vi
in ig.get_vertices():
9514 n = ig.get_vertex_name(vi)
9515 for ni
in ig.get_out_neighbors(vi):
9516 nn = ig.get_vertex_name(ni)
9517 g.add_edge(NodeWrapper(n), NodeWrapper(nn))
9524 n0 = name.get_name()
9527 n1 = str(n0).replace(
'"',
'')
9528 n2 = n1.replace(
"\n",
'')
9531 from altgraph
import Graph, Dot
9532 graph = Graph.Graph()
9533 for i, v
in enumerate(g.get_vertices()):
9535 for i, v
in enumerate(g.get_vertices()):
9536 for n
in g.get_out_neighbors(v):
9537 graph.add_edge(v, n)
9538 dot = Dot.Dot(graph)
9539 for i, v
in enumerate(g.get_vertices()):
9540 dot.node_style(i, label=clean(g.get_vertex_name(v)))
9548 st = g.get_graphviz_string()
9549 with open(tfn,
"w")
as fh:
9552 print(
"running dot")
9553 sp = subprocess.Popen([
"dot",
"-Tpdf", tfn,
"-o" + tfon])
9557 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")
9560 if platform.system() ==
"Darwin":
9563 cmd = [
"gv",
"acroread",
"xpdf"]
9566 print(
"launching viewer " + c)
9568 subprocess.check_call([c, tfon])
9574 print(
"Could not display file. It is saved at " + tfon)
9584 """Mark a Python module as deprecated.
9585 @note The `module` argument would normally be `__name__`.
9586 @see [deprecation support](@ref deprecation)."""
9588 "Module %s is deprecated. %s\n" % (module, help_message))
9591 """Python decorator to mark a class as deprecated.
9592 @see [deprecation support](@ref deprecation)."""
9594 orig_init = obj.__init__
9597 @functools.wraps(orig_init, (
'__name__',
'__doc__'))
9598 def __init__(obj, *args, **keys):
9600 % (type(obj), help_message))
9601 orig_init(obj, *args, **keys)
9602 obj.__init__ = __init__
9607 """Python decorator to mark a method as deprecated.
9608 @see [deprecation support](@ref deprecation)."""
9609 def out_wrapper(obj):
9610 @functools.wraps(obj)
9611 def wrapper(cls, *args, **keys):
9613 % (obj.__name__, type(cls), help_message))
9614 return obj(cls, *args, **keys)
9619 """Python decorator to mark a function as deprecated.
9620 @see [deprecation support](@ref deprecation)."""
9621 def out_wrapper(obj):
9622 @functools.wraps(obj)
9623 def wrapper(*args, **keys):
9625 % (obj.__name__, help_message))
9626 return obj(*args, **keys)
9630 @contextlib.contextmanager
9632 """Context manager to temporarily allow (or disallow) deprecated code.
9633 @see [deprecation support](@ref deprecation)."""
9640 def _get_all_flags(ntokens):
9641 r"""_get_all_flags(unsigned int ntokens) -> IMP::Strings"""
9642 return _IMP_kernel._get_all_flags(ntokens)
9644 def _print_internal_help(out, description):
9645 r"""_print_internal_help(_ostream out, std::string description)"""
9646 return _IMP_kernel._print_internal_help(out, description)
9652 class _PassThroughAction(argparse.Action):
9653 """Pass an argument through to the IMP Boost parser"""
9654 def __call__(self, parser, namespace, values, option_string=None):
9655 parser._boost_command_line.append(option_string)
9657 parser._boost_command_line.append(values)
9660 if option_string
in (
'-h',
'--help',
'--help_advanced',
'--version'):
9661 parser._handle_boost()
9665 """IMP-specific subclass of argparse.ArgumentParser.
9666 This adds options common to all IMP applications
9667 (see IMP::setup_from_argv()).
9670 def __init__(self, *args, **kwargs):
9672 kwargs[
'add_help'] =
False
9673 super().__init__(*args, **kwargs)
9674 for ntoken
in (0, 1):
9675 flags = _get_all_flags(ntoken)
9677 arg = [
'-h',
'--help']
if f ==
'help' else [
'--' + f]
9678 self.add_argument(*arg, help=argparse.SUPPRESS,
9679 nargs=
None if ntoken
else 0,
9680 action=_PassThroughAction,
9681 default=argparse.SUPPRESS)
9684 """Parse the command line and return optional and positional arguments.
9685 This functions in the same way as the method in the base class
9686 argparse.ArgumentParser, except that it also processes optional
9687 arguments common to all IMP applications (these are not returned
9688 in `args`, but can be obtained in the usual way, e.g. by calling
9689 IMP::get_string_flag()).
9692 self._boost_command_line = [sys.argv[0]]
9694 if len(self._boost_command_line) > 1:
9695 self._handle_boost()
9698 def _get_description(self):
9699 return self.format_help() +
"\nOptions common to all IMP applications:"
9701 def print_help(self, file=None):
9702 _print_internal_help(file
if file
else sys.stdout,
9703 self._get_description())
9705 def _handle_boost(self):
9707 self._get_description(),
9710 class RandomNumberGenerator(object):
9711 r"""Proxy of C++ IMP::RandomNumberGenerator class."""
9713 thisown = property(
lambda x: x.this.own(),
lambda x, v: x.this.own(v), doc=
"The membership flag")
9714 __repr__ = _swig_repr
9717 r"""seed(RandomNumberGenerator self, int x)"""
9718 return _IMP_kernel.RandomNumberGenerator_seed(self, x)
9721 r"""__call__(RandomNumberGenerator self) -> int"""
9722 return _IMP_kernel.RandomNumberGenerator___call__(self)
9725 r"""__init__(RandomNumberGenerator self) -> RandomNumberGenerator"""
9726 _IMP_kernel.RandomNumberGenerator_swiginit(self, _IMP_kernel.new_RandomNumberGenerator())
9727 __swig_destroy__ = _IMP_kernel.delete_RandomNumberGenerator
9730 _IMP_kernel.RandomNumberGenerator_swigregister(RandomNumberGenerator)
9734 get_random_float_uniform() -> float
9735 get_random_float_uniform(float min, float max) -> float
9737 return _IMP_kernel.get_random_float_uniform(*args)
9741 get_random_double_uniform() -> double
9742 get_random_double_uniform(double min, double max) -> double
9744 return _IMP_kernel.get_random_double_uniform(*args)
9746 def get_random_floats_normal(n, mean=0.0, stddev=1.0):
9747 r"""get_random_floats_normal(unsigned int n, float mean=0.0, float stddev=1.0) -> IMP::Vector< float,std::allocator< float > >"""
9748 return _IMP_kernel.get_random_floats_normal(n, mean, stddev)
9750 def get_random_doubles_normal(n, mean=0.0, stddev=1.0):
9751 r"""get_random_doubles_normal(unsigned int n, double mean=0.0, double stddev=1.0) -> IMP::Vector< double,std::allocator< double > >"""
9752 return _IMP_kernel.get_random_doubles_normal(n, mean, stddev)
9754 def get_random_floats_uniform(n):
9755 r"""get_random_floats_uniform(unsigned int n) -> IMP::Vector< float,std::allocator< float > >"""
9756 return _IMP_kernel.get_random_floats_uniform(n)
9758 def get_random_doubles_uniform(n):
9759 r"""get_random_doubles_uniform(unsigned int n) -> IMP::Vector< double,std::allocator< double > >"""
9760 return _IMP_kernel.get_random_doubles_uniform(n)
9763 r"""get_random_seed() -> boost::uint64_t"""
9764 return _IMP_kernel.get_random_seed()
9766 def _get_derivatives_numpy(m, k, m_pyobj):
9767 r"""_get_derivatives_numpy(Model m, FloatKey k, PyObject * m_pyobj) -> PyObject *"""
9768 return _IMP_kernel._get_derivatives_numpy(m, k, m_pyobj)
9770 def _get_floats_numpy(m, k, m_pyobj):
9771 r"""_get_floats_numpy(Model m, FloatKey k, PyObject * m_pyobj) -> PyObject *"""
9772 return _IMP_kernel._get_floats_numpy(m, k, m_pyobj)
9774 def _get_ints_numpy(m, k, m_pyobj):
9775 r"""_get_ints_numpy(Model m, IntKey k, PyObject * m_pyobj) -> PyObject *"""
9776 return _IMP_kernel._get_ints_numpy(m, k, m_pyobj)
9778 def _get_spheres_numpy(m, m_pyobj):
9779 r"""_get_spheres_numpy(Model m, PyObject * m_pyobj) -> PyObject *"""
9780 return _IMP_kernel._get_spheres_numpy(m, m_pyobj)
9782 def _get_sphere_derivatives_numpy(m, m_pyobj):
9783 r"""_get_sphere_derivatives_numpy(Model m, PyObject * m_pyobj) -> PyObject *"""
9784 return _IMP_kernel._get_sphere_derivatives_numpy(m, m_pyobj)
9788 ParticleIndex = numpy.intc
9794 r"""get_module_version() -> std::string const"""
9795 return _IMP_kernel.get_module_version()
9798 r"""get_example_path(std::string fname) -> std::string"""
9799 return _IMP_kernel.get_example_path(fname)
9802 r"""get_data_path(std::string fname) -> std::string"""
9803 return _IMP_kernel.get_data_path(fname)
9805 from .
import _version_check
9810 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.